[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oTBRCA-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/BRCA-TP/11541508/BRCA-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/BRCA-TP/11550286/transformed.cor.cli.txt"

nPatients in clinical file=1043, in cluster file=1079, common to both=1025
[1]   67 1025
[1] "AMP PEAK  1(1P22.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          235                           790 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          235                           790 
[1] "AMP PEAK  2(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          746                           279 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          746                           279 
[1] "AMP PEAK  3(1Q44) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        744                         281 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        744                         281 
[1] "AMP PEAK  4(3P25.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          193                           832 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          193                           832 
[1] "AMP PEAK  5(3Q26.32) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           325                            700 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           325                            700 
[1] "AMP PEAK  6(4Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          158                           867 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          158                           867 
[1] "AMP PEAK  7(5P15.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           372                            653 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           372                            653 
[1] "AMP PEAK  8(6P23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        285                         740 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        285                         740 
[1] "AMP PEAK  9(6Q21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        192                         833 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        192                         833 
[1] "AMP PEAK 10(8P11.23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           390                            635 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           390                            635 
[1] "AMP PEAK 11(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           402                            623 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           402                            623 
[1] "AMP PEAK 12(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           651                            374 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           651                            374 
[1] "AMP PEAK 13(10P15.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           297                            728 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           297                            728 
[1] "AMP PEAK 14(10Q22.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           149                            876 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           149                            876 
[1] "AMP PEAK 15(11P13) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         215                          810 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         215                          810 
[1] "AMP PEAK 16(11Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           381                            644 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           381                            644 
[1] "AMP PEAK 17(11Q14.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           252                            773 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           252                            773 
[1] "AMP PEAK 18(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            271                             754 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            271                             754 
[1] "AMP PEAK 19(12Q15) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         265                          760 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         265                          760 
[1] "AMP PEAK 20(13Q34) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         172                          853 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         172                          853 
[1] "AMP PEAK 21(14Q21.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           207                            818 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           207                            818 
[1] "AMP PEAK 22(15Q26.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           187                            838 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           187                            838 
[1] "AMP PEAK 23(17P11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                           143                            882 
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                           143                            882 
[1] "AMP PEAK 24(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                         319                          706 
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                         319                          706 
[1] "AMP PEAK 25(17Q23.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                           407                            618 
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                           407                            618 
[1] "AMP PEAK 26(19P13.12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                            218                             807 
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                            218                             807 
[1] "AMP PEAK 27(19Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                         271                          754 
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                         271                          754 
[1] "AMP PEAK 28(19Q13.42) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                            264                             761 
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                            264                             761 
[1] "AMP PEAK 29(20Q13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                           523                            502 
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                           523                            502 
[1] "DEL PEAK  1(1P36.13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           427                            598 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           427                            598 
[1] "DEL PEAK  2(1P22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                          345                           680 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                          345                           680 
[1] "DEL PEAK  3(2Q37.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                          304                           721 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                          304                           721 
[1] "DEL PEAK  4(3P21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                           334                            691 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                           334                            691 
[1] "DEL PEAK  5(4P16.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                          323                           702 
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                          323                           702 
[1] "DEL PEAK  6(4Q35.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                          326                           699 
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                          326                           699 
[1] "DEL PEAK  7(5Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                          267                           758 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                          267                           758 
[1] "DEL PEAK  8(5Q21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                          259                           766 
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                          259                           766 
[1] "DEL PEAK  9(6P25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                          194                           831 
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                          194                           831 
[1] "DEL PEAK 10(6Q15) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                        341                         684 
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                        341                         684 
[1] "DEL PEAK 11(6Q27) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                        358                         667 
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                        358                         667 
[1] "DEL PEAK 12(7P22.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                          133                           892 
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                          133                           892 
[1] "DEL PEAK 13(7Q36.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                          195                           830 
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                          195                           830 
[1] "DEL PEAK 14(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          532                           493 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          532                           493 
[1] "DEL PEAK 15(8P11.21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                           188                            837 
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                           188                            837 
[1] "DEL PEAK 16(9P23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                        311                         714 
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                        311                         714 
[1] "DEL PEAK 17(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                          346                           679 
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                          346                           679 
[1] "DEL PEAK 18(9Q21.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                           287                            738 
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                           287                            738 
[1] "DEL PEAK 19(9Q34.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                          285                           740 
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                          285                           740 
[1] "DEL PEAK 20(10Q23.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                            308                             717 
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                            308                             717 
[1] "DEL PEAK 21(10Q26.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                           307                            718 
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                           307                            718 
[1] "DEL PEAK 22(11P15.5) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                           296                            729 
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                           296                            729 
[1] "DEL PEAK 23(11Q23.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                           520                            505 
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                           520                            505 
[1] "DEL PEAK 24(12P13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                           179                            846 
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                           179                            846 
[1] "DEL PEAK 25(12Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                           194                            831 
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                           194                            831 
[1] "DEL PEAK 26(12Q24.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                            198                             827 
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                            198                             827 
[1] "DEL PEAK 27(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                           474                            551 
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                           474                            551 
[1] "DEL PEAK 28(14Q24.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                           334                            691 
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                           334                            691 
[1] "DEL PEAK 29(15Q13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                           357                            668 
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                           357                            668 
[1] "DEL PEAK 30(16Q24.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                           653                            372 
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                           653                            372 
[1] "DEL PEAK 31(17P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                         614                          411 
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                         614                          411 
[1] "DEL PEAK 32(17Q21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                            349                             676 
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                            349                             676 
[1] "DEL PEAK 33(18Q23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                         337                          688 
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                         337                          688 
[1] "DEL PEAK 34(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                           343                            682 
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                           343                            682 
[1] "DEL PEAK 35(19Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                            200                             825 
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                            200                             825 
[1] "DEL PEAK 36(20P13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                         155                          870 
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                         155                          870 
[1] "DEL PEAK 37(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                           203                            822 
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                           203                            822 
[1] "DEL PEAK 38(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                            464                             561 
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                            464                             561 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDISEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "RADIATIONTHERAPY"                      
[15] "HISTOLOGICALTYPE"                      
[16] "RADIATIONS.RADIATION.REGIMENINDICATION"
[17] "NUMBER.OF.LYMPH.NODES"                 
[18] "RACE"                                  
[19] "ETHNICITY"                             
[20] "BATCHNUMBER"                           

Input Data has 20 rows and 1025 columns.

[1] "Batch" "20"   
[1] "Last Follow UP"
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
          12          259          437         1321         1463          434 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN 
        1437          635          416           NA          242         1196 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
         852          584          554         3188           NA         1276 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
        2499         2246          671           NA         1948         1686 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
        1099         4159         1964           NA         3409         2813 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV 
        2695         3283         2298         2289           NA         1930 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
        1948         1728          643         1051         1027          875 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ 
         767         3094         2718         2442         3273         2426 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
        2263         1127         1066         1043          968          905 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
         752          735         3017         1662           NA           NA 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 
        1534         1347          533          521           NA          569 
TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD 
         624          531          575          631          990          769 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ 
         554          469          666          659          441          566 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
         588         1474          965           NA          714          528 
TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 
        1119          683          616          584          595          501 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
        1596         3276          496          523          552         2796 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU 
         322          635         1206           NA         2525           NA 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
         996         1505         1168         1064          973         1167 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
         222          742          648          706          820          643 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
         666         1165         1074         1043         1079          931 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
        1139         1085         1007          965          326          387 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
         718          899          954          738          722          724 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
         661          627          679          345          322          313 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
         343          408          447          364          454          418 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW 
         441          644          545          448          368          326 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06N 
         336          313          285          317          266           NA 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
         396          396           31          547         1614           NA 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
          NA          791           31          518         1642          274 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
        1308          608          577          577          426          365 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U 
         518          304          334          273          243          760 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A081 TCGA-A8-A082 TCGA-A8-A083 TCGA-A8-A084 
         304          853           NA          549           NA          458 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
        1124          396           30         1156          881         1004 
TCGA-A8-A08G TCGA-A8-A08H TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
         607           NA          365           NA           NA          943 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
         943           30         1004         2830         1308         1217 
TCGA-A8-A090 TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A094 TCGA-A8-A095 
          NA         1004          942          546           NA         1277 
TCGA-A8-A096 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
          NA          365          304          304          365           31 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09G TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M 
        1522         1492           NA         1371          912         1006 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
          31          761          273          579          457           30 
TCGA-A8-A09X TCGA-A8-A09Z TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
          NA           NA          365          579          396          640 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
          30          396          518         1157           29           72 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB 
         330           81           45         1172         1162         1234 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH 
        1686         1125         1180           NA         1542           31 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
          28           69           30           21          451          675 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
          34          504          602          707          754           47 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
           2           34           55           36           21           13 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
          51           53           34           40           10           10 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
           7           10           19           90           54           52 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
         244          224          198            5           10           10 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
          10          196          141          242          213          231 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
         218          191          183           10           11           10 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
          10           10           10           10          375            9 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
          10           10           10           10          162          170 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        2442         1455         2031           NA         2576         2091 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 
        1456           NA          886          997          651         1587 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
         735         1140          618          680         1613          655 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
        1542         1547         2190         2335          650          798 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
        1528         1887         1683         2184         3120         3019 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D 
        3307         3248         2923         2755         2359         1948 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
        1743         1471         1266          863          448         2513 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
        1882         2141           16          541          754          819 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O 
        3957           NA          475          989           78         1001 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
         304         3386         1500           NA         2275         2636 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
         905         3009         1972           NA         2316         1988 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
        3101           NA         3468         2615         2298         1881 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
        1605         1559         1485         1903         1330         1325 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
        1216         1310           NA         1150         2318         1864 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
        1935         1890          615         3333         1548         2221 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
        2947         2388         2561           26         3088         2653 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
          NA         2312         1623         2596         1550         2548 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 
        2403         1708         2387         2226         2213         1792 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL 
          NA         3913           NA         1912         1304          224 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
        1218         1161         1198         1233          620         1665 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
         488          622           NA           NA         4361         4550 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
          NA         6719           NA           NA           NA           NA 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
          NA         5383           NA         3836           NA         3350 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
        3374         4285         6435         2082         5749         7126 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
          NA           NA         5261         4929           NA           NA 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
          NA         2721         3991         4788           NA         5739 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 
          NA          547           NA           NA         3941           NA 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
        5672           NA           NA           NA         1326         3088 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
        2236         4233         5176         2596         1651         1519 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
        3152         1673          746         1180          622          777 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
         867         1428         1242         1203         1191         1471 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
        1732         1733         1572         1132          974          554 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
         782          756          660         1340         1876         1085 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
        1481          827         1633         1641         1386         1519 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
         355         1492         1270         1339         1464         1305 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
        1394          948          713         1156          673          423 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
        1467          525          476           98           78         1170 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
        1374         1442          495          134          477          435 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE 
         293         1363         1405           NA          745          943 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
         743          923          328          461         1149         1080 
TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
         747          702         1247         1611          806          620 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
         178           76          414         1121          392         1561 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
         829         1545          170          728          759         1288 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18H TCGA-BH-A18I 
        1363          701          268           61           NA          220 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 
          NA           NA          210           22           NA           NA 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
          NA           NA          324          196          612           30 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12K TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        3324          272           NA          363          358          358 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12T TCGA-C8-A12U TCGA-C8-A12V 
         385          358            2           NA          385          385 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A12Y TCGA-C8-A12Z TCGA-C8-A130 TCGA-C8-A131 
         385          385           NA           NA           95           54 
TCGA-C8-A132 TCGA-C8-A133 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
          44           NA           21           19          117          114 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK 
         375          332          345          345            5          366 
TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A1HO TCGA-C8-A26V TCGA-C8-A26W 
         317           70           99           NA            9            7 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
          11           13          252          294            1            1 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
           1          371           30            1            7          362 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 
         635          403          626          425          431          410 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
         643          584          431          532          502          569 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
         480          552          575          366          366          426 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
         577          611          612          611          590          620 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
         639          371          405          447          565          541 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
         509          783          727          839          552           81 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL 
         522          463          448          664          441          606 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
         538          242          499          482          496          193 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 
         395          461          385          503          466          472 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G 
         116          433          430          530          488          409 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N 
         397          439          287          499          410          146 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
          23          307          398          381          373          441 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 
         563          223         1308         1047          837         1417 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
        1229         1141         1220          865          878         1434 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
        1359         1246         1163         1174         1009         1013 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
        1318         1042          974          972          870          518 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
         773          825          707          591          640          726 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E 
         450          762          710          694          526          630 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
         658          554          393          530          590          275 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
         626          235          396          595          519          428 
TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
         456         2329         1631         1613          911          984 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG 
         867          501          520         1165         1138          997 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
        1026         1025          865          689          118          675 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 
         638          337         1648          834         1205          598 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
         748         1231           NA          574         3247         3121 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
          NA         1309          515          168          478          219 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N3 
         931         1062          605          578          280           NA 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
         584         1120          410          365          399         1112 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NH 
        1203          383         1088          610          656           NA 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
         300          362          435           19           64          186 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
          42           84          645          976          633         1224 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI 
          20         1054          200          647         1052         1084 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
        1038           24          381          405         1189          692 
TCGA-E9-A22D TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
          NA          392          715          733          519           21 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
          26          828           59           29          747           22 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
         540           23          793          560           19          478 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP 
         375            7          447            8          420          438 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
         468          371         1208          258          554          575 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
         403          504          477          875          789          694 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
         911          908         1229         1251         1210         1611 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA 
         907          703          562          915           NA          575 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
         608          187          424          320          439         1051 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
         607         1673         1604          788          672          647 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 
         532          309          322          225         3342           NA 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
        5909         1616         1628         1309         1299         1286 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
        1883         1896         2763         2331         2352         1623 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 
        3361         1162         1330         2108         2019         2191 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U 
         412          551          360          352          646          203 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
         124          140          266          290          348          333 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
         231          519          466          447          440          450 
TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
         352           80          118          126          137          137 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
         170           98          189          224          849           85 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
          64          385         1416          973         1783          841 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
        1062         1106          513          752          679          620 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
         812          714         1996         1021          945          792 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX 
         220          428          858          600            7            5 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z 
           8          120          502          207          263          322 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
         241          169          259          218          209          119 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
         161          292          278         3042         3195 
Variable 1:'AGE':	nDistinctValues=65,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=116,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=675,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=16,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'HISTOLOGICAL.TYPE':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=31,	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.
Variable 20:'BATCH.NUMBER':	nDistinctValues=58,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "NEOPLASM.DISEASESTAGE"                 
 [3] "PATHOLOGY.T.STAGE"                     
 [4] "PATHOLOGY.N.STAGE"                     
 [5] "PATHOLOGY.M.STAGE"                     
 [6] "GENDER"                                
 [7] "HISTOLOGICAL.TYPE"                     
 [8] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [9] "NUMBER.OF.LYMPH.NODES"                 
[10] "RACE"                                  
[11] "ETHNICITY"                             
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 1025 columns, 1 survival variables, and 11 non-survival variables.
AGE, nv=65, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
265 594 124  39 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
265 594 124  39 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
265 594 124  39 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
265 594 124  39 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
481 339 113  74 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
481 339 113  74 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
481 339 113  74 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
481 339 113  74 
PATHOLOGY.M.STAGE, nv=4, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=7, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=31, binary=FALSE, numeric=TRUE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = AMP PEAK  1(1P22.3) MUTATION ANALYSIS
D1V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  1(1P22.3) MUTATED   205  29
  AMP PEAK  1(1P22.3) WILD-TYPE 681  90
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          234                           771 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                           29                            90 
$`AMP PEAK  1(1P22.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A2-A04T 
        0.39        14.37        43.43         7.96        19.20        73.84 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A0CM TCGA-A2-A0CU TCGA-A2-A0D0 TCGA-A2-A0D2 
       22.06        64.04        24.79         5.19        21.14        33.76 
TCGA-A2-A0D3 TCGA-A2-A0ET TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T7 
       28.77        35.05        44.88         8.38        17.46        20.75 
TCGA-A2-A0YD TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YM TCGA-A2-A1G0 TCGA-A2-A25B 
       25.28        14.50        19.33        31.73        20.25        16.31 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 
       33.93        83.01        29.98        38.40        31.99        38.37 
TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F 
       35.31        35.67        31.73        10.72        12.72        24.26 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06Y 
       14.50        21.17        10.29         9.37        10.42        26.01 
TCGA-A8-A06Z TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A08C TCGA-A8-A08T TCGA-A8-A092 
        1.02         9.99         7.99        28.96        93.04        30.97 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M 
       17.95        12.00         9.99        49.05        45.07        33.07 
TCGA-A8-A09W TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2QJ 
        0.99        21.04        17.03        38.53        38.20         2.27 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6NO 
       16.57        19.79         1.12         1.18         0.69         1.68 
TCGA-AC-A8OQ TCGA-AN-A03Y TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0FF TCGA-AN-A0FL 
        1.12         0.33         1.71         6.51         4.64         7.59 
TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XU TCGA-AO-A0J2 
        6.02         0.36         0.33         0.33         0.33        32.78 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12F 
       37.48        22.36        55.33        99.25       106.78        48.36 
TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TS TCGA-AR-A0U0 TCGA-AR-A1AH TCGA-AR-A1AI 
      130.09         2.56        74.79        65.36        75.55        61.84 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       43.07        17.23        61.28        20.22       109.58        50.89 
TCGA-AR-A24Z TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-B6-A0I1 
       79.00        93.83         7.36        40.54        20.38        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RE 
      143.38        12.13       129.57       176.98       140.88       211.56 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A1KC TCGA-B6-A1KF 
      172.96       102.77       131.21        21.47        43.59       101.52 
TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0B3 
      170.17        54.28        49.94        55.00        20.45        39.55 
TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0DL TCGA-BH-A0DP 
       37.22        18.21        49.05        44.02        48.23        15.65 
TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0EE TCGA-BH-A0GY 
       45.17        16.27         4.41         9.63        31.00        30.35 
TCGA-BH-A0HK TCGA-BH-A18L TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1F0 TCGA-BH-A1F2 
        5.85        26.66        66.05        51.16        25.81        31.53 
TCGA-BH-A1FC TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A28Q 
      114.15        63.35        55.00        72.07        72.07         6.44 
TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A131 TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A27B 
       11.77        12.66         1.78         0.43         0.03         0.99 
TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JL 
       11.90        13.97        14.17        19.20        18.71        20.09 
TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ 
       16.73        27.58        14.73        21.83        14.50        16.41 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XW TCGA-D8-A27H TCGA-D8-A27R TCGA-D8-A27V 
       15.85         6.35        12.66        13.05        10.09        12.53 
TCGA-E2-A107 TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A159 TCGA-E2-A15A 
       34.42        38.60        31.96        25.41        25.05        23.34 
TCGA-E2-A15D TCGA-E2-A15J TCGA-E2-A15R TCGA-E2-A1AZ TCGA-E2-A1BD TCGA-E2-A1II 
       17.29        19.40        17.06        60.53        17.10        33.70 
TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P6 
       22.19        27.42        28.90       106.75       102.61         5.52 
TCGA-E9-A1N8 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1R5 TCGA-E9-A1RB TCGA-E9-A1RC 
       12.00        12.59        35.77         1.38        20.81        40.24 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22B TCGA-E9-A244 TCGA-E9-A249 TCGA-E9-A3QA 
       21.27        34.59        22.75         0.69         0.95         0.62 
TCGA-E9-A54Y TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW 
        0.23        14.40        15.39        15.68        25.94        22.82 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A423 TCGA-GI-A2C8 
       40.41        41.13         7.86        19.99        10.16         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A3NY TCGA-GM-A4E0 
      109.87        53.52        43.04        42.28        38.20        72.03 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A441 TCGA-LL-A5YL 
       11.84        11.57         6.67         4.08        11.44        17.06 
TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-OL-A5D8 
       14.47        11.57         3.88         4.14         5.59        31.99 
TCGA-OL-A5RW TCGA-OL-A66K TCGA-OL-A6VO TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA10 
       36.36        33.57        28.21         3.95        16.50         7.92 

$`AMP PEAK  1(1P22.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        48.10        14.27        47.24        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       31.79        39.32        28.01        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       41.95        82.16        63.12        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       64.57       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D4 
       75.25        63.45        64.04        56.81        34.55        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
      101.72        89.36        80.28       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       37.05        34.29        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        27.12        50.43        44.28        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YE 
       17.13        18.71        20.52        18.90        32.55        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YL TCGA-A2-A0YT 
       15.42        21.90        21.67        18.61        48.46        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A1G4 
       23.47        17.36        36.79        22.45        19.20        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
       16.47        52.47       107.70        17.19        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY 
       10.59        20.88        39.65        32.75        49.48        34.98 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30        24.39        21.30        23.21        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.90        38.30        34.29        35.47        30.61        37.45 
TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H 
       33.11        23.61        29.56        31.36        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       11.28        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY 
       17.92        14.73        12.10        10.72        11.05         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
       13.02        13.02         1.02        17.98        53.06        29.03 
TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       31.00        17.03        53.98         9.01        43.00        19.99 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P 
       18.97        18.97        14.01        12.00        17.03        10.98 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        8.98        24.99         9.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G 
       36.95        13.02         0.99        38.01        33.01        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       12.00        37.05         9.99        31.00        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A09A 
       33.01        43.00        40.01        33.01        41.98         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
       12.00         1.02        50.04        29.98         1.02        25.02 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
        8.98        19.04        15.02        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       13.02         0.99        13.02        38.04         0.95         2.37 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
       10.85         2.66         1.48        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB 
       38.79        26.04        50.70         1.02         0.92         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ 
        0.69        14.83        22.19         1.12        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AC-A8OR 
        1.55         0.07         1.81         0.43         1.74         1.32 
TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C 
        0.33         0.23         0.33         0.62         2.96         1.78 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        8.02         7.36         0.16         0.33         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV 
        6.44         7.96         7.00         7.17         6.28         0.33 
TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         5.33         5.59        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       66.77        81.63        84.69        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J9 
       29.13        21.40        52.18        24.16        20.32        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       21.53        50.70        50.86        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 
       26.24        50.24        62.04        71.80       102.58       108.72 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
       96.10        90.58        77.56        64.04        57.30        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
       28.37        14.73        82.62        61.87        70.39         0.53 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       17.79        24.79        26.93         5.65        15.62        32.52 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT 
       32.91         9.99       111.32        49.32         5.26        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
       29.75        98.93        64.83        55.86        76.14       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       83.87       114.02        85.97        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU 
       62.56        43.73        43.56        39.98        37.81        76.21 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       63.62        62.14        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85       101.52        87.22        76.01        53.36        85.35 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        83.77        56.15        78.48        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM 
       58.92       128.65        20.25        62.86        42.87        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       38.17        39.39        54.74        16.04        20.45        10.59 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
      149.59       220.90        50.70        65.72       146.50       112.37 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RG 
       18.77       126.12        84.59       110.14       110.93        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RO TCGA-B6-A0RQ 
      189.01       234.28        81.17        78.02       162.05       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      100.70        89.46       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       17.98       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A40B 
       68.94        58.88        73.51       139.17        85.35       103.63 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       24.53        38.79        25.55        28.50        46.95        40.83 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        51.68        32.02 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       25.71        24.85        21.70        44.05        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       48.69        27.19        53.69        53.95        45.57        49.94 
TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       11.67        41.75        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ 
       23.44        38.01        22.13        13.91        17.26         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
        2.56        38.47        47.41        15.68        14.30        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 
       46.19        32.65        24.49        24.43        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       37.78        35.51        24.56        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU 
       26.50        20.38         2.50        13.61        36.85        12.89 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       51.32        27.25        50.79         5.59        23.93        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       42.35        44.81        23.05         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
       20.12        90.84        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES 
       37.55         7.36        51.39        69.93        91.99       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       82.85        42.28        12.00        55.69        49.58        17.69 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE 
       89.16        97.48        24.66       120.62        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 
      122.89        36.92        45.63       144.59         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 
       38.60        83.31        57.83       130.16        10.65        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
       12.66         0.07        12.66        12.66        12.66         3.12 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        1.45         0.69         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
       10.92        11.34        11.34         0.16        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z 
        2.30         3.25         0.30         0.23         0.36         8.28 
TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 
        9.67         0.03         0.03        12.20         0.03         0.23 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 
       20.88        13.25        20.58        13.48        21.14        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF 
       17.49        16.50        15.78        18.15        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM 
       12.03        14.01        18.97        20.09        20.12        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       20.38        21.01        12.20        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       17.79        25.74        23.90        18.15         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XS TCGA-D8-A1XU 
       15.22        19.92        17.69         7.96        16.31        12.99 
TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.16        16.54        15.32        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K 
       14.14        17.42        16.04        13.45        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27W 
       16.41        13.48         4.80         0.76        13.08        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A109 
       14.50        18.51         7.33        43.00        27.52        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
       40.41        37.51        40.11        28.44        28.87        47.15 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       44.68        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A153 
       34.26        32.02        28.60        17.03        27.12        23.24 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15E 
       19.43        21.04        23.87        14.79        22.82        20.71 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15K TCGA-E2-A15L 
       21.63        18.21        12.92        17.42         9.04        20.58 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 
        7.73        13.02        19.56        14.07        14.99        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       53.03        29.95        32.35        28.50        16.47        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       37.41        32.78        33.73        28.44        22.65         3.88 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA 
       20.98        11.08        54.18        39.62        19.66        24.59 
TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A3DX 
       40.47        18.87         8.75        43.04        16.93        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        7.20        30.61        34.92        19.89        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.20        36.82        13.48        13.12        36.56        39.55 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       20.05        21.57         9.86        11.90        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD 
        2.10         6.12         2.76        21.21        32.09         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
       34.65         6.58        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       13.32        39.09        12.89        23.51        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
        0.85        27.22         1.94        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK 
        0.76        26.07        18.41        15.72        12.33        14.70 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.26        13.81        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J6 TCGA-EW-A1OX TCGA-EW-A1OY 
       18.90        13.25        16.57        28.77        29.95        29.85 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       39.78        52.96        29.82        23.11        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       18.90         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       19.96        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DF 
       17.49        10.59        59.57       194.27        53.13        42.71 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX 
      110.50        43.73        69.30        66.38        13.55        18.12 
TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
       21.24         4.60         8.75         9.53        10.95         7.59 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Z TCGA-LL-A740 
       15.32        14.70        14.79         2.63         4.50         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        3.22         6.21         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66        46.55        58.62        27.65        34.92        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       24.72        22.32        20.38        26.70        23.47        65.62 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV 
       31.07        26.04         7.23        14.07        19.73         0.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 
        0.16         0.26         6.81         8.65        10.59         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        8.52         7.17         6.87         3.91         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                         0.03                          0.03 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                       211.56                        234.28 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                        21.22                         23.11 
[1] "0.0 - 211.6 (21.2)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.1"
D1V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  1(1P22.3) MUTATED        11       19        2        1        93
  AMP PEAK  1(1P22.3) WILD-TYPE      72       61        7        4       249
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  1(1P22.3) MUTATED          52         0         25         10
  AMP PEAK  1(1P22.3) WILD-TYPE       182         2        117         19
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  1(1P22.3) MUTATED           14        5         0       3
  AMP PEAK  1(1P22.3) WILD-TYPE         49       13         1      13
D1V3, multiclass
            clus
vv           AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  STAGE I                             11                            72
  STAGE IA                            19                            61
  STAGE IB                             2                             7
  STAGE II                             1                             4
  STAGE IIA                           93                           249
  STAGE IIB                           52                           182
  STAGE III                            0                             2
  STAGE IIIA                          25                           117
  STAGE IIIB                          10                            19
  STAGE IIIC                          14                            49
  STAGE IV                             5                            13
  STAGE TIS                            0                             1
  STAGE X                              3                            13
[1] 13  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(1P22.3) MUTATED    42 150  32  10
  AMP PEAK  1(1P22.3) WILD-TYPE 223 444  92  29
D1V4, multiclass
    clus
vv   AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  T1                          42                           223
  T2                         150                           444
  T3                          32                            92
  T4                          10                            29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             N0  N1  N2  N3
  AMP PEAK  1(1P22.3) MUTATED   132  64  18  18
  AMP PEAK  1(1P22.3) WILD-TYPE 349 275  95  56
D1V5, multiclass
    clus
vv   AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  N0                         132                           349
  N1                          64                           275
  N2                          18                            95
  N3                          18                            56
[1] 4 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                            CM0 (I+)  M0  M1  MX
  AMP PEAK  1(1P22.3) MUTATED          0 195   5  35
  AMP PEAK  1(1P22.3) WILD-TYPE        5 659  14 112
D1V6, multiclass
          clus
vv         AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               195                           659
  M1                                 5                            14
  MX                                35                           112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V7, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P22.3) MUTATED   233   2
  AMP PEAK  1(1P22.3) WILD-TYPE 781   9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED    233    2
  AMP PEAK  1(1P22.3) WILD-TYPE  781    9
        clus
vv       AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  FEMALE                         233                           781
  MALE                             2                             9
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  AMP PEAK  1(1P22.3) MUTATED                            0
  AMP PEAK  1(1P22.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  1(1P22.3) MUTATED                             180
  AMP PEAK  1(1P22.3) WILD-TYPE                           574
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  1(1P22.3) MUTATED                               32
  AMP PEAK  1(1P22.3) WILD-TYPE                            143
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  1(1P22.3) MUTATED                     3
  AMP PEAK  1(1P22.3) WILD-TYPE                   3
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  1(1P22.3) MUTATED                                  8
  AMP PEAK  1(1P22.3) WILD-TYPE                               21
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  1(1P22.3) MUTATED                    1             11
  AMP PEAK  1(1P22.3) WILD-TYPE                 14             33
D1V8, multiclass
                                  clus
vv                                 AMP PEAK  1(1P22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            180
  INFILTRATING LOBULAR CARCINOMA                            32
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           8
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                            11
                                  clus
vv                                 AMP PEAK  1(1P22.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              574
  INFILTRATING LOBULAR CARCINOMA                             143
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            21
  MUCINOUS CARCINOMA                                          14
  OTHER  SPECIFY                                              33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V9, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P22.3) MUTATED    61 174
  AMP PEAK  1(1P22.3) WILD-TYPE 221 569
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED     61  174
  AMP PEAK  1(1P22.3) WILD-TYPE  221  569
     clus
vv    AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  NO                           61                           221
  YES                         174                           569
[1] 2 2
[1] FALSE
D1V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  1(1P22.3) MUTATED                                  0     8
  AMP PEAK  1(1P22.3) WILD-TYPE                                1    48
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  1(1P22.3) MUTATED                          49   158
  AMP PEAK  1(1P22.3) WILD-TYPE                       109   559
D1V11, multiclass
                                  clus
vv                                 AMP PEAK  1(1P22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 49
  WHITE                                                    158
                                  clus
vv                                 AMP PEAK  1(1P22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                  109
  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"
D1V12, binary
                               cls
clus                              0   1
  AMP PEAK  1(1P22.3) MUTATED     8 190
  AMP PEAK  1(1P22.3) WILD-TYPE  28 636
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED      8  190
  AMP PEAK  1(1P22.3) WILD-TYPE   28  636
                        clus
vv                       AMP PEAK  1(1P22.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         190
                        clus
vv                       AMP PEAK  1(1P22.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           636
[1] 2 2
[1] FALSE

Clustering(2) Variable = AMP PEAK  2(1Q21.3) MUTATION ANALYSIS
D2V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  2(1Q21.3) MUTATED   652  83
  AMP PEAK  2(1Q21.3) WILD-TYPE 234  36
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          735                           270 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           83                            36 
$`AMP PEAK  2(1Q21.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SI TCGA-A1-A0SJ 
        0.39        14.37        43.43        48.10        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       31.79         7.96        39.32        28.01        19.20        18.21 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W 
       18.02        41.95        82.16        73.84        22.06        64.04 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CQ 
       55.43        36.13       136.73        24.79       112.08        88.60 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 
       75.55        75.25         5.19        63.45        56.81        21.14 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       33.76        28.77        25.22       101.72        89.36        80.28 
TCGA-A2-A0ET TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       35.05        31.82        24.16        99.19        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        44.28        17.52         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       17.46        18.90        20.75        32.55        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       15.42        21.90        21.67        14.50        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       48.46        31.73        23.77        23.47        17.36        36.79 
TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F TCGA-A2-A3KC 
       22.45        20.25        16.31        17.19        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XY 
       39.65        33.93        83.01        29.98        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE 
       31.99        38.37         7.30        21.14        38.30        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D 
       34.29        35.47        30.61        35.67        33.11        31.73 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       10.72        12.72        23.61        29.56        31.36        24.26 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       23.80        21.73        20.61        10.59        10.29        11.28 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF 
       14.70        11.97        13.74        14.50        21.17        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW 
       14.73        12.10        10.72        11.05        10.29         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X 
       10.42         8.75        13.02         1.02        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07F 
       26.01         1.02        53.98         9.01        19.99        18.97 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S 
       18.97        14.01        17.03         9.99         8.98         7.99 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08B 
       24.99         9.99        28.04        15.06         0.99        38.01 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R 
       28.96        19.96        37.05         9.99        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 
       33.01        93.04        43.00        40.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       41.98        12.00         9.99         9.99        12.00         1.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V 
       49.05        45.07        29.98        25.02         8.98        15.02 
TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 
        0.99        12.00        19.04        13.02        21.04        13.02 
TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
       17.03         2.37        10.85         2.66         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FG TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       38.20        36.99        26.04         0.92         2.27         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YJ 
        0.69        14.83         1.12        16.57        19.79        24.79 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        1.55         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.68         1.74         1.12         0.33         0.33         0.23 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        2.96         1.78         1.71         8.02         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.16         0.33         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        7.17         6.28         6.02         0.33         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
        0.33         0.33         0.33         0.33        12.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O 
        0.33         0.33         5.59        80.28        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       84.69        68.75        32.78        21.40        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       37.48        20.32        22.36        53.03        21.53        50.70 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JL 
       72.00        76.77        21.37        26.24        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
       71.80       102.58        99.25       106.78        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ 
       77.56        64.04        48.36        41.62        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       70.39         0.53        17.79        24.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP 
        5.65        32.52         2.56        32.91         9.99       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0U0 
       49.32         5.26        74.79        86.66        98.93        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
      101.95        83.87        85.97        75.55        61.84        52.77 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       51.25        48.82        43.73        39.98        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       37.81        61.28        63.62        20.22       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T 
       73.02        96.89        78.51         0.85        87.22        76.01 
TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 
       53.36        50.96        83.77        79.00        56.15        73.18 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ TCGA-AR-A2LK 
       72.76        58.92        93.83       128.65        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
       54.74        16.04        20.45        77.62       143.38       149.59 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ 
       12.13       220.90       129.57        65.72       112.37       176.98 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG 
       84.59       110.14       110.93       140.88       211.56        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
      189.01       234.28        81.17       172.96       162.05       102.77 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      100.70        89.46       131.21       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X7 TCGA-B6-A1KC 
       21.47       129.70       186.48        28.27        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 
      101.52        73.51       139.17       170.17        85.35        54.28 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW 
       49.94       103.63        55.00        24.53        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 
       25.55        28.50        46.95        40.83        39.55        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       56.94        51.68        37.22        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BP TCGA-BH-A0BQ 
       24.85        21.70        44.05        61.68        48.69        27.19 
TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 
       53.95        45.57        49.94        11.67        49.05        44.02 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DK TCGA-BH-A0DL 
       48.13        42.90        45.83        23.44        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26        15.65         2.56        38.47        45.17        47.41 
TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
        4.41        15.68         9.63        46.19        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H7 
       31.00        30.35        10.78        15.16        37.78        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       41.00        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A18F 
       12.89        27.25        50.79         5.59        23.93         8.81 
TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18Q 
        2.01        20.12        90.84        26.66        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       37.55        66.05         7.36        51.39        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 
       91.99        42.28        12.00        55.69        49.58        25.81 
TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       97.48       114.15        33.17        63.35        55.00        45.63 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A209 
       72.07        72.07         6.90         0.72        38.60       130.16 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O 
        6.44        20.12         0.99        11.93        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 
       11.77         0.07        12.66        12.66         3.12         1.78 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.75        12.33        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Y 
       12.03        10.42         2.30         3.25         0.36         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27B TCGA-C8-A3M7 
        8.28         9.67         0.03         0.03         0.99         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 
        0.23        20.88        13.25        20.58        13.97        14.17 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       21.14        19.20        14.17        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ 
       15.78        18.15        18.90        12.03        18.97        20.09 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT 
       20.12        20.09        19.40        20.38        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB 
       14.70        18.58        16.73        25.74        27.58        18.15 
TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL 
        2.66        15.22        14.73        21.83        14.50        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU 
       17.69         7.96        16.41        15.85        16.31        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27G 
       15.16        12.66        16.54         3.81        14.14        13.45 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T 
       14.43         9.44         4.80         0.76        10.09        13.08 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-E2-A107 TCGA-E2-A109 
       12.53        12.26        14.50        18.51        34.42        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
       40.41        37.51        40.11        28.44        28.87        47.15 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14X 
       44.68        40.96        38.24        38.60        33.30        31.96 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       28.60        17.03        25.41        27.12        23.24        19.43 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15H 
       14.79        25.05        23.34        17.29        18.21        12.92 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15R TCGA-E2-A15T 
       19.40         9.04        20.58         7.73        17.06        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       60.53        53.62        17.10        37.41        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1L6 TCGA-E2-A1L7 
       33.70        28.44         3.88        22.19        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       39.62        19.66        24.59        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
        8.75        16.93         5.52        15.72         7.20        30.61 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       34.92        19.89         9.21        13.48        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 
       36.56        12.59        35.77         9.86        11.90         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        2.10         6.12         1.38        21.21        32.09        20.81 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A227 
       40.24         0.66         6.58        21.27        34.59         0.79 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       39.09        22.75        12.89        23.51        24.10        17.06 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.69         0.85        27.22         0.95        24.56         0.72 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y 
       17.75        26.07        18.41         0.62        15.72         0.23 
TCGA-E9-A5FK TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1J2 
       14.70        14.40        15.39        12.20         8.48        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX 
       16.57        15.68        28.77        25.94        22.82        29.95 
TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P3 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC 
       29.85        41.13        52.96         7.86        19.99         6.15 
TCGA-EW-A1PE TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       10.52        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 
       17.49        10.16        10.59         7.40       109.87        59.57 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DN TCGA-GM-A3NW 
       53.52        43.04        42.71        42.28        77.33       110.50 
TCGA-GM-A3NY TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       38.20        69.30        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 
       11.84        11.57        21.24         6.67         4.08         4.60 
TCGA-LL-A441 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
       11.44         7.59        17.06        15.32        14.70        14.47 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.79        11.57         2.63         3.88         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 
        5.59         6.21         7.36         2.79         2.10        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       31.99        58.62        27.65        34.92        36.36        16.87 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       20.38        23.47        33.57        31.07        26.04         7.23 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG 
       28.21        19.73         0.23         3.95        16.50         6.81 
TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA17 TCGA-W8-A86G 
        8.65        10.59         7.92         5.56         3.91         5.29 
TCGA-XX-A899 TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.60       100.01       105.04 

$`AMP PEAK  2(1Q21.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A2-A04N TCGA-A2-A04V TCGA-A2-A0CL 
        8.52        14.27        47.24       104.81        63.12        64.57 
TCGA-A2-A0CP TCGA-A2-A0CR TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0EP TCGA-A2-A0EQ 
       92.48       107.93        64.04        34.55       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU 
       74.40        37.05        34.29        29.75        24.72        54.64 
TCGA-A2-A0T1 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       17.13        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A4RX TCGA-A2-A4RY 
       18.15        91.92        32.75        49.48        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0D9 TCGA-A7-A26G TCGA-A7-A2KD 
       23.21        26.96        21.90        37.45        23.74        22.32 
TCGA-A7-A3IY TCGA-A7-A3RF TCGA-A7-A4SA TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T 
       11.34        13.41        14.93        13.02        17.98        53.06 
TCGA-A8-A075 TCGA-A8-A07B TCGA-A8-A07J TCGA-A8-A07P TCGA-A8-A082 TCGA-A8-A085 
       17.03        43.00        12.00        10.98        18.05        36.95 
TCGA-A8-A086 TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A091 TCGA-A8-A09D 
       13.02        33.01        12.00        31.00        33.01        50.04 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09X TCGA-A8-A0A7 TCGA-A8-A0AD 
       33.07         1.02        19.04        14.01         0.99        38.04 
TCGA-AC-A23C TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH 
        0.95        40.57        55.43        38.79        50.70         1.02 
TCGA-AC-A3QP TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A049 
       22.19        23.24         0.07         1.32         0.33         0.62 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV 
        0.33         0.33         6.44         0.33         0.33         5.33 
TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0JC TCGA-AO-A0JI 
       47.84        47.87        59.05        29.13        50.86        50.24 
TCGA-AO-A126 TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A1H2 TCGA-AR-A0TV 
      108.72        57.30        28.37        14.73        15.62        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U3 TCGA-AR-A1AM TCGA-AR-A1AO 
       64.83        55.86        76.14       114.02        62.56        43.56 
TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A251 
       76.21        62.14        84.20       101.52        85.35        78.48 
TCGA-AR-A2LH TCGA-AR-A5QQ TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM 
       20.25        10.59        50.70       146.50        18.77       126.12 
TCGA-B6-A0RM TCGA-B6-A0RQ TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WY TCGA-B6-A0WZ 
       78.02       140.48       157.41        97.48       113.79       129.57 
TCGA-B6-A0X5 TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0BO TCGA-BH-A0BR TCGA-BH-A0C0 
       68.94        39.16        56.98        35.67        53.69        41.75 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DQ TCGA-BH-A0DZ TCGA-BH-A0E2 
       31.17        38.01        22.13         3.22        16.27        14.30 
TCGA-BH-A0E7 TCGA-BH-A0EI TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB 
       44.81        24.43        35.51        24.56        52.96        26.50 
TCGA-BH-A0HW TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I 
       51.32        24.95        42.35        44.81        23.05         7.23 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EY TCGA-BH-A1F2 
       72.56        37.74       113.82        82.85        17.69        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       89.16        24.66       120.62        74.73       122.89        36.92 
TCGA-BH-A1FR TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A42U TCGA-BH-A42V 
      144.59        83.31        57.83        10.65       109.28         8.94 
TCGA-C8-A12N TCGA-C8-A12U TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 
       11.77        12.66        12.66         1.45         0.69         3.85 
TCGA-C8-A1HF TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y 
       10.92         0.30         0.23         0.03        12.20        11.90 
TCGA-D8-A145 TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JP TCGA-D8-A1X6 TCGA-D8-A1X9 
       13.48        12.03        14.01        21.01        17.79        23.90 
TCGA-D8-A1XD TCGA-D8-A1XT TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E 
       17.16         6.35        15.32        15.52        14.24        17.42 
TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A4Z1 TCGA-E2-A105 
       16.04        13.05        16.41        13.48         7.33        43.00 
TCGA-E2-A108 TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A155 
       27.52        33.17        43.33        34.26        32.02        21.04 
TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15O 
       23.87        22.82        20.71        21.63        17.42        13.02 
TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       19.56        14.07        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IK TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1LB 
       16.47        38.30        22.65        20.98        11.08        40.47 
TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC 
       28.90        43.04        19.00        19.20        36.82        39.55 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R6 TCGA-E9-A1RE TCGA-E9-A1RI 
       20.05        21.57        14.30         2.76        34.65        35.64 
TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A248 TCGA-E9-A2JT TCGA-E9-A54X 
       34.13        12.53        13.32         1.94         0.76        12.33 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1OZ 
        0.26        13.81        39.72        18.21        18.90        40.41 
TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       39.78        29.82        23.11        18.48        30.08        18.90 
TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A3E8 TCGA-GM-A2DA TCGA-GM-A2DB 
       13.94        14.43        34.55        21.27       194.27        53.13 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DO TCGA-GM-A3XG 
       61.91        62.33        90.84        76.64        53.36        43.73 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LQ-A4E4 
        8.75         9.53        10.95         4.50         3.22        27.91 
TCGA-OL-A5D6 TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66P 
       12.66        24.72        22.32        26.70        65.62        14.07 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-XX-A89A 
        0.16         0.26         8.52         7.17         6.87         9.14 

  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                         0.03                          0.03 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                       234.28                        194.27 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                        21.37                         24.61 
[1] "0.0 - 234.3 (21.4)" "0.0 - 194.3 (24.6)"
[1] "hr=" "1.1"
D2V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  2(1Q21.3) MUTATED        54       53        6        4       263
  AMP PEAK  2(1Q21.3) WILD-TYPE      29       27        3        1        79
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  2(1Q21.3) MUTATED         162         1        101         25
  AMP PEAK  2(1Q21.3) WILD-TYPE        72         1         41          4
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  2(1Q21.3) MUTATED           49       14         1      12
  AMP PEAK  2(1Q21.3) WILD-TYPE         14        4         0       4
D2V3, multiclass
            clus
vv           AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  STAGE I                             54                            29
  STAGE IA                            53                            27
  STAGE IB                             6                             3
  STAGE II                             4                             1
  STAGE IIA                          263                            79
  STAGE IIB                          162                            72
  STAGE III                            1                             1
  STAGE IIIA                         101                            41
  STAGE IIIB                          25                             4
  STAGE IIIC                          49                            14
  STAGE IV                            14                             4
  STAGE TIS                            1                             0
  STAGE X                             12                             4
[1] 13  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(1Q21.3) MUTATED   176 442  92  34
  AMP PEAK  2(1Q21.3) WILD-TYPE  89 152  32   5
D2V4, multiclass
    clus
vv   AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  T1                         176                            89
  T2                         442                           152
  T3                          92                            32
  T4                          34                             5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             N0  N1  N2  N3
  AMP PEAK  2(1Q21.3) MUTATED   354 242  80  58
  AMP PEAK  2(1Q21.3) WILD-TYPE 127  97  33  16
D2V5, multiclass
    clus
vv   AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  N0                         354                           127
  N1                         242                            97
  N2                          80                            33
  N3                          58                            16
[1] 4 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                            CM0 (I+)  M0  M1  MX
  AMP PEAK  2(1Q21.3) MUTATED          2 621  14 109
  AMP PEAK  2(1Q21.3) WILD-TYPE        3 233   5  38
D2V6, multiclass
          clus
vv         AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CM0 (I+)                           2                             3
  M0                               621                           233
  M1                                14                             5
  MX                               109                            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"
D2V7, binary
                               cls
clus                              0   1
  AMP PEAK  2(1Q21.3) MUTATED   740   6
  AMP PEAK  2(1Q21.3) WILD-TYPE 274   5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED    740    6
  AMP PEAK  2(1Q21.3) WILD-TYPE  274    5
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  FEMALE                         740                           274
  MALE                             6                             5
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  AMP PEAK  2(1Q21.3) MUTATED                            1
  AMP PEAK  2(1Q21.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  2(1Q21.3) MUTATED                             547
  AMP PEAK  2(1Q21.3) WILD-TYPE                           207
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  2(1Q21.3) MUTATED                              139
  AMP PEAK  2(1Q21.3) WILD-TYPE                             36
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  2(1Q21.3) MUTATED                     5
  AMP PEAK  2(1Q21.3) WILD-TYPE                   1
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  2(1Q21.3) MUTATED                                 18
  AMP PEAK  2(1Q21.3) WILD-TYPE                               11
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  2(1Q21.3) MUTATED                    7             29
  AMP PEAK  2(1Q21.3) WILD-TYPE                  8             15
D2V8, multiclass
                                  clus
vv                                 AMP PEAK  2(1Q21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            547
  INFILTRATING LOBULAR CARCINOMA                           139
  MEDULLARY CARCINOMA                                        5
  MIXED HISTOLOGY (PLEASE SPECIFY)                          18
  MUCINOUS CARCINOMA                                         7
  OTHER  SPECIFY                                            29
                                  clus
vv                                 AMP PEAK  2(1Q21.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              207
  INFILTRATING LOBULAR CARCINOMA                              36
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            11
  MUCINOUS CARCINOMA                                           8
  OTHER  SPECIFY                                              15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V9, binary
                               cls
clus                              0   1
  AMP PEAK  2(1Q21.3) MUTATED   209 537
  AMP PEAK  2(1Q21.3) WILD-TYPE  73 206
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED    209  537
  AMP PEAK  2(1Q21.3) WILD-TYPE   73  206
     clus
vv    AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  NO                          209                            73
  YES                         537                           206
[1] 2 2
[1] FALSE
D2V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  2(1Q21.3) MUTATED                                  0    37
  AMP PEAK  2(1Q21.3) WILD-TYPE                                1    19
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  2(1Q21.3) MUTATED                         118   526
  AMP PEAK  2(1Q21.3) WILD-TYPE                        40   191
D2V11, multiclass
                                  clus
vv                                 AMP PEAK  2(1Q21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     37
  BLACK OR AFRICAN AMERICAN                                118
  WHITE                                                    526
                                  clus
vv                                 AMP PEAK  2(1Q21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       19
  BLACK OR AFRICAN AMERICAN                                   40
  WHITE                                                      191
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V12, binary
                               cls
clus                              0   1
  AMP PEAK  2(1Q21.3) MUTATED    21 603
  AMP PEAK  2(1Q21.3) WILD-TYPE  15 223
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED     21  603
  AMP PEAK  2(1Q21.3) WILD-TYPE   15  223
                        clus
vv                       AMP PEAK  2(1Q21.3) MUTATED
  HISPANIC OR LATINO                              21
  NOT HISPANIC OR LATINO                         603
                        clus
vv                       AMP PEAK  2(1Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                15
  NOT HISPANIC OR LATINO                           223
[1] 2 2
[1] FALSE

Clustering(3) Variable = AMP PEAK  3(1Q44) MUTATION ANALYSIS
D3V1, survival
                             sevent
clus2                           0   1
  AMP PEAK  3(1Q44) MUTATED   656  77
  AMP PEAK  3(1Q44) WILD-TYPE 230  42
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        733                         272 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         77                          42 
$`AMP PEAK  3(1Q44) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI 
        0.39        14.37        43.43        48.10        47.24        20.88 
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       13.68         7.96        39.32        28.01        19.20        18.21 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X 
       18.02        41.95        73.84        22.06        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0CT 
       36.13       136.73       112.08        88.60        75.55        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 
        5.19        63.45        64.04        56.81        21.14        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ 
       28.77        25.22       101.72        89.36        80.28        79.76 
TCGA-A2-A0ET TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       35.05        31.82        24.16        99.19        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        44.28        17.52        17.13        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       17.46        18.90        20.75        32.55        25.28        18.21 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.67        14.50        18.61        19.33        48.46        31.73 
TCGA-A2-A0YT TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25A TCGA-A2-A25B 
       23.77        22.45        20.25        19.20       107.70        16.31 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
       17.19        18.15        91.92        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RY 
       83.01        29.98        38.40        31.99         7.30        21.30 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       21.14        38.30        35.31        34.29        35.47        30.61 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G 
       35.67        33.11        31.73        10.72        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J 
       29.56        31.36        23.74        23.80        21.73        20.61 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.59        10.29        11.28        14.70        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       13.74        14.50        21.17        17.92        14.73        12.10 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O 
       10.72        11.05         9.37        10.42         8.75        13.02 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
        1.02        53.06        29.03        26.01         1.02        17.03 
TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O 
        9.01        19.99        18.97        18.97        14.01         9.99 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 
        8.98         7.99        24.99         9.99        28.04        15.06 
TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G 
       36.95         0.99        38.01        28.96        33.01        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T 
       12.00        37.05         9.99        31.00        33.01        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       43.00        40.01        30.97        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K 
        9.99        12.00         1.02        49.05        45.07        29.98 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 
       33.07        25.02         8.98        15.02         0.99        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       19.04        21.04        13.02        17.03        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        2.37        10.85         2.66         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ 
       40.57        36.99        26.04        50.70         0.92         2.27 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 
        0.99         0.69        14.83         1.12        16.57        19.79 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       24.79         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X 
        0.69         0.43         1.68         1.74         1.12         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.33         0.23         0.33         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT 
        8.02         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.00         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ 
        6.02         0.33         0.36         0.33         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XW 
        0.33         0.33        12.33         0.30         0.33         5.59 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 
       80.28        66.77        81.63        84.69        68.75        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       52.18        24.16        20.32        22.36        53.03        21.53 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JL 
       72.00        76.77        21.37        26.24        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
       71.80       102.58        99.25       106.78        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KP 
       77.56        64.04        57.30        48.36        41.62        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       61.87        70.39         0.53        17.79        24.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
      130.09         5.65        32.52         2.56        32.91         9.99 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 
      111.32         5.26        74.79        65.36       101.95        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
      114.02        85.97        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV 
       48.82        62.56        43.73        39.98        37.81        61.28 
TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       63.62        20.22        50.89        73.02        96.89        78.51 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
        0.85       101.52        87.22        76.01        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       83.77        79.00        56.15        78.48        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL 
       58.92        93.83       128.65        62.86        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       40.04        38.17        39.39        40.54        20.38        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       16.04        20.45        77.62       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IN 
      220.90       129.57        65.72       112.37       176.98        84.59 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH 
      110.14       110.93       140.88       211.56        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
      234.28        81.17       172.96       162.05       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      100.70        89.46       131.21       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X7 TCGA-B6-A1KC 
       21.47       129.57       129.70       186.48        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
      101.52        73.51       170.17        85.35        54.28        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
      103.63        55.00        24.53        38.79        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 
       28.50        46.95        40.83        39.55        48.36        56.94 
TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       56.98        37.22        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       21.70        44.05        61.68        35.67        48.69        27.19 
TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 
       53.95        45.57        49.94        11.67        49.05        44.02 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK 
       48.13        42.90        45.83        23.44        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       48.23        17.26        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA 
       45.17        47.41        15.68         9.63        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       24.49        31.00        30.35        10.78        15.16        37.78 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       23.08        41.00        20.38         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       36.85        12.89        27.25        50.79         5.59        23.93 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P 
        8.81         2.01        90.84        26.66        72.56        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN 
       55.63        37.55        66.05         7.36        51.39        69.93 
TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       91.99        42.28        12.00        55.69        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FJ TCGA-BH-A1FL 
       25.81        31.53        97.48       114.15        63.35        55.00 
TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       45.63        72.07        72.07         6.90         0.72        38.60 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-C8-A12L 
      130.16        10.65         6.44        20.12         0.99        11.93 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A130 
       12.66        11.77        12.66        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL 
        1.78         0.62         3.75        11.34        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 
        2.30         3.25         0.30         0.36         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 
        0.03         0.99         0.03         0.23        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 
       20.58        13.97        14.17        21.14        19.20        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       17.49        16.50        18.71        15.78        18.15        18.90 
TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP 
       12.03        18.97        20.09        19.40        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        18.58        16.73        25.74 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ 
       27.58        18.15         2.66        15.22        14.73        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS 
       14.50        19.92        17.69         7.96        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 
        6.35        12.99        15.16        12.66        16.54        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
        3.81        14.14        13.45        13.05        14.43         9.44 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
        4.80         0.76        10.09        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10B 
       14.50        18.51        34.42        27.52        46.59        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       40.11        28.44        28.87        47.15        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y 
       38.24        38.60        33.30        34.26        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A158 
       17.03        25.41        27.12        23.24        19.43        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       25.05        23.34        17.29        20.71        18.21        12.92 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A1AZ TCGA-E2-A1B0 
       19.40         9.04        20.58         7.73        60.53        53.62 
TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II 
       32.35        17.10        37.41        32.78        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
       28.44         3.88        22.19        54.18        39.62        19.66 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
       18.87       106.75       102.61        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N6 
        7.20        30.61        34.92        19.89         9.21        13.48 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NI 
       12.00        13.12        36.56        39.55        35.77         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA 
       11.90         0.62         2.10         1.38        21.21        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH 
       20.81        40.24         0.66         6.58        21.27        34.59 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E 
       34.13         0.79        13.32        39.09        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 
       23.51        24.10        17.06         0.69         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO 
        1.94         0.95        24.56         0.72        17.75        26.07 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UP TCGA-E9-A6HE 
        0.62        15.72         0.23        14.70        14.40        15.39 
TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
       12.20         8.48        13.25        16.57        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P3 
       22.82        29.95        29.85        40.41        41.13        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PH 
       23.11         7.86        19.99         6.15        10.52        19.96 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A423 TCGA-EW-A424 
       55.00        52.73        25.91        22.09        10.16        10.59 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD 
        7.40       109.87        59.57       194.27        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DN TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XL 
       42.71        42.28        77.33       110.50        38.20        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LL-A441 TCGA-LL-A50Y 
       21.24         6.67         4.08         4.60        11.44         7.59 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP 
       17.06        15.32        14.70        14.47        14.79        11.57 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7SZ TCGA-LL-A9Q3 
        2.63         3.88         4.14         4.50         5.59         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5DA TCGA-OL-A5RU 
       27.91         2.79         2.10        46.55        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K 
       34.92        36.36        16.87        20.38        23.47        33.57 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV 
       31.07        26.04         7.23        28.21        19.73         0.23 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 
        3.95        16.50         6.81         8.65        10.59         7.92 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R5 
        5.56         8.52         3.91         5.29         9.60       100.01 
TCGA-Z7-A8R6 
      105.04 

$`AMP PEAK  3(1Q44) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SG TCGA-A1-A0SK TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04V 
        8.52        14.27        31.79       104.81        82.16        63.12 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CR TCGA-A2-A0D1 TCGA-A2-A0EP 
       64.57        24.79        92.48       107.93        34.55       107.61 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU 
       74.40        37.05        34.29        29.75        24.72        54.64 
TCGA-A2-A0T2 TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
        8.38        15.42        21.90        23.47        17.36        36.79 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25F TCGA-A2-A3XV TCGA-A2-A3XW 
       19.56        16.47        52.47        10.59        32.75        49.48 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 
       34.98        38.37        24.39        23.21        26.96        21.90 
TCGA-A7-A0D9 TCGA-A7-A26F TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3RF TCGA-A7-A6VV 
       37.45        24.26        22.32        11.34        13.41        10.29 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07J 
       13.02        17.98        31.00        53.98        43.00        12.00 
TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08O TCGA-A8-A08R 
       17.03        10.98        18.05        13.02        31.00         0.99 
TCGA-A8-A091 TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09X 
       33.01         9.99        50.04         1.02        19.04        14.01 
TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-AC-A2FF TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A3QP 
       13.02         0.99        55.43        38.79         1.02        22.19 
TCGA-AC-A3YI TCGA-AC-A8OR TCGA-AN-A049 TCGA-AN-A0AR TCGA-AN-A0FJ TCGA-AN-A0XS 
       23.24         1.32         0.62         0.33         7.96         0.33 
TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U 
        0.33         0.33         5.33        47.84        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JI 
       29.13        21.40        37.48        50.70        50.86        50.24 
TCGA-AO-A126 TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A1H2 TCGA-AR-A0TQ TCGA-AR-A0TT 
      108.72        28.37        14.73        15.62        49.32        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A1AO 
       29.75        98.93        64.83        55.86        76.14        43.56 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24O 
       43.07        17.23        76.21        62.14       109.58        84.20 
TCGA-AR-A24V TCGA-AR-A2LH TCGA-AR-A5QQ TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK 
       85.35        20.25        10.59        50.70       146.50        18.77 
TCGA-B6-A0IM TCGA-B6-A0RM TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WY TCGA-B6-A0X4 
      126.12        78.02       157.41        97.48       113.79        28.27 
TCGA-B6-A0X5 TCGA-B6-A1KN TCGA-BH-A0B4 TCGA-BH-A0B9 TCGA-BH-A0BR TCGA-BH-A0C0 
       68.94       139.17        39.16        51.68        53.69        41.75 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E7 
       31.17        38.01        16.27         4.41        14.30        44.81 
TCGA-BH-A0EI TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HW 
       24.43        35.51        24.56        52.96        26.50        51.32 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18J 
       24.95        42.35        44.81        23.05         7.23        20.12 
TCGA-BH-A18N TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1F5 TCGA-BH-A1F8 
       37.74        51.16       113.82        82.85        89.16        24.66 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FR 
      120.62        33.17        74.73       122.89        36.92       144.59 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N 
       83.31        57.83       109.28         8.94        11.77        11.77 
TCGA-C8-A12Q TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE 
        0.07        12.66         1.45         0.69         3.85        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A275 
       10.92        11.34         0.16         0.23         0.43         0.03 
TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A145 TCGA-D8-A1JG TCGA-D8-A1JH 
        0.03        12.20        11.90        13.48        12.03        14.01 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1X6 TCGA-D8-A1X9 TCGA-D8-A1XD TCGA-D8-A1XQ 
       20.12        20.09        17.79        23.90        17.16        16.41 
TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27L TCGA-D8-A27M 
       15.32        14.24        17.42        16.04        16.41        13.48 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A10A TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14W 
        7.33        43.00        40.41        33.17        43.33        32.02 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15O 
       21.04        23.87        22.82        21.63        17.42        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 
       19.56        17.06        14.07        14.99        53.03        29.95 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IK TCGA-E2-A1IO TCGA-E2-A1IU 
       28.50        16.47        38.30        22.65        20.98        11.08 
TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LK TCGA-E2-A1LL 
       27.42        24.59        40.47        28.90         8.75        43.04 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG 
       19.00        19.20        36.82        12.59        20.05        21.57 
TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A228 
       14.30         6.12         2.76        34.65        35.64        12.53 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IX 
        0.76        18.41        12.33         0.26        13.81        39.72 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 
       18.21        18.90        28.77        39.78        29.82        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A3E8 
       30.08        18.90        13.94        14.43        34.55        21.27 
TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       17.49        53.13        61.91        62.33        90.84        76.64 
TCGA-GM-A2DO TCGA-GM-A3XG TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A740 
       53.36        43.73         8.75         9.53        10.95         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5RY TCGA-OL-A5RZ 
        3.22         6.21        12.66        31.99        24.72        22.32 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66P TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-AA14 
       26.70        65.62        14.07         0.16         0.26         7.17 
TCGA-S3-AA15 TCGA-XX-A89A 
        6.87         9.14 

  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                       0.03                        0.03 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                     234.28                      157.41 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                     21.830                      23.355 
[1] "0.0 - 234.3 (21.8)" "0.0 - 157.4 (23.4)"
[1] "hr=" "1.6"
D3V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  3(1Q44) MUTATED        54       50        6        5       256
  AMP PEAK  3(1Q44) WILD-TYPE      29       30        3        0        86
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  3(1Q44) MUTATED         171         1        100         25
  AMP PEAK  3(1Q44) WILD-TYPE        63         1         42          4
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  3(1Q44) MUTATED           51       12         1      11
  AMP PEAK  3(1Q44) WILD-TYPE         12        6         0       5
D3V3, multiclass
            clus
vv           AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  STAGE I                           54                          29
  STAGE IA                          50                          30
  STAGE IB                           6                           3
  STAGE II                           5                           0
  STAGE IIA                        256                          86
  STAGE IIB                        171                          63
  STAGE III                          1                           1
  STAGE IIIA                       100                          42
  STAGE IIIB                        25                           4
  STAGE IIIC                        51                          12
  STAGE IV                          12                           6
  STAGE TIS                          1                           0
  STAGE X                           11                           5
[1] 13  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(1Q44) MUTATED   172 449  89  32
  AMP PEAK  3(1Q44) WILD-TYPE  93 145  35   7
D3V4, multiclass
    clus
vv   AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  T1                       172                          93
  T2                       449                         145
  T3                        89                          35
  T4                        32                           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  N3
  AMP PEAK  3(1Q44) MUTATED   344 252  78  59
  AMP PEAK  3(1Q44) WILD-TYPE 137  87  35  15
D3V5, multiclass
    clus
vv   AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  N0                       344                         137
  N1                       252                          87
  N2                        78                          35
  N3                        59                          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                          CM0 (I+)  M0  M1  MX
  AMP PEAK  3(1Q44) MUTATED          2 617  12 113
  AMP PEAK  3(1Q44) WILD-TYPE        3 237   7  34
D3V6, multiclass
          clus
vv         AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  CM0 (I+)                         2                           3
  M0                             617                         237
  M1                              12                           7
  MX                             113                          34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V7, binary
                             cls
clus                            0   1
  AMP PEAK  3(1Q44) MUTATED   736   8
  AMP PEAK  3(1Q44) WILD-TYPE 278   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED    736    8
  AMP PEAK  3(1Q44) WILD-TYPE  278    3
        clus
vv       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  FEMALE                       736                         278
  MALE                           8                           3
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  AMP PEAK  3(1Q44) MUTATED                            1
  AMP PEAK  3(1Q44) WILD-TYPE                          0
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  3(1Q44) MUTATED                             537
  AMP PEAK  3(1Q44) WILD-TYPE                           217
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  3(1Q44) MUTATED                              146
  AMP PEAK  3(1Q44) WILD-TYPE                             29
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  3(1Q44) MUTATED                     5
  AMP PEAK  3(1Q44) WILD-TYPE                   1
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  3(1Q44) MUTATED                                 21
  AMP PEAK  3(1Q44) WILD-TYPE                                8
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  3(1Q44) MUTATED                    7             27
  AMP PEAK  3(1Q44) WILD-TYPE                  8             17
D3V8, multiclass
                                  clus
vv                                 AMP PEAK  3(1Q44) MUTATED
  INFILTRATING CARCINOMA NOS                               1
  INFILTRATING DUCTAL CARCINOMA                          537
  INFILTRATING LOBULAR CARCINOMA                         146
  MEDULLARY CARCINOMA                                      5
  MIXED HISTOLOGY (PLEASE SPECIFY)                        21
  MUCINOUS CARCINOMA                                       7
  OTHER  SPECIFY                                          27
                                  clus
vv                                 AMP PEAK  3(1Q44) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            217
  INFILTRATING LOBULAR CARCINOMA                            29
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           8
  MUCINOUS CARCINOMA                                         8
  OTHER  SPECIFY                                            17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V9, binary
                             cls
clus                            0   1
  AMP PEAK  3(1Q44) MUTATED   206 538
  AMP PEAK  3(1Q44) WILD-TYPE  76 205
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED    206  538
  AMP PEAK  3(1Q44) WILD-TYPE   76  205
     clus
vv    AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  NO                        206                          76
  YES                       538                         205
[1] 2 2
[1] FALSE
D3V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  3(1Q44) MUTATED                                  1    31
  AMP PEAK  3(1Q44) WILD-TYPE                                0    25
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  3(1Q44) MUTATED                         114   533
  AMP PEAK  3(1Q44) WILD-TYPE                        44   184
D3V11, multiclass
                                  clus
vv                                 AMP PEAK  3(1Q44) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         1
  ASIAN                                                   31
  BLACK OR AFRICAN AMERICAN                              114
  WHITE                                                  533
                                  clus
vv                                 AMP PEAK  3(1Q44) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     25
  BLACK OR AFRICAN AMERICAN                                 44
  WHITE                                                    184
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V12, binary
                             cls
clus                            0   1
  AMP PEAK  3(1Q44) MUTATED    21 600
  AMP PEAK  3(1Q44) WILD-TYPE  15 226
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED     21  600
  AMP PEAK  3(1Q44) WILD-TYPE   15  226
                        clus
vv                       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  HISPANIC OR LATINO                            21                          15
  NOT HISPANIC OR LATINO                       600                         226
[1] 2 2
[1] FALSE

Clustering(4) Variable = AMP PEAK  4(3P25.1) MUTATION ANALYSIS
D4V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  4(3P25.1) MUTATED   160  30
  AMP PEAK  4(3P25.1) WILD-TYPE 726  89
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          190                           815 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                           30                            89 
$`AMP PEAK  4(3P25.1) MUTATED`
TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CT 
       28.01        73.84        22.06        24.79        75.55        75.25 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0SV TCGA-A2-A0T7 TCGA-A2-A0YT 
       63.45        64.04        56.81        27.12        20.75        23.77 
TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A25E TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0DA 
       17.36        22.45        91.92        21.90        38.30        35.67 
TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A425 TCGA-A7-A4SD 
       33.11        12.72        29.56        24.26        14.70        14.50 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R 
       21.17        14.73        12.10        13.02         1.02        17.98 
TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A084 TCGA-A8-A08C TCGA-A8-A08F 
       31.00        17.03         9.01        15.06        28.96        33.01 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08X TCGA-A8-A091 
       12.00        37.05         9.99        31.00        43.00        33.01 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E 
       17.95        12.00         9.99        12.00        50.04        49.05 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A09X 
       45.07        29.98        25.02         8.98         0.99        14.01 
TCGA-AC-A23H TCGA-AC-A2FM TCGA-AC-A2QJ TCGA-AC-A8OP TCGA-AN-A03Y TCGA-AN-A049 
        2.66        26.04         2.27         1.74         0.33         0.62 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO 
        0.33         0.33         0.33         0.33         0.33        12.33 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JM TCGA-AO-A128 
       52.18        37.48        20.32        50.70        71.80       106.78 
TCGA-AO-A12D TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A54O TCGA-AR-A0U2 TCGA-AR-A1AS 
       64.04        17.79        24.79        32.91        83.87        37.81 
TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A2LL TCGA-AR-A2LR 
       50.89       101.52        85.35        79.00         7.36        20.38 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0RE TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU 
       12.13       220.90       211.56       102.77       100.70       131.21 
TCGA-B6-A0WV TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AU 
       79.63       186.48        43.59        85.35        49.94        24.53 
TCGA-BH-A0AV TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BT 
       38.79        48.36        56.94        25.71        44.05        45.57 
TCGA-BH-A0C0 TCGA-BH-A0DS TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EB 
       41.75         2.56        14.30         9.63        46.19        24.49 
TCGA-BH-A0HI TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A18J TCGA-BH-A18N TCGA-BH-A18R 
       20.38        27.25        50.79        20.12        37.74        37.55 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1FC TCGA-BH-A1FM 
        7.36        51.39        12.00        55.69       114.15        45.63 
TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12Q 
       72.07         0.72        38.60        11.77        12.66         0.07 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A1HI 
       12.66        12.66         3.12         3.85        11.34        11.34 
TCGA-C8-A1HM TCGA-C8-A278 TCGA-D8-A13Y TCGA-D8-A1JF TCGA-D8-A1JJ TCGA-D8-A1JL 
        2.30         0.03        11.90        12.03        20.09        20.09 
TCGA-D8-A1XA TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XV TCGA-D8-A1Y2 TCGA-D8-A1Y3 
       27.58        14.50        16.41        15.16        14.24        14.14 
TCGA-D8-A27H TCGA-D8-A27R TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A14O TCGA-E2-A14R 
       13.05        10.09        46.59        37.51        44.68        38.60 
TCGA-E2-A14T TCGA-E2-A14Z TCGA-E2-A154 TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15L 
       33.30        17.03        19.43        20.71        18.21        20.58 
TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1IH TCGA-E2-A1LE TCGA-E2-A1LG 
       14.07        60.53        53.62        33.73        28.90        18.87 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1R4 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RF 
       12.00        13.12         6.12        20.81        40.24         6.58 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A2JS 
       21.27        34.59        12.89        23.51        17.06        17.75 
TCGA-E9-A54Y TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1PH 
        0.23        14.40        28.77        29.85        40.41        19.96 
TCGA-EW-A3U0 TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3XL TCGA-LL-A5YM TCGA-LL-A5YP 
       17.49        43.04        42.71        69.30        15.32        14.79 
TCGA-LL-A6FR TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-S3-A6ZF 
        3.88         6.21        46.55        16.50 

$`AMP PEAK  4(3P25.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN 
       47.24        20.88        13.68        31.79         7.96        39.32 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
       19.20        18.21       104.81        18.02        41.95        82.16 
TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       63.12        64.04        55.43        36.13       136.73        64.57 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU TCGA-A2-A0D0 
      112.08        92.48        88.60       107.93         5.19        21.14 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       34.55        33.76        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET 
       80.28       107.61        79.76        74.40        37.05        35.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST 
       34.29        31.82        29.75        24.72        24.16        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 
       54.64        44.88        50.43        44.28        17.52        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
        8.38        18.71        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI 
       25.28        18.21        15.42        21.90        21.67        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FX 
       18.61        19.33        48.46        31.73        23.47        36.79 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       20.25        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       16.31        17.19        18.15        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       33.93        83.01        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       34.98        31.99        38.37         7.30        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       23.21        26.96        21.14        35.31        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A26E 
       30.61        37.45        31.73        10.72        23.61        31.36 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       23.74        23.80        21.73        20.61        22.32        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA 
       10.59        10.29        11.28        13.41        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW 
       13.74        17.92        10.72        11.05        10.29         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y 
       10.42         8.75        13.02        53.06        29.03        26.01 
TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
        1.02        53.98        43.00        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R 
       14.01        12.00        17.03         9.99        10.98         8.98 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 
        7.99        24.99         9.99        28.04        18.05        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08R 
       13.02         0.99        38.01        19.96        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 
       33.01        93.04        40.01        30.97        41.98         9.99 
TCGA-A8-A09C TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 
        1.02        33.07         1.02        19.04        15.02        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
       19.04        13.02        21.04         0.99        13.02        17.03 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK 
       38.04         0.95         2.37        10.85         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO 
       38.20        40.57        55.43        36.99        38.79        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
        1.02         0.92         0.99         0.69        14.83        22.19 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12        16.57        19.79        23.24        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        0.07         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.68         1.12         1.32         0.33         0.23         0.33 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        2.96         1.78         1.71         8.02         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK 
        0.16         0.33         6.44         4.64         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        7.59         7.17         6.28         6.02         0.33         0.36 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        0.33         0.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
        0.33         5.33         5.59        80.28        47.84        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       81.63        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       32.78        21.40        24.16        22.36        53.03        21.53 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 
       62.04        55.33       102.58        99.25       108.72        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
       90.58        77.56        57.30        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04J 
       14.73        82.62        61.87        70.39         0.53        26.93 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 
      130.09         5.65        15.62        32.52         2.56         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
      111.32        49.32         5.26        74.79        86.66        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       98.93        64.83        55.86        76.14        65.36       101.95 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
      114.02        85.97        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
       48.82        62.56        43.73        43.56        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       17.23        76.21        61.28        63.62        62.14        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        73.02        96.89        78.51        84.20         0.85 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 
       87.22        76.01        53.36        50.96        83.77        56.15 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       78.48        73.18        72.76        58.92        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       20.25        62.86        42.87        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       40.54        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      143.38       149.59       129.57        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      112.37       176.98        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       140.88        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV 
       78.02       172.96       162.05       140.48        89.46       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
       97.48       188.68        17.98        21.47       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI 
      129.70        28.27        68.94        58.88       101.52        73.51 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW 
      139.17       170.17        54.28       103.63        55.00        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 
       25.55        28.50        46.95        40.83        39.55        39.16 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG 
       56.98        51.68        37.22        32.02        18.21        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR 
       21.70        61.68        35.67        48.69        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 
       53.95        49.94        11.67        49.05        44.02        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       42.90        45.83        31.17        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DT 
       13.91        48.23        17.26        15.65         3.22        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E7 
       45.17        47.41        16.27         4.41        15.68        44.81 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       32.65        31.00        24.43        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       37.78        35.51        24.56        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU 
       26.50         5.85         2.50        13.61        36.85        12.89 
TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       51.32         5.59        23.93        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18L 
       23.05         8.81         2.01         7.23        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1EN 
       72.56        30.28        55.63        66.05        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY 
       91.99       113.82        82.85        42.28        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB 
       25.81        31.53        89.16        97.48        24.66       120.62 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
      144.59        72.07         6.90        83.31        57.83       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V 
       10.65         6.44        20.12         0.99       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 
       11.93        11.77        11.77        12.66        12.66         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.45         0.69         0.62         3.75        12.33        10.92 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
        0.16        12.03        10.42         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
        0.36         0.43         8.28         9.67         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 
       12.20         0.99         0.03         0.23        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
       20.58        13.97        14.17        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       14.17        17.49        16.50        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM 
       18.90        12.03        14.01        18.97        20.12        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       20.38        21.01        12.20        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC 
       17.79        16.73        25.74        23.90        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM 
       17.16        15.22        14.73        21.83        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW 
        7.96        15.85        16.31         6.35        12.99        12.66 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A27E TCGA-D8-A27F 
       16.54        15.32        15.52         3.81        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N 
       13.45        14.43         9.44        16.41        13.48         4.80 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        0.76        13.08        12.53        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10C 
        7.33        43.00        34.42        27.52        40.41        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S 
       28.44        28.87        47.15        40.96        38.24        33.17 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 
       43.33        34.26        32.02        31.96        28.60        25.41 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 
       27.12        23.24        21.04        23.87        14.79        25.05 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I 
       23.34        22.82        17.29        21.63        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
       19.40         9.04         7.73        13.02        19.56        17.06 
TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       14.99        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ 
       17.10        38.30        37.41        32.78        33.70        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       22.65         3.88        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LH 
       27.42        39.62        19.66        24.59        40.47       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      102.61         8.75        43.04        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        7.20        30.61        34.92        19.89        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND 
       19.20        36.82        13.48        36.56        39.55        12.59 
TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       35.77        20.05        21.57         9.86        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA 
        0.62         2.10         1.38         2.76        21.21        32.09 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        0.66        34.65        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 
       13.32        39.09        22.75        24.10         0.69         0.85 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT 
       27.22         1.94         0.95        24.56         0.72         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK 
       26.07        18.41         0.62        15.72        12.33        14.70 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26        13.81        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
       18.21        18.90        13.25        16.57        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       22.82        29.95        41.13        39.78        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
       23.11        18.48        30.08         7.86        18.90        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR 
        6.15        13.94        10.52        14.43        34.55        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 
       52.73        25.91        22.09        21.27        10.16        10.59 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC 
        7.40       109.87        59.57       194.27        53.13        53.52 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.28        61.91        62.33        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       53.36       110.50        38.20        43.73        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U 
       13.55        18.12        11.84        11.57        21.24         6.67 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        4.08         4.60         8.75         9.53        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ 
        7.59        17.06        14.70        14.47        11.57         2.63 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 
        4.14         4.50         4.50         5.59         3.22         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.79         2.10        12.66        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        34.92        36.36        16.87        24.72        22.32 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       20.38        26.70        23.47        65.62        33.57        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV 
       26.04         7.23        14.07        28.21        19.73         0.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z 
        0.16         0.26         3.95         6.81         8.65        10.59 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
        7.92         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                         0.03                          0.03 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                       220.90                        234.28 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                        21.98                         22.65 
[1] "0.0 - 220.9 (22.0)" "0.0 - 234.3 (22.6)"
[1] "hr=" "1.6"
D4V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  4(3P25.1) MUTATED        12       11        0        2        78
  AMP PEAK  4(3P25.1) WILD-TYPE      71       69        9        3       264
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  4(3P25.1) MUTATED          32         0         32         10
  AMP PEAK  4(3P25.1) WILD-TYPE       202         2        110         19
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  4(3P25.1) MUTATED            8        6         0       2
  AMP PEAK  4(3P25.1) WILD-TYPE         55       12         1      14
D4V3, multiclass
            clus
vv           AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  STAGE I                             12                            71
  STAGE IA                            11                            69
  STAGE IB                             0                             9
  STAGE II                             2                             3
  STAGE IIA                           78                           264
  STAGE IIB                           32                           202
  STAGE III                            0                             2
  STAGE IIIA                          32                           110
  STAGE IIIB                          10                            19
  STAGE IIIC                           8                            55
  STAGE IV                             6                            12
  STAGE TIS                            0                             1
  STAGE X                              2                            14
[1] 13  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(3P25.1) MUTATED    36 129  14  13
  AMP PEAK  4(3P25.1) WILD-TYPE 229 465 110  26
D4V4, multiclass
    clus
vv   AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  T1                          36                           229
  T2                         129                           465
  T3                          14                           110
  T4                          13                            26
[1] 4 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  N3
  AMP PEAK  4(3P25.1) MUTATED    92  53  32  12
  AMP PEAK  4(3P25.1) WILD-TYPE 389 286  81  62
D4V5, multiclass
    clus
vv   AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  N0                          92                           389
  N1                          53                           286
  N2                          32                            81
  N3                          12                            62
[1] 4 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                            CM0 (I+)  M0  M1  MX
  AMP PEAK  4(3P25.1) MUTATED          0 176   6  11
  AMP PEAK  4(3P25.1) WILD-TYPE        5 678  13 136
D4V6, multiclass
          clus
vv         AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               176                           678
  M1                                 6                            13
  MX                                11                           136
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V7, binary
                               cls
clus                              0   1
  AMP PEAK  4(3P25.1) MUTATED   192   1
  AMP PEAK  4(3P25.1) WILD-TYPE 822  10
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED    192    1
  AMP PEAK  4(3P25.1) WILD-TYPE  822   10
        clus
vv       AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  FEMALE                         192                           822
  MALE                             1                            10
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  AMP PEAK  4(3P25.1) MUTATED                            1
  AMP PEAK  4(3P25.1) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  4(3P25.1) MUTATED                             165
  AMP PEAK  4(3P25.1) WILD-TYPE                           589
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  4(3P25.1) MUTATED                               13
  AMP PEAK  4(3P25.1) WILD-TYPE                            162
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  4(3P25.1) MUTATED                     1
  AMP PEAK  4(3P25.1) WILD-TYPE                   5
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  4(3P25.1) MUTATED                                  5
  AMP PEAK  4(3P25.1) WILD-TYPE                               24
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  4(3P25.1) MUTATED                    1              7
  AMP PEAK  4(3P25.1) WILD-TYPE                 14             37
D4V8, multiclass
                                  clus
vv                                 AMP PEAK  4(3P25.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            165
  INFILTRATING LOBULAR CARCINOMA                            13
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           5
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                             7
                                  clus
vv                                 AMP PEAK  4(3P25.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              589
  INFILTRATING LOBULAR CARCINOMA                             162
  MEDULLARY CARCINOMA                                          5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            24
  MUCINOUS CARCINOMA                                          14
  OTHER  SPECIFY                                              37
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V9, binary
                               cls
clus                              0   1
  AMP PEAK  4(3P25.1) MUTATED    57 136
  AMP PEAK  4(3P25.1) WILD-TYPE 225 607
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED     57  136
  AMP PEAK  4(3P25.1) WILD-TYPE  225  607
     clus
vv    AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  NO                           57                           225
  YES                         136                           607
[1] 2 2
[1] FALSE
D4V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  4(3P25.1) MUTATED                                  0    14
  AMP PEAK  4(3P25.1) WILD-TYPE                                1    42
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  4(3P25.1) MUTATED                          28   121
  AMP PEAK  4(3P25.1) WILD-TYPE                       130   596
D4V11, multiclass
                                  clus
vv                                 AMP PEAK  4(3P25.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     14
  BLACK OR AFRICAN AMERICAN                                 28
  WHITE                                                    121
                                  clus
vv                                 AMP PEAK  4(3P25.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       42
  BLACK OR AFRICAN AMERICAN                                  130
  WHITE                                                      596
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V12, binary
                               cls
clus                              0   1
  AMP PEAK  4(3P25.1) MUTATED     6 145
  AMP PEAK  4(3P25.1) WILD-TYPE  30 681
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED      6  145
  AMP PEAK  4(3P25.1) WILD-TYPE   30  681
                        clus
vv                       AMP PEAK  4(3P25.1) MUTATED
  HISPANIC OR LATINO                               6
  NOT HISPANIC OR LATINO                         145
                        clus
vv                       AMP PEAK  4(3P25.1) WILD-TYPE
  HISPANIC OR LATINO                                30
  NOT HISPANIC OR LATINO                           681
[1] 2 2
[1] FALSE

Clustering(5) Variable = AMP PEAK  5(3Q26.32) MUTATION ANALYSIS
D5V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  5(3Q26.32) MUTATED   282  37
  AMP PEAK  5(3Q26.32) WILD-TYPE 604  82
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           319                            686 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                            37                             82 
$`AMP PEAK  5(3Q26.32) MUTATED`
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T 
       47.24        20.88        28.01        19.20        18.02        73.84 
TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 
       24.79        75.55        63.45        56.81        21.14        33.76 
TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0T2 
       31.82        24.16        27.12        50.43        17.13         8.38 
TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YM TCGA-A2-A0YT 
       18.71        20.75        18.21        21.90        31.73        23.77 
TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A3XS 
       17.36        22.45        19.20        16.31        18.15        33.93 
TCGA-A2-A3XT TCGA-A2-A3XY TCGA-A2-A4S1 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ 
       83.01        34.98        26.96        38.30        35.31        30.61 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26G TCGA-A7-A26H 
       35.67        33.11        31.73        12.72        23.74        23.80 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VX 
       14.50        21.17        14.73        12.10        10.29        10.42 
TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 
       13.02         1.02        17.98        29.03         1.02        17.03 
TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U 
       18.97        12.00        17.03         9.99         8.98        24.99 
TCGA-A8-A07W TCGA-A8-A085 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I 
        9.99        36.95        38.01        28.96        33.01        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A091 
       37.05         9.99        31.00         0.99        43.00        33.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       30.97        17.95         9.99        12.00         1.02        49.05 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-AC-A23H TCGA-AC-A2FM 
       29.98        33.07        25.02         8.98         2.66        26.04 
TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3OD TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OQ 
        1.02         2.27        14.83         1.12         0.69         1.12 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.33         0.23         0.62         1.71         8.02         6.51 
TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FW 
        0.16         0.33         4.64         7.96         7.59         0.36 
TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XT 
        0.33         0.33         0.33         0.33        12.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 
        0.33        80.28        81.63        52.18        37.48        20.32 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KQ 
       71.80       102.58       106.78        96.10        64.04        61.87 
TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP 
       70.39        24.79       130.09         2.56        32.91       111.32 
TCGA-AR-A0TS TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AN 
       74.79       101.95        85.97        61.84        52.77        43.73 
TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24Q 
       43.56        37.81       109.58        50.89        96.89       101.52 
TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LR 
       85.35        78.48        58.92        93.83         7.36        20.38 
TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0IA TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IQ 
       20.45       143.38       220.90       176.98        18.77       140.88 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WS 
       68.45       189.01       102.77       100.70       131.21        97.48 
TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A401 
       79.63       113.79       186.48        43.59       101.52        85.35 
TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 
       49.94        24.53        20.45        39.55        39.16        56.94 
TCGA-BH-A0BC TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0DI 
       32.02        44.05        53.69        45.57        41.75        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0E6 TCGA-BH-A0E9 
       13.91        48.23         3.22         2.56         9.63        46.19 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0HI TCGA-BH-A0HU TCGA-BH-A0HY 
       24.49        30.35        23.08        20.38        12.89        50.79 
TCGA-BH-A0WA TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       23.05        37.74        55.63         7.36        51.39        51.16 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F0 TCGA-BH-A1FC TCGA-BH-A1FN TCGA-BH-A201 
       12.00        55.69        25.81       114.15        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L 
        0.72        38.60        57.83       130.16         0.99        11.93 
TCGA-C8-A12M TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A130 
       11.77        11.77         0.07        12.66        12.66         3.12 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM 
       10.92        11.34        11.34         0.16        12.03         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27B 
        3.25         0.30         0.23         0.43         0.03         0.99 
TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A143 TCGA-D8-A1J9 TCGA-D8-A1JD TCGA-D8-A1JJ 
        0.23        20.88        14.17        17.49        18.15        20.09 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1XA TCGA-D8-A1XB 
       20.09        19.40        21.01        18.58        27.58        18.15 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XU 
       21.83        14.50        19.92        16.41         6.35        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27H 
       15.16        12.66        16.54        15.52        14.24        13.05 
TCGA-D8-A27N TCGA-D8-A27R TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A14N TCGA-E2-A14O 
        4.80        10.09        46.59        37.51        47.15        44.68 
TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 
       40.96        38.60        34.26        17.03        25.41        19.43 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A1IE 
       14.79        25.05        23.34        20.71        18.21        38.30 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LG 
       33.73        33.70        20.98        27.42        24.59        18.87 
TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N8 
      102.61        43.04        34.92        19.89         9.21        12.00 
TCGA-E9-A1NF TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 
       20.05        20.81        40.24        21.27        34.59        34.13 
TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1J6 
       12.89         0.69         0.23         0.26        14.40        28.77 
TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PB 
       22.82        40.41        29.82        23.11         7.86        19.99 
TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 
        6.15        19.96        52.73        17.49         7.40       109.87 
TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LL-A5YM 
       53.13        43.04        42.71        42.28        69.30        15.32 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A8F5 TCGA-OL-A5RW TCGA-OL-A66P 
       14.79         3.88         4.14         6.21        36.36        14.07 
TCGA-OL-A6VO TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA0Z 
       28.21         0.23         3.95        16.50         8.65        10.59 
TCGA-S3-AA10 
        7.92 

$`AMP PEAK  5(3Q26.32) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N 
       13.68        31.79         7.96        39.32        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       41.95        82.16        22.06        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        64.57       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0D3 
      107.93        75.25         5.19        64.04        34.55        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ 
       25.22       101.72        89.36        80.28       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX 
       74.40        37.05        35.05        34.29        29.75        24.72 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T4 
       99.19        54.64        44.88        44.28        17.52        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH 
       17.46        18.90        32.55        25.28        15.42        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FX 
       14.50        18.61        19.33        48.46        23.47        36.79 
TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C 
       20.25        19.56        16.47        52.47       107.70        17.19 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX 
       49.48        38.40        31.99        38.37         7.30        24.39 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH 
       21.30        23.21        21.14        21.90        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       37.45        10.72        23.61        29.56        31.36        24.26 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       11.28        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P 
       17.92        10.72        11.05         9.37         8.75        13.02 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       53.06        31.00        26.01        53.98         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07Z 
       19.99        18.97        14.01        10.98         7.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08G TCGA-A8-A08O 
       18.05        15.06        13.02         0.99        19.96        31.00 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       33.01        93.04        40.01        41.98        12.00         9.99 
TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       50.04        45.07         1.02        19.04        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
       14.01        12.00        19.04        13.02        21.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
       13.02        17.03        38.04         0.95         2.37        10.85 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        1.48        38.53        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP 
       38.79        50.70         0.92         0.99         0.69        22.19 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12        16.57        19.79        23.24        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP 
        0.07         1.81         1.18         0.43         1.68         1.74 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK 
        1.32         0.33         0.33         2.96         1.78         7.36 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         0.33         6.44         7.00         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FY TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        6.02         0.33         0.33         0.30         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R 
        5.33         5.59        47.84        66.77        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 
       47.87        59.05        29.13        32.78        21.40        24.16 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
       22.36        53.03        21.53        50.70        50.86        72.00 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       76.77        21.37        26.24        50.24        62.04        55.33 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F 
       99.25       108.72        90.58        77.56        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KS TCGA-AO-A1KT 
       41.62        28.37        14.73        82.62         0.53        17.79 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ 
       26.93         5.65        15.62        32.52         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
        5.26        86.66        29.75        98.93        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AK 
       76.14        65.36        83.87       114.02        75.55        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU 
       48.82        62.56        39.98        43.07        17.23        76.21 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24L TCGA-AR-A24N 
       61.28        63.62        62.14        20.22        73.02        78.51 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
       84.20         0.85        87.22        76.01        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE 
       83.77        79.00        56.15        73.18        72.76       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       20.25        62.86        42.87        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 
       40.54        54.74        16.04        10.59        77.62       149.59 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
       12.13       129.57        50.70        65.72       146.50       112.37 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RI 
      126.12        84.59       110.14       110.93       211.56       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT 
       81.17        78.02       172.96       162.05       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 
      157.41       188.68        17.98        21.47       129.57       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU 
       28.27        68.94        58.88        73.51       139.17       170.17 
TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ 
       54.28       103.63        55.00        38.79        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       46.95        40.83        48.36        56.98        51.68        37.22 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        24.85        21.70        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       48.69        27.19        53.95        49.94        11.67        49.05 
TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       44.02        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       38.01        17.26        15.65        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA 
       16.27         4.41        15.68        14.30        44.81        32.65 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       31.00        24.43        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO 
       24.56        41.00        52.96        26.50         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 
       13.61        36.85        51.32        27.25         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       24.95        42.35        44.81         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R 
       20.12        90.84        26.66        72.56        30.28        37.55 
TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       66.05        69.93        91.99       113.82        82.85        42.28 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       49.58        17.69        31.53        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      120.62        33.17        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A28O 
       55.00        45.63       144.59        72.07        83.31        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O 
        6.44        20.12       109.28         8.94        11.77        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 
       12.66        12.66         1.78         1.45         0.69         0.62 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HL TCGA-C8-A26X TCGA-C8-A26Z 
        3.85         3.75        12.33        10.42         0.36         8.28 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Y 
        9.67         0.03         0.03        12.20         0.03        11.90 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
       13.25        20.58        13.97        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF 
       14.17        16.50        18.71        15.78        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JS 
       12.03        14.01        18.97        20.12        20.38        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       13.32        14.70        17.79        16.73        25.74        23.90 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO 
        2.66        17.16        15.22        14.73        17.69         7.96 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E 
       15.85        16.31        15.32         3.81        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       16.04        13.45        14.43         9.44        16.41        13.48 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        0.76        13.08        12.53        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10C 
        7.33        43.00        34.42        27.52        40.41        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       28.44        28.87        38.24        33.17        33.30        43.33 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 
       32.02        31.96        28.60        27.12        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I 
       23.87        22.82        17.29        21.63        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
       19.40         9.04        20.58         7.73        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
       17.06        14.07        14.99        60.53        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF 
       29.95        32.35        28.50        16.47        17.10        37.41 
TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       32.78        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH 
       54.18        39.62        19.66        40.47        28.90       106.75 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
        8.75        16.93         5.52        15.72         7.20        30.61 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA 
       19.00        19.20        36.82        13.48        13.12        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       39.55        12.59        35.77        21.57         9.86        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 
       14.30         0.62         2.10         6.12         1.38         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RI 
       21.21        32.09         0.66        34.65         6.58        35.64 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22G 
        0.79        12.53        13.32        39.09        22.75        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       24.10        17.06         0.85        27.22         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       24.56         0.72        17.75         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE 
        0.62        15.72        12.33        14.70        13.81        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       12.20        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 
       16.57        15.68        25.94        29.95        29.85        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PD 
       39.78        52.96        18.48        30.08        18.90        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW 
       10.52        14.43        34.55        55.00        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC 
       21.27        10.16        10.59        59.57       194.27        53.52 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       18.12        11.84        11.57        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.60         8.75         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Z 
       17.06        14.70        14.47        11.57         2.63         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         3.22         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       34.92        16.87        24.72        22.32        20.38        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.47        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-AA11 TCGA-S3-AA12 
       19.73         0.16         0.26         6.81         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A 
        7.17         6.87         3.91         5.29         9.60         9.14 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                        220.90                         234.28 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                         21.14                          23.24 
[1] "0.0 - 220.9 (21.1)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1"  
D5V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  5(3Q26.32) MUTATED        19       20        1        2       128
  AMP PEAK  5(3Q26.32) WILD-TYPE      64       60        8        3       214
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  5(3Q26.32) MUTATED          70         0         43         13
  AMP PEAK  5(3Q26.32) WILD-TYPE       164         2         99         16
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  5(3Q26.32) MUTATED           18        7         0       4
  AMP PEAK  5(3Q26.32) WILD-TYPE         45       11         1      12
D5V3, multiclass
            clus
vv           AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  STAGE I                              19                             64
  STAGE IA                             20                             60
  STAGE IB                              1                              8
  STAGE II                              2                              3
  STAGE IIA                           128                            214
  STAGE IIB                            70                            164
  STAGE III                             0                              2
  STAGE IIIA                           43                             99
  STAGE IIIB                           13                             16
  STAGE IIIC                           18                             45
  STAGE IV                              7                             11
  STAGE TIS                             0                              1
  STAGE X                               4                             12
[1] 13  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(3Q26.32) MUTATED    64 215  30  16
  AMP PEAK  5(3Q26.32) WILD-TYPE 201 379  94  23
D5V4, multiclass
    clus
vv   AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  T1                           64                            201
  T2                          215                            379
  T3                           30                             94
  T4                           16                             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                              N0  N1  N2  N3
  AMP PEAK  5(3Q26.32) MUTATED   161  97  41  21
  AMP PEAK  5(3Q26.32) WILD-TYPE 320 242  72  53
D5V5, multiclass
    clus
vv   AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  N0                          161                            320
  N1                           97                            242
  N2                           41                             72
  N3                           21                             53
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK  5(3Q26.32) MUTATED          0 287   7  31
  AMP PEAK  5(3Q26.32) WILD-TYPE        5 567  12 116
D5V6, multiclass
          clus
vv         AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                287                            567
  M1                                  7                             12
  MX                                 31                            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V7, binary
                                cls
clus                               0   1
  AMP PEAK  5(3Q26.32) MUTATED   321   4
  AMP PEAK  5(3Q26.32) WILD-TYPE 693   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED    321    4
  AMP PEAK  5(3Q26.32) WILD-TYPE  693    7
        clus
vv       AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  FEMALE                          321                            693
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK  5(3Q26.32) MUTATED                            1
  AMP PEAK  5(3Q26.32) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  5(3Q26.32) MUTATED                             286
  AMP PEAK  5(3Q26.32) WILD-TYPE                           468
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  5(3Q26.32) MUTATED                               12
  AMP PEAK  5(3Q26.32) WILD-TYPE                            163
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK  5(3Q26.32) MUTATED                     5
  AMP PEAK  5(3Q26.32) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  5(3Q26.32) MUTATED                                  6
  AMP PEAK  5(3Q26.32) WILD-TYPE                               23
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  5(3Q26.32) MUTATED                    1             13
  AMP PEAK  5(3Q26.32) WILD-TYPE                 14             31
D5V8, multiclass
                                  clus
vv                                 AMP PEAK  5(3Q26.32) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             286
  INFILTRATING LOBULAR CARCINOMA                             12
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            6
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             13
                                  clus
vv                                 AMP PEAK  5(3Q26.32) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               468
  INFILTRATING LOBULAR CARCINOMA                              163
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             23
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V9, binary
                                cls
clus                               0   1
  AMP PEAK  5(3Q26.32) MUTATED   103 222
  AMP PEAK  5(3Q26.32) WILD-TYPE 179 521
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED    103  222
  AMP PEAK  5(3Q26.32) WILD-TYPE  179  521
     clus
vv    AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  NO                           103                            179
  YES                          222                            521
[1] 2 2
[1] FALSE
D5V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  5(3Q26.32) MUTATED                                  1    25
  AMP PEAK  5(3Q26.32) WILD-TYPE                                0    31
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  5(3Q26.32) MUTATED                          58   202
  AMP PEAK  5(3Q26.32) WILD-TYPE                       100   515
D5V11, multiclass
                                  clus
vv                                 AMP PEAK  5(3Q26.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      25
  BLACK OR AFRICAN AMERICAN                                  58
  WHITE                                                     202
                                  clus
vv                                 AMP PEAK  5(3Q26.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        31
  BLACK OR AFRICAN AMERICAN                                   100
  WHITE                                                       515
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V12, binary
                                cls
clus                               0   1
  AMP PEAK  5(3Q26.32) MUTATED     7 261
  AMP PEAK  5(3Q26.32) WILD-TYPE  29 565
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED      7  261
  AMP PEAK  5(3Q26.32) WILD-TYPE   29  565
                        clus
vv                       AMP PEAK  5(3Q26.32) MUTATED
  HISPANIC OR LATINO                                7
  NOT HISPANIC OR LATINO                          261
                        clus
vv                       AMP PEAK  5(3Q26.32) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            565
[1] 2 2
[1] FALSE

Clustering(6) Variable = AMP PEAK  6(4Q13.3) MUTATION ANALYSIS
D6V1, survival
                               sevent
clus2                             0   1
  AMP PEAK  6(4Q13.3) MUTATED   130  23
  AMP PEAK  6(4Q13.3) WILD-TYPE 756  96
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          153                           852 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                           23                            96 
$`AMP PEAK  6(4Q13.3) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A0CL 
       13.68        28.01        18.02        73.84        64.04        64.57 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0T1 TCGA-A2-A0T3 
       75.25         5.19        79.76        35.05        17.13        18.71 
TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G0 TCGA-A2-A3XT TCGA-A2-A3Y0 TCGA-A2-A4S1 
       23.77        17.36        20.25        83.01        38.37        26.96 
TCGA-A7-A4SB TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X 
       13.74        10.29        13.02         1.02        29.03        31.00 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07R 
        1.02        17.03         9.01        19.99        18.97         8.98 
TCGA-A8-A07W TCGA-A8-A08G TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A091 
        9.99        19.96         0.99        33.01        93.04        33.01 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09M TCGA-A8-A0A9 TCGA-AC-A2QJ TCGA-AC-A3W5 
       12.00         9.99        33.07        13.02         2.27        16.57 
TCGA-AC-A62V TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0FY TCGA-AN-A0XU TCGA-AO-A03O 
        0.07         1.78         1.71         0.33         0.33        81.63 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0JD TCGA-AO-A0JL 
       29.13        32.78        21.40        52.18        72.00        55.33 
TCGA-AO-A0JM TCGA-AO-A12D TCGA-AQ-A04L TCGA-AQ-A54O TCGA-AR-A0TS TCGA-AR-A0TW 
       71.80        64.04       130.09        32.91        74.79        98.93 
TCGA-AR-A0U4 TCGA-AR-A1AN TCGA-AR-A1AR TCGA-AR-A24H TCGA-AR-A250 TCGA-AR-A2LL 
       85.97        43.73        17.23       109.58        56.15         7.36 
TCGA-AR-A2LR TCGA-B6-A0RG TCGA-B6-A0RS TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY 
       20.38        68.45       100.70        24.53        20.45        25.55 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BG TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0H7 
       56.94        56.98        24.85        11.67        41.75        23.08 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18U 
       27.25        50.79        20.12        26.66        37.74        51.39 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1FC TCGA-BH-A1FM TCGA-BH-A1FU 
       55.69        49.58        25.81       114.15        45.63        72.07 
TCGA-BH-A203 TCGA-BH-A208 TCGA-C8-A12O TCGA-C8-A12W TCGA-C8-A1HK TCGA-C8-A1HN 
       38.60        57.83        12.66        12.66        12.03         3.25 
TCGA-C8-A26W TCGA-C8-A26Y TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JG TCGA-D8-A1JH 
        0.23         0.43        16.50        18.15        12.03        14.01 
TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1XA TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XZ 
       21.01        13.32        27.58        15.22        14.50        15.32 
TCGA-D8-A1Y0 TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A14N 
       15.52        13.48        10.09        12.26        46.59        47.15 
TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15E 
       40.96        38.60        33.17        27.12        23.34        20.71 
TCGA-E2-A15O TCGA-E2-A1IO TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A56Z TCGA-E9-A1R6 
       13.02        20.98        19.66        24.59         7.20         2.76 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 
       20.81        40.24        34.65        23.51        17.06         0.69 
TCGA-E9-A247 TCGA-E9-A2JS TCGA-E9-A5UP TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1PB 
       27.22        17.75        14.40        29.85        29.82        19.99 
TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV TCGA-GI-A2C8 TCGA-GI-A2C9 
       13.94        19.96        52.73        25.91         7.40       109.87 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-OL-A66I TCGA-OL-A6VO 
       53.13        42.71        14.79         3.22        23.47        28.21 
TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-Z7-A8R5 
        6.81         7.92       100.01 

$`AMP PEAK  6(4Q13.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP 
       47.24        20.88        31.79         7.96        39.32        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V 
       18.21       104.81        41.95        82.16        22.06        63.12 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       55.43        36.13       136.73        24.79       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX 
       88.60       107.93        75.55        63.45        64.04        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       21.14        34.55        33.76        28.77        25.22       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU 
       89.36        80.28       107.61        74.40        37.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU 
       31.82        29.75        24.72        24.16        99.19        54.64 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 
       27.12        44.88        50.43        44.28        17.52         8.38 
TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD 
       20.52        17.46        18.90        20.75        32.55        25.28 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ 
       18.21        15.42        21.90        21.67        14.50        18.61 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ 
       19.33        48.46        31.73        23.47        36.79        22.45 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B 
       19.20        19.56        16.47        52.47       107.70        16.31 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       33.93        29.98        32.75        49.48        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       31.99         7.30        24.39        21.30        23.21        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       21.90        38.30        35.31        34.29        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       37.45        35.67        33.11        31.73        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD 
       11.28        13.41        14.70        11.97        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       21.17        17.92        14.73        12.10        10.72        11.05 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T 
        9.37        10.42         8.75        13.02        17.98        53.06 
TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J 
       26.01        53.98        43.00        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z 
       17.03         9.99        10.98         7.99        24.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B 
       18.05        15.06        36.95        13.02         0.99        38.01 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       28.96        33.01        12.00        37.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       31.00        43.00        40.01        30.97        17.95        41.98 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
        9.99        12.00         1.02        50.04        49.05        45.07 
TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       29.98         1.02        25.02         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
        0.99        14.01        12.00        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
        0.99        17.03        38.04         0.95         2.37        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        2.66         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       36.99        38.79        26.04        50.70         1.02         0.92 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 
        0.99         0.69        14.83        22.19         1.12        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       23.24        24.79         1.55         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR 
        0.69         0.43         1.68         1.74         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        0.33         0.33         0.23         0.33         0.62         2.96 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        8.02         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         6.44         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        7.17         6.28         6.02         0.33         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         5.33         5.59        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J5 
       66.77        84.69        68.75        47.87        59.05        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       37.48        20.32        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
      102.58        99.25       108.72       106.78        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H 
       82.62        61.87        70.39         0.53        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 
       26.93         5.65        15.62        32.52         2.56         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX 
      111.32        49.32         5.26        86.66        29.75        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       55.86        76.14        65.36       101.95        83.87       114.02 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       75.55        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       43.56        39.98        43.07        37.81        76.21        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       63.62        62.14        20.22        50.89        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T 
       78.51        84.20         0.85       101.52        87.22        76.01 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 
       53.36        85.35        50.96        83.77        79.00        78.48 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       73.18        72.76        58.92        93.83       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86        42.87        40.04        38.17        39.39        40.54 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
      146.50       112.37       176.98        18.77       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI 
      110.14       110.93       140.88       211.56       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
       89.46       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       17.98        21.47       113.79       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI 
       28.27        68.94        58.88        43.59       101.52        73.51 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B 
      139.17       170.17        85.35        54.28        49.94       103.63 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       55.00        38.79        28.50        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       39.16        48.36        51.68        37.22        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       25.71        21.70        44.05        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ 
       27.19        53.69        53.95        45.57        49.94        49.05 
TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       44.02        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       38.01        22.13        13.91        48.23        17.26        15.65 
TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ 
        3.22         2.56        38.47        45.17        47.41        16.27 
TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 
        4.41        15.68        14.30         9.63        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       32.65        24.49        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA 
       15.16        37.78        35.51        24.56        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       12.89        51.32         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18K 
       44.81        23.05         8.81         2.01         7.23        90.84 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
       72.56        30.28        55.63        37.55        66.05         7.36 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       51.16        69.93        91.99       113.82        82.85        42.28 
TCGA-BH-A1EV TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       12.00        17.69        31.53        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      120.62        33.17        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 
       55.00        72.07       144.59         6.90         0.72        83.31 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
      130.16        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q 
        8.94        11.93        11.77        11.77        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 
       12.66        12.66        12.66         3.12         1.78         1.45 
TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        0.69         0.62         3.85         3.75        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V 
       11.34        11.34         0.16        10.42         2.30         0.30 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.36         8.28         9.67         0.03         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z 
       12.20         0.99         0.03         0.23        11.90        20.88 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
       13.25        20.58        13.97        14.17        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE 
       19.20        14.17        17.49        18.71        15.78        18.90 
TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       12.03        18.97        20.09        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 
       20.38        12.20        14.70        18.58        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG 
       25.74        23.90        18.15         2.66        17.16        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       21.83        19.92        17.69         7.96        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY 
       16.31         6.35        12.99        15.16        12.66        16.54 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G 
        3.81        14.24        14.14        17.42        16.04        13.45 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P 
       13.05        14.43         9.44        16.41         4.80         0.76 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       13.08        12.53        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       34.42        27.52        40.41        37.51        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V 
       28.87        44.68        38.24        33.30        43.33        34.26 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 
       32.02        31.96        28.60        17.03        25.41        23.24 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C 
       19.43        21.04        23.87        14.79        25.05        22.82 
TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       17.29        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
        9.04        20.58         7.73        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.99        60.53        53.62        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG 
       28.50        16.47        17.10        38.30        37.41        32.78 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       33.73        33.70        28.44        22.65         3.88        22.19 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LB TCGA-E2-A1LE 
       11.08        54.18        27.42        39.62        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 
       18.87       106.75       102.61         8.75        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 
        5.52        15.72        30.61        34.92        19.89        19.00 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
        9.21        19.20        36.82        13.48        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       36.56        39.55        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
        9.86        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG 
        1.38        21.21        32.09         0.66         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.59        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A248 
       39.09        22.75        12.89        24.10         0.85         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        0.95        24.56         0.72         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
        0.62        15.72        12.33         0.23        14.70         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       13.81        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV 
       18.90        13.25        16.57        15.68        28.77        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       22.82        29.95        40.41        41.13        39.78        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC 
       23.11        18.48        30.08         7.86        18.90         6.15 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FW TCGA-EW-A3E8 
       10.52        14.43        34.55        55.00        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC 
       17.49        10.16        10.59        59.57       194.27        53.52 
TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       43.04        42.28        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL 
       77.33        53.36       110.50        38.20        43.73        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
       11.44        10.95         7.59        17.06        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.47        11.57         2.63         3.88         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       34.92        36.36        16.87        24.72        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       26.70        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
       14.07        19.73         0.23         0.16         0.26         3.95 
TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
       16.50         8.65        10.59         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        6.87         3.91         5.29         9.60         9.14       105.04 

  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                         0.07                          0.03 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                       130.09                        234.28 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                        23.34                         22.32 
[1] "0.1 - 130.1 (23.3)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.6"
D6V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  6(4Q13.3) MUTATED        11        9        2        1        57
  AMP PEAK  6(4Q13.3) WILD-TYPE      72       71        7        4       285
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  6(4Q13.3) MUTATED          35         0         19          7
  AMP PEAK  6(4Q13.3) WILD-TYPE       199         2        123         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  6(4Q13.3) MUTATED           10        4         0       3
  AMP PEAK  6(4Q13.3) WILD-TYPE         53       14         1      13
D6V3, multiclass
            clus
vv           AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  STAGE I                             11                            72
  STAGE IA                             9                            71
  STAGE IB                             2                             7
  STAGE II                             1                             4
  STAGE IIA                           57                           285
  STAGE IIB                           35                           199
  STAGE III                            0                             2
  STAGE IIIA                          19                           123
  STAGE IIIB                           7                            22
  STAGE IIIC                          10                            53
  STAGE IV                             4                            14
  STAGE TIS                            0                             1
  STAGE X                              3                            13
[1] 13  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(4Q13.3) MUTATED    40  89  18  11
  AMP PEAK  6(4Q13.3) WILD-TYPE 225 505 106  28
D6V4, multiclass
    clus
vv   AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  T1                          40                           225
  T2                          89                           505
  T3                          18                           106
  T4                          11                            28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             N0  N1  N2  N3
  AMP PEAK  6(4Q13.3) MUTATED    70  58  14  12
  AMP PEAK  6(4Q13.3) WILD-TYPE 411 281  99  62
D6V5, multiclass
    clus
vv   AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  N0                          70                           411
  N1                          58                           281
  N2                          14                            99
  N3                          12                            62
[1] 4 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                            CM0 (I+)  M0  M1  MX
  AMP PEAK  6(4Q13.3) MUTATED          0 139   4  15
  AMP PEAK  6(4Q13.3) WILD-TYPE        5 715  15 132
D6V6, multiclass
          clus
vv         AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               139                           715
  M1                                 4                            15
  MX                                15                           132
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V7, binary
                               cls
clus                              0   1
  AMP PEAK  6(4Q13.3) MUTATED   155   3
  AMP PEAK  6(4Q13.3) WILD-TYPE 859   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED    155    3
  AMP PEAK  6(4Q13.3) WILD-TYPE  859    8
        clus
vv       AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  FEMALE                         155                           859
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  AMP PEAK  6(4Q13.3) MUTATED                            0
  AMP PEAK  6(4Q13.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  6(4Q13.3) MUTATED                             140
  AMP PEAK  6(4Q13.3) WILD-TYPE                           614
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  6(4Q13.3) MUTATED                                6
  AMP PEAK  6(4Q13.3) WILD-TYPE                            169
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  6(4Q13.3) MUTATED                     2
  AMP PEAK  6(4Q13.3) WILD-TYPE                   4
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  6(4Q13.3) MUTATED                                  1
  AMP PEAK  6(4Q13.3) WILD-TYPE                               28
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  6(4Q13.3) MUTATED                    1              8
  AMP PEAK  6(4Q13.3) WILD-TYPE                 14             36
D6V8, multiclass
                                  clus
vv                                 AMP PEAK  6(4Q13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            140
  INFILTRATING LOBULAR CARCINOMA                             6
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           1
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                             8
                                  clus
vv                                 AMP PEAK  6(4Q13.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              614
  INFILTRATING LOBULAR CARCINOMA                             169
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            28
  MUCINOUS CARCINOMA                                          14
  OTHER  SPECIFY                                              36
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V9, binary
                               cls
clus                              0   1
  AMP PEAK  6(4Q13.3) MUTATED    49 109
  AMP PEAK  6(4Q13.3) WILD-TYPE 233 634
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED     49  109
  AMP PEAK  6(4Q13.3) WILD-TYPE  233  634
     clus
vv    AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  NO                           49                           233
  YES                         109                           634
[1] 2 2
[1] FALSE
D6V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  6(4Q13.3) MUTATED                                  1     8
  AMP PEAK  6(4Q13.3) WILD-TYPE                                0    48
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  6(4Q13.3) MUTATED                          26    98
  AMP PEAK  6(4Q13.3) WILD-TYPE                       132   619
D6V11, multiclass
                                  clus
vv                                 AMP PEAK  6(4Q13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 26
  WHITE                                                     98
                                  clus
vv                                 AMP PEAK  6(4Q13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                  132
  WHITE                                                      619
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V12, binary
                               cls
clus                              0   1
  AMP PEAK  6(4Q13.3) MUTATED     8 121
  AMP PEAK  6(4Q13.3) WILD-TYPE  28 705
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED      8  121
  AMP PEAK  6(4Q13.3) WILD-TYPE   28  705
                        clus
vv                       AMP PEAK  6(4Q13.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         121
                        clus
vv                       AMP PEAK  6(4Q13.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           705
[1] 2 2
[1] FALSE

Clustering(7) Variable = AMP PEAK  7(5P15.33) MUTATION ANALYSIS
D7V1, survival
                                sevent
clus2                              0   1
  AMP PEAK  7(5P15.33) MUTATED   323  44
  AMP PEAK  7(5P15.33) WILD-TYPE 563  75
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           367                            638 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                            44                             75 
$`AMP PEAK  7(5P15.33) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P 
       13.68        31.79        39.32        28.01        19.20        18.02 
TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0EN 
       73.84        64.04        56.81        21.14        33.76        89.36 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EX 
       80.28        79.76        35.05        34.29        31.82        24.72 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0T7 
       27.12        44.88        17.13        18.71        18.90        20.75 
TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       18.21        21.90        31.73        23.77        17.36        36.79 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XY 
       20.25        19.20        16.31        29.98        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       31.99         7.30        24.39        26.96        21.14        21.90 
TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       38.30        30.61        33.11        31.73        10.72        12.72 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A425 TCGA-A7-A4SB TCGA-A7-A4SD 
       21.73        20.61        22.32        14.70        13.74        14.50 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       17.92        14.73        12.10        10.29         9.37        10.42 
TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z 
       13.02         1.02        29.03        31.00        26.01         1.02 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07O TCGA-A8-A07U TCGA-A8-A07W 
       17.03         9.01        18.97         9.99        24.99         9.99 
TCGA-A8-A07Z TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I 
       28.04        13.02        38.01        33.01        19.96        12.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A093 TCGA-A8-A095 
       31.00         0.99        33.01        43.00        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
       12.00         9.99        12.00         1.02        25.02         8.98 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A23G 
       14.01        12.00        13.02        13.02         2.37        10.85 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A62V TCGA-AC-A8OP 
        1.48        38.53         2.27         0.69         0.07         1.74 
TCGA-AC-A8OQ TCGA-AN-A03Y TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM 
        1.12         0.33         1.78         8.02         7.36         0.16 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FX TCGA-AN-A0FY 
        0.33         0.33         7.96         7.00         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33        12.33         0.33        80.28        47.84 
TCGA-AO-A03O TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JC 
       81.63        21.40        37.48        20.32        53.03        50.86 
TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
       76.77        55.33        71.80       106.78        90.58        77.56 
TCGA-AO-A12E TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A54N 
       57.30        70.39         0.53        24.79         5.65         2.56 
TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U1 
       32.91       111.32         5.26        29.75        98.93       101.95 
TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AM TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24H 
       61.84        51.25        62.56        61.28        20.22       109.58 
TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A254 TCGA-AR-A255 
       87.22        53.36        85.35        50.96        72.76        58.92 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I1 
       42.87         7.36        20.38        54.74        20.45        77.62 
TCGA-B6-A0I2 TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0WT 
      143.38       176.98       110.14       140.88       211.56       188.68 
TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A408 
       79.63       113.79       186.48       101.52        73.51        49.94 
TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B5 
      103.63        24.53        38.79        20.45        39.55        48.36 
TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BP 
       56.98        37.22        25.71        21.70        44.05        48.69 
TCGA-BH-A0BR TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP 
       53.69        44.02        42.90        22.13        48.23        15.65 
TCGA-BH-A0DS TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H7 TCGA-BH-A0HP 
        2.56        24.49        31.00        24.43        23.08        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       36.85        27.25        50.79        42.35        44.81        23.05 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18T TCGA-BH-A18U 
       90.84        26.66        72.56        37.74         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       51.16        69.93        91.99        42.28        12.00        55.69 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FM TCGA-BH-A202 
       17.69        25.81        31.53        97.48        45.63         0.72 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A2L8 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P 
       38.60        57.83        20.12        11.93        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HI 
        0.07         3.12         1.78         0.62        12.33        11.34 
TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A142 
       12.03         2.30         0.99         0.23        11.90        13.97 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       21.14        14.17        17.49        18.90        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JT TCGA-D8-A1X6 
       14.01        20.09        20.12        20.09        13.32        17.79 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XS 
       23.90        27.58        18.15        14.50        19.92        16.31 
TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 
       12.99        12.66        16.54        15.32        15.52        14.24 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A107 TCGA-E2-A10B 
       13.05        14.43        12.53        12.26        34.42        37.51 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14Y TCGA-E2-A14Z 
       44.68        40.96        33.17        33.30        28.60        17.03 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G 
       27.12        23.24        21.04        23.34        20.71        18.21 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B4 
       20.58         7.73        14.07        60.53        53.62        29.95 
TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IU 
       32.35        17.10        33.73        33.70        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       54.18        27.42        19.66        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N6 
        8.75        43.04        16.93        19.89         9.21        13.48 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NI TCGA-E9-A1R3 
       12.00        13.12        36.56        35.77         9.86         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC 
        6.12         1.38         2.76        21.21        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RH TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A249 
        0.66        34.59        23.51        17.06        27.22         0.95 
TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UP 
        0.72        26.07        12.33         0.23         0.26        14.40 
TCGA-EW-A1IY TCGA-EW-A1J3 TCGA-EW-A1J6 TCGA-EW-A1P0 TCGA-EW-A1P4 TCGA-EW-A1P5 
        8.48        16.57        28.77        41.13        29.82        23.11 
TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 
        7.86         6.15        13.94        17.49        10.16       109.87 
TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A3NW TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A5PV 
       53.52        42.28       110.50        69.30        66.38        13.55 
TCGA-LD-A66U TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A7SZ 
       21.24        11.44        15.32        14.79         2.63         5.59 
TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66N 
        6.21         7.36         2.79        36.36        20.38        26.04 
TCGA-PL-A8LX TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R5 
        0.16         6.81         8.65         5.29         9.60       100.01 
TCGA-Z7-A8R6 
      105.04 

$`AMP PEAK  7(5P15.33) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
       47.24        20.88         7.96        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        22.06        63.12        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 
       75.55        75.25         5.19        63.45        64.04        34.55 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
       28.77        25.22       101.72       107.61        74.40        37.05 
TCGA-A2-A0EW TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY 
       29.75        24.16        99.19        54.64        50.43        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0YC TCGA-A2-A0YD 
       17.52         8.38        20.52        17.46        32.55        25.28 
TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       15.42        21.67        14.50        18.61        19.33        48.46 
TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       23.47        22.45        19.56        16.47        52.47       107.70 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3Y0 TCGA-A2-A4RY 
       33.93        83.01        32.75        49.48        38.37        21.30 
TCGA-A2-A4S0 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA 
       23.21        35.31        34.29        35.47        37.45        35.67 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 
       11.34        10.59        10.29        11.28        13.41        11.97 
TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06P 
       14.93        21.17        10.72        11.05         8.75        13.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
       17.98        53.06        53.98        43.00        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S 
       14.01        12.00        17.03        10.98         8.98         7.99 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08J 
       18.05        15.06        36.95         0.99        28.96        37.05 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
        9.99        31.00        93.04        40.01        33.01        30.97 
TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K 
        9.99         1.02        50.04        49.05        45.07        29.98 
TCGA-A8-A09M TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A6 
       33.07        19.04        15.02         0.99        19.04        21.04 
TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2BM 
        0.99        17.03        38.04         0.95         2.66        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        1.02         0.92         0.99        14.83        22.19         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
       16.57        19.79        23.24        24.79         1.55         1.12 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OR 
        1.81         1.18         0.69         0.43         1.68         1.32 
TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D 
        0.33         0.23         0.33         0.62         2.96         1.71 
TCGA-AN-A0AL TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN 
        6.51         0.33         6.44         4.64         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XP 
        6.28         6.02         0.33         0.36         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N 
        0.33         0.33         0.33         5.33         5.59        66.77 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
       84.69        68.75        47.87        59.05        29.13        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD 
       52.18        24.16        22.36        21.53        50.70        72.00 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 
       21.37        26.24        50.24        62.04       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
      108.72        96.10        64.04        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L 
       14.73        82.62        61.87        17.79        26.93       130.09 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT 
       15.62        32.52         9.99        49.32        74.79        86.66 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 
       64.83        55.86        76.14        65.36        83.87       114.02 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO 
       85.97        75.55        52.77        48.82        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW 
       39.98        43.07        17.23        37.81        76.21        63.62 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       62.14        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
        0.85       101.52        76.01        83.77        79.00        56.15 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       78.48        73.18        93.83       128.65        20.25        62.86 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QQ 
       40.04        38.17        39.39        40.54        16.04        10.59 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      146.50       112.37        18.77       126.12        84.59       110.93 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
       68.45       189.01       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU 
      162.05       102.77       140.48       100.70        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 
      157.41        97.48        17.98        21.47       129.57       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A2IU 
       28.27        68.94        58.88        43.59       139.17       170.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40C TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       85.35        54.28        55.00        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD 
       40.83        39.16        56.94        51.68        32.02        18.21 
TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT 
       24.85        61.68        35.67        27.19        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0DD 
       49.94        11.67        49.05        41.75        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ 
       31.17        23.44        38.01        13.91        17.26         3.22 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
       38.47        45.17        47.41        16.27         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0GY 
       14.30         9.63        44.81        46.19        32.65        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       10.78        15.16        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HU 
       52.96        26.50        20.38         5.85         2.50        12.89 
TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A18F TCGA-BH-A18G 
       51.32         5.59        23.93        24.95         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
        7.23        20.12        30.28        55.63        37.55        66.05 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
      113.82        82.85        49.58        89.16        24.66       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      114.15        33.17        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 
       55.00        72.07       144.59        72.07         6.90        83.31 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V 
      130.16        10.65         6.44         0.99       109.28         8.94 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77        11.77        12.66        12.66        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG 
        1.45         0.69         3.85         3.75        10.92        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
        0.16        10.42         3.25         0.30         0.23         0.36 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.43         8.28         9.67         0.03         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 
       12.20         0.03        20.88        13.25        20.58        14.17 
TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       13.48        19.20        16.50        18.71        15.78        18.15 
TCGA-D8-A1JI TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU 
       18.97        19.40        20.38        21.01        12.20        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF 
       18.58        16.73        25.74         2.66        17.16        15.22 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       14.73        21.83        17.69         7.96        16.41        15.85 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
        6.35        15.16         3.81        14.14        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       13.45         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       10.09        13.08        14.50        18.51         7.33        43.00 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
       27.52        46.59        40.41        40.11        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       47.15        38.24        38.60        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 
       31.96        25.41        19.43        23.87        14.79        25.05 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       22.82        17.29        21.63        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B1 
        9.04        13.02        19.56        17.06        14.99        53.03 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ 
       28.50        16.47        38.30        37.41        32.78        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB 
       22.65         3.88        20.98        39.62        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 
       28.90         5.52        15.72         7.20        30.61        34.92 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       19.00        19.20        36.82        39.55        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1RA TCGA-E9-A1RE 
       21.57        11.90        14.30         0.62        32.09        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        6.58        21.27        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A244 
       13.32        39.09        22.75        12.89        24.10         0.69 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
        0.85         1.94        24.56        17.75         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
        0.62        15.72        14.70        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J5 TCGA-EW-A1OV 
       39.72        18.21        18.90        13.25        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P1 TCGA-EW-A1P3 
       22.82        29.95        29.85        40.41        39.78        52.96 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PE TCGA-EW-A1PF 
       18.48        30.08        18.90        19.99        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       34.55        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       21.27        10.59         7.40        59.57       194.27        53.13 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       43.04        42.71        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A4E0 TCGA-GM-A5PX 
       77.33        53.36        38.20        43.73        72.03        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF 
       11.84        11.57         6.67         4.08         4.60         8.75 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO 
        9.53        10.95         7.59        17.06        14.70        14.47 
TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 
       11.57         3.88         4.14         4.50         4.50         3.22 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.10        12.66        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H 
       27.65        34.92        16.87        24.72        22.32        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       23.47        65.62        33.57        31.07         7.23        14.07 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       28.21        19.73         0.23         0.26         3.95        16.50 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
       10.59         7.92         5.56         8.52         7.17         6.87 
TCGA-S3-AA17 TCGA-XX-A89A 
        3.91         9.14 

  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                        21.140                         23.675 
[1] "0.1 - 211.6 (21.1)" "0.0 - 234.3 (23.7)"
[1] "hr=" "1.2"
D7V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  7(5P15.33) MUTATED        29       22        2        3       133
  AMP PEAK  7(5P15.33) WILD-TYPE      54       58        7        2       209
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  7(5P15.33) MUTATED          82         1         56         10
  AMP PEAK  7(5P15.33) WILD-TYPE       152         1         86         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  7(5P15.33) MUTATED           24        7         0       2
  AMP PEAK  7(5P15.33) WILD-TYPE         39       11         1      14
D7V3, multiclass
            clus
vv           AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  STAGE I                              29                             54
  STAGE IA                             22                             58
  STAGE IB                              2                              7
  STAGE II                              3                              2
  STAGE IIA                           133                            209
  STAGE IIB                            82                            152
  STAGE III                             1                              1
  STAGE IIIA                           56                             86
  STAGE IIIB                           10                             19
  STAGE IIIC                           24                             39
  STAGE IV                              7                             11
  STAGE TIS                             0                              1
  STAGE X                               2                             14
[1] 13  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(5P15.33) MUTATED    83 226  47  15
  AMP PEAK  7(5P15.33) WILD-TYPE 182 368  77  24
D7V4, multiclass
    clus
vv   AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  T1                           83                            182
  T2                          226                            368
  T3                           47                             77
  T4                           15                             24
[1] 4 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  N3
  AMP PEAK  7(5P15.33) MUTATED   187 104  52  25
  AMP PEAK  7(5P15.33) WILD-TYPE 294 235  61  49
D7V5, multiclass
    clus
vv   AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  N0                          187                            294
  N1                          104                            235
  N2                           52                             61
  N3                           25                             49
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK  7(5P15.33) MUTATED          0 324   7  41
  AMP PEAK  7(5P15.33) WILD-TYPE        5 530  12 106
D7V6, multiclass
          clus
vv         AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                324                            530
  M1                                  7                             12
  MX                                 41                            106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V7, binary
                                cls
clus                               0   1
  AMP PEAK  7(5P15.33) MUTATED   367   5
  AMP PEAK  7(5P15.33) WILD-TYPE 647   6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED    367    5
  AMP PEAK  7(5P15.33) WILD-TYPE  647    6
        clus
vv       AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  FEMALE                          367                            647
  MALE                              5                              6
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK  7(5P15.33) MUTATED                            1
  AMP PEAK  7(5P15.33) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  7(5P15.33) MUTATED                             289
  AMP PEAK  7(5P15.33) WILD-TYPE                           465
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  7(5P15.33) MUTATED                               54
  AMP PEAK  7(5P15.33) WILD-TYPE                            121
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK  7(5P15.33) MUTATED                     2
  AMP PEAK  7(5P15.33) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  7(5P15.33) MUTATED                                  9
  AMP PEAK  7(5P15.33) WILD-TYPE                               20
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  7(5P15.33) MUTATED                    2             14
  AMP PEAK  7(5P15.33) WILD-TYPE                 13             30
D7V8, multiclass
                                  clus
vv                                 AMP PEAK  7(5P15.33) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             289
  INFILTRATING LOBULAR CARCINOMA                             54
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            9
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             14
                                  clus
vv                                 AMP PEAK  7(5P15.33) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               465
  INFILTRATING LOBULAR CARCINOMA                              121
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               30
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V9, binary
                                cls
clus                               0   1
  AMP PEAK  7(5P15.33) MUTATED   114 258
  AMP PEAK  7(5P15.33) WILD-TYPE 168 485
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED    114  258
  AMP PEAK  7(5P15.33) WILD-TYPE  168  485
     clus
vv    AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  NO                           114                            168
  YES                          258                            485
[1] 2 2
[1] FALSE
D7V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  7(5P15.33) MUTATED                                  1    16
  AMP PEAK  7(5P15.33) WILD-TYPE                                0    40
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  7(5P15.33) MUTATED                          55   259
  AMP PEAK  7(5P15.33) WILD-TYPE                       103   458
D7V11, multiclass
                                  clus
vv                                 AMP PEAK  7(5P15.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      16
  BLACK OR AFRICAN AMERICAN                                  55
  WHITE                                                     259
                                  clus
vv                                 AMP PEAK  7(5P15.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        40
  BLACK OR AFRICAN AMERICAN                                   103
  WHITE                                                       458
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V12, binary
                                cls
clus                               0   1
  AMP PEAK  7(5P15.33) MUTATED    11 302
  AMP PEAK  7(5P15.33) WILD-TYPE  25 524
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED     11  302
  AMP PEAK  7(5P15.33) WILD-TYPE   25  524
                        clus
vv                       AMP PEAK  7(5P15.33) MUTATED
  HISPANIC OR LATINO                               11
  NOT HISPANIC OR LATINO                          302
                        clus
vv                       AMP PEAK  7(5P15.33) WILD-TYPE
  HISPANIC OR LATINO                                 25
  NOT HISPANIC OR LATINO                            524
[1] 2 2
[1] FALSE

Clustering(8) Variable = AMP PEAK  8(6P23) MUTATION ANALYSIS
D8V1, survival
                             sevent
clus2                           0   1
  AMP PEAK  8(6P23) MUTATED   250  32
  AMP PEAK  8(6P23) WILD-TYPE 636  87
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        282                         723 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                         32                          87 
$`AMP PEAK  8(6P23) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04X 
        0.39        31.79        28.01        18.02        73.84        55.43 
TCGA-A2-A0CM TCGA-A2-A0CT TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0EQ 
       24.79        75.25        56.81        21.14        33.76        79.76 
TCGA-A2-A0ET TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T7 
       35.05        31.82        24.16        17.52         8.38        20.75 
TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW 
       18.21        21.90        18.61        31.73        23.77        17.36 
TCGA-A2-A1FX TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A3XS TCGA-A2-A3XV 
       36.79        16.31        17.19        18.15        33.93        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S1 
       49.48        38.40        34.98        38.37         7.30        26.96 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F 
       38.30        35.31        30.61        35.67        31.73        12.72 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A425 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF 
       21.73        20.61        14.70        14.50        21.17        17.92 
TCGA-A7-A56D TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 
       14.73        10.29        13.02        17.98        31.00        17.03 
TCGA-A8-A076 TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07R TCGA-A8-A07U 
       53.98        18.97        14.01        12.00         8.98        24.99 
TCGA-A8-A07W TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08P TCGA-A8-A08R 
        9.99        38.01        28.96        33.01        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       33.01        43.00        30.97         9.99        12.00         1.02 
TCGA-A8-A09E TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       49.05         1.02        25.02        38.04         0.95         2.37 
TCGA-AC-A2BK TCGA-AC-A2QH TCGA-AC-A3W5 TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IW 
       38.53         1.02        16.57         1.55         1.12         0.69 
TCGA-AC-A8OQ TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        1.12         0.33         0.23         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FW 
        8.02         0.33         7.96         7.00         7.59         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XN TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
        0.33         0.33         0.33        80.28        47.84        66.77 
TCGA-AO-A0J4 TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       52.18        72.00        26.24        55.33        71.80       102.58 
TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A1KS TCGA-AQ-A0Y5 TCGA-AQ-A7U7 TCGA-AR-A0TP 
       96.10        77.56         0.53         5.65         9.99       111.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A1AH 
        5.26        74.79        29.75        98.93        65.36        75.55 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24Q TCGA-AR-A250 
       76.21        61.28        20.22       109.58       101.52        56.15 
TCGA-AR-A255 TCGA-AR-A2LL TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IA 
       58.92         7.36        20.38       143.38        12.13       220.90 
TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RS 
      176.98        84.59       110.14        68.45       162.05       100.70 
TCGA-B6-A0RU TCGA-B6-A0WT TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF 
      131.21       188.68       113.79       186.48        43.59       101.52 
TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       54.28        49.94        55.00        38.79        20.45        25.55 
TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL 
       39.55        56.94        37.22        25.71        24.85        44.05 
TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0DH TCGA-BH-A0DQ 
       48.69        45.57        49.05        44.02        38.01         3.22 
TCGA-BH-A0EB TCGA-BH-A0H7 TCGA-BH-A0HQ TCGA-BH-A0RX TCGA-BH-A0W7 TCGA-BH-A0WA 
       24.49        23.08        36.85         5.59        44.81        23.05 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO 
       90.84        26.66         7.36        51.39        69.93        91.99 
TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A203 
       12.00        31.53       114.15        74.73        72.07        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42V TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W 
       57.83       130.16         8.94        11.77         0.07        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HJ 
       12.66         3.12         1.45         3.75        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HM TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A1J8 
       12.03         2.30        20.88        13.97        14.17        14.17 
TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JL TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XJ 
       18.71        12.03        20.09        18.58        23.90        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ 
       14.50        19.92        16.41         6.35        16.54        15.32 
TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27R TCGA-D8-A27V TCGA-E2-A10C TCGA-E2-A14X 
       14.14        16.04        10.09        12.53        40.11        31.96 
TCGA-E2-A14Z TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15M TCGA-E2-A15S 
       17.03        25.05        23.34        17.29         7.73        14.07 
TCGA-E2-A1B0 TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1LG 
       53.62        32.78        33.70         3.88        22.19        18.87 
TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 
      102.61        43.04        16.93         7.20        34.92        19.89 
TCGA-E2-A9RU TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE 
        9.21        12.00        13.12        36.56        12.59        35.77 
TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A244 TCGA-E9-A295 TCGA-E9-A3HO 
       21.21        34.65         6.58         0.69         0.72        26.07 
TCGA-E9-A54Y TCGA-E9-A5UO TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OZ 
        0.23        13.81        28.77        25.94        22.82        40.41 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FV 
       29.82        18.48         7.86        14.43        19.96        25.91 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GM-A2DF TCGA-LD-A7W5 TCGA-LL-A441 TCGA-LL-A5YM 
       17.49        10.16        42.71         4.08        11.44        15.32 
TCGA-LL-A5YN TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
       14.70         3.88         4.14         4.50         5.59         3.22 
TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A6VO 
       58.62        36.36        22.32        20.38        23.47        28.21 
TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-Z7-A8R5 
        0.23         3.95        16.50        10.59         7.92       100.01 

$`AMP PEAK  8(6P23) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        13.68         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W 
      104.81        41.95        82.16        22.06        63.12        64.04 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        64.57       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 
      107.93        75.55         5.19        63.45        64.04        34.55 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       28.77        25.22       101.72        89.36        80.28       107.61 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST 
       74.40        37.05        34.29        29.75        24.72        99.19 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       54.64        27.12        44.88        50.43        44.28        17.13 
TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD 
       18.71        20.52        17.46        18.90        32.55        25.28 
TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV 
       15.42        21.67        14.50        19.33        48.46        23.47 
TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       22.45        20.25        19.20        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT 
      107.70        91.92        10.59        20.88        39.65        83.01 
TCGA-A2-A3XU TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       29.98        31.99        24.39        21.30        23.21        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E 
       21.90        34.29        35.47        37.45        33.11        10.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF 
       22.32        11.34        10.59        10.29        11.28        13.41 
TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       11.97        14.93        13.74        12.10        10.72        11.05 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T 
        9.37        10.42         8.75        13.02         1.02        53.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       29.03        26.01         1.02         9.01        43.00        19.99 
TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07Z 
       18.97        17.03         9.99        10.98         7.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08G 
       18.05        15.06        36.95        13.02         0.99        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z 
       12.00        37.05         9.99        31.00        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09D 
       33.01        17.95        41.98        12.00         9.99        50.04 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       45.07        29.98        33.07         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
        0.99        14.01        12.00        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
        0.99        13.02        17.03        10.85         2.66         1.48 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM 
       38.20        40.57        55.43        36.99        38.79        26.04 
TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       50.70         0.92         2.27         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62V 
       22.19         1.12        19.79        23.24        24.79         0.07 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR 
        1.81         1.18         0.43         1.68         1.74         1.32 
TCGA-AN-A03X TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM 
        0.33         0.33         0.62         7.36         6.51         0.16 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         0.33         6.44         4.64         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP 
        6.02         0.33         0.33         0.33        12.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       81.63        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       32.78        21.40        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.70        50.86        76.77        21.37 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       50.24        62.04        99.25       108.72       106.78        90.58 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       82.62        61.87        70.39        17.79        24.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TQ 
      130.09        15.62        32.52         2.56        32.91        49.32 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       86.66        64.83        55.86        76.14       101.95        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
      114.02        85.97        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       62.56        43.73        43.56        39.98        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       37.81        63.62        62.14        50.89        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U 
       78.51        84.20         0.85        87.22        76.01        53.36 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 
       85.35        50.96        83.77        79.00        78.48        73.18 
TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       72.76        93.83       128.65        20.25        62.86        42.87 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        38.17        39.39        40.54        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC 
       20.45        10.59        77.62       149.59       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IP 
       65.72       146.50       112.37        18.77       126.12       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      140.88       211.56       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      172.96       102.77       140.48        89.46       157.41        97.48 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
       79.63        17.98        21.47       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88        73.51       139.17       170.17        85.35 
TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
      103.63        24.53        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ 
       48.36        56.98        51.68        32.02        18.21        21.70 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV 
       61.68        35.67        27.19        53.69        53.95        49.94 
TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       11.67        41.75        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       23.44        22.13        13.91        48.23        17.26        15.65 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
        2.56        38.47        45.17        47.41        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       15.68        14.30         9.63        44.81        46.19        32.65 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       31.00        24.43        30.35        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       35.51        24.56        41.00        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        5.85         2.50        13.61        12.89        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18F TCGA-BH-A18G 
       50.79        23.93        24.95        42.35         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
        7.23        20.12        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       37.55        66.05        51.16       113.82        82.85        42.28 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 
       55.69        49.58        17.69        25.81        89.16        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
       24.66       120.62        33.17       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       55.00        45.63       144.59        72.07         6.90         0.72 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       83.31        10.65         6.44        20.12         0.99       109.28 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12V 
       11.93        11.77        11.77        12.66        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.78         0.69         0.62         3.85        12.33        10.92 
TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
       11.34        10.42         3.25         0.30         0.23         0.36 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.43         8.28         9.67         0.03         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 
       12.20         0.99         0.03         0.23        11.90        13.25 
TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA 
       20.58        13.48        21.14        19.20        17.49        16.50 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       15.78        18.15        18.90        12.03        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       20.09        20.12        19.40        20.38        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA 
       13.32        14.70        17.79        16.73        25.74        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM 
       18.15         2.66        17.16        15.22        14.73        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
        7.96        15.85        16.31        12.99        15.16        12.66 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H 
       15.52         3.81        14.24        17.42        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       14.43         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27T TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       13.08        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E 
       34.42        27.52        46.59        40.41        37.51        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R 
       28.87        47.15        44.68        40.96        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y 
       33.17        33.30        43.33        34.26        32.02        28.60 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
       25.41        27.12        23.24        19.43        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H 
       14.79        22.82        20.71        21.63        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P 
       17.42        19.40         9.04        20.58        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       17.06        14.99        60.53        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH 
       28.50        16.47        17.10        38.30        37.41        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       28.44        22.65        20.98        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH 
       39.62        19.66        24.59        40.47        28.90       106.75 
TCGA-E2-A1LK TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A576 TCGA-E9-A1N4 
        8.75         5.52        15.72        30.61        19.00        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       36.82        13.48        39.55        20.05        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       11.90        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG 
        2.76        32.09        20.81        40.24         0.66        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.59        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       39.09        22.75        12.89        23.51        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS 
        0.85        27.22         1.94         0.95        24.56        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK 
        0.76        18.41         0.62        15.72        12.33        14.70 
TCGA-E9-A5FL TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26        14.40        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX 
       18.21        18.90        13.25        16.57        15.68        29.95 
TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P7 
       29.85        41.13        39.78        52.96        23.11        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG 
       18.90        19.99         6.15        13.94        10.52        34.55 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 
       55.00        52.73        22.09        21.27        10.59         7.40 
TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
      109.87        59.57       194.27        53.13        53.52        43.04 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.28        61.91        62.33        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN 
       53.36       110.50        38.20        43.73        69.30        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       72.03        13.55        18.12        11.84        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.60         8.75         9.53        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Z 
       17.06        14.47        14.79        11.57         2.63         4.50 
TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        6.21         7.36        27.91         2.79         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
       46.55        31.99        27.65        34.92        16.87        24.72 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       26.70        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-A6ZH 
       14.07        19.73         0.16         0.26         6.81         8.65 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G 
        5.56         8.52         7.17         6.87         3.91         5.29 
TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        9.60         9.14       105.04 

  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                       0.07                        0.03 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                     220.90                      234.28 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                     21.865                      22.750 
[1] "0.1 - 220.9 (21.9)" "0.0 - 234.3 (22.8)"
[1] "hr=" "1"  
D8V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  8(6P23) MUTATED        20       13        3        1        96
  AMP PEAK  8(6P23) WILD-TYPE      63       67        6        4       246
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  8(6P23) MUTATED          68         0         44         11
  AMP PEAK  8(6P23) WILD-TYPE       166         2         98         18
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  8(6P23) MUTATED           20        5         0       4
  AMP PEAK  8(6P23) WILD-TYPE         43       13         1      12
D8V3, multiclass
            clus
vv           AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  STAGE I                           20                          63
  STAGE IA                          13                          67
  STAGE IB                           3                           6
  STAGE II                           1                           4
  STAGE IIA                         96                         246
  STAGE IIB                         68                         166
  STAGE III                          0                           2
  STAGE IIIA                        44                          98
  STAGE IIIB                        11                          18
  STAGE IIIC                        20                          43
  STAGE IV                           5                          13
  STAGE TIS                          0                           1
  STAGE X                            4                          12
[1] 13  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(6P23) MUTATED    52 189  32  12
  AMP PEAK  8(6P23) WILD-TYPE 213 405  92  27
D8V4, multiclass
    clus
vv   AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  T1                        52                         213
  T2                       189                         405
  T3                        32                          92
  T4                        12                          27
[1] 4 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  N3
  AMP PEAK  8(6P23) MUTATED   129  88  40  21
  AMP PEAK  8(6P23) WILD-TYPE 352 251  73  53
D8V5, multiclass
    clus
vv   AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  N0                       129                         352
  N1                        88                         251
  N2                        40                          73
  N3                        21                          53
[1] 4 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                          CM0 (I+)  M0  M1  MX
  AMP PEAK  8(6P23) MUTATED          0 241   5  39
  AMP PEAK  8(6P23) WILD-TYPE        5 613  14 108
D8V6, multiclass
          clus
vv         AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  CM0 (I+)                         0                           5
  M0                             241                         613
  M1                               5                          14
  MX                              39                         108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V7, binary
                             cls
clus                            0   1
  AMP PEAK  8(6P23) MUTATED   284   1
  AMP PEAK  8(6P23) WILD-TYPE 730  10
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED    284    1
  AMP PEAK  8(6P23) WILD-TYPE  730   10
        clus
vv       AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  FEMALE                       284                         730
  MALE                           1                          10
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  AMP PEAK  8(6P23) MUTATED                            0
  AMP PEAK  8(6P23) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  8(6P23) MUTATED                             239
  AMP PEAK  8(6P23) WILD-TYPE                           515
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  8(6P23) MUTATED                               22
  AMP PEAK  8(6P23) WILD-TYPE                            153
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  8(6P23) MUTATED                     4
  AMP PEAK  8(6P23) WILD-TYPE                   2
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  8(6P23) MUTATED                                  5
  AMP PEAK  8(6P23) WILD-TYPE                               24
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  8(6P23) MUTATED                    2             12
  AMP PEAK  8(6P23) WILD-TYPE                 13             32
D8V8, multiclass
                                  clus
vv                                 AMP PEAK  8(6P23) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          239
  INFILTRATING LOBULAR CARCINOMA                          22
  MEDULLARY CARCINOMA                                      4
  MIXED HISTOLOGY (PLEASE SPECIFY)                         5
  MUCINOUS CARCINOMA                                       2
  OTHER  SPECIFY                                          12
                                  clus
vv                                 AMP PEAK  8(6P23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            515
  INFILTRATING LOBULAR CARCINOMA                           153
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          24
  MUCINOUS CARCINOMA                                        13
  OTHER  SPECIFY                                            32
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V9, binary
                             cls
clus                            0   1
  AMP PEAK  8(6P23) MUTATED    87 198
  AMP PEAK  8(6P23) WILD-TYPE 195 545
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED     87  198
  AMP PEAK  8(6P23) WILD-TYPE  195  545
     clus
vv    AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  NO                         87                         195
  YES                       198                         545
[1] 2 2
[1] FALSE
D8V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  8(6P23) MUTATED                                  0    15
  AMP PEAK  8(6P23) WILD-TYPE                                1    41
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  8(6P23) MUTATED                          62   180
  AMP PEAK  8(6P23) WILD-TYPE                        96   537
D8V11, multiclass
                                  clus
vv                                 AMP PEAK  8(6P23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   15
  BLACK OR AFRICAN AMERICAN                               62
  WHITE                                                  180
                                  clus
vv                                 AMP PEAK  8(6P23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     41
  BLACK OR AFRICAN AMERICAN                                 96
  WHITE                                                    537
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V12, binary
                             cls
clus                            0   1
  AMP PEAK  8(6P23) MUTATED    11 225
  AMP PEAK  8(6P23) WILD-TYPE  25 601
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED     11  225
  AMP PEAK  8(6P23) WILD-TYPE   25  601
                        clus
vv                       AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  HISPANIC OR LATINO                            11                          25
  NOT HISPANIC OR LATINO                       225                         601
[1] 2 2
[1] FALSE

Clustering(9) Variable = AMP PEAK  9(6Q21) MUTATION ANALYSIS
D9V1, survival
                             sevent
clus2                           0   1
  AMP PEAK  9(6Q21) MUTATED   164  27
  AMP PEAK  9(6Q21) WILD-TYPE 722  92
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        191                         814 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                         27                          92 
$`AMP PEAK  9(6Q21) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04V TCGA-A2-A04W 
       13.68        31.79        28.01        19.20        63.12        64.04 
TCGA-A2-A0CM TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0EQ TCGA-A2-A0EY TCGA-A2-A0ST 
       24.79        21.14        33.76        79.76        24.16        99.19 
TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A1G1 TCGA-A2-A3XT 
       17.52         8.38        18.21        18.61        19.20        83.01 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CE TCGA-A7-A0DA 
       38.40        34.98        24.39        26.96        35.31        35.67 
TCGA-A7-A425 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A8-A06U 
       14.70        14.50        21.17        17.92        12.10        29.03 
TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A07F TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08B 
       31.00        17.03        18.97         8.98        15.06        38.01 
TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A09B 
       28.96         9.99        31.00         0.99        33.01        12.00 
TCGA-A8-A09N TCGA-A8-A0AB TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A62X TCGA-AN-A03Y 
        1.02        17.03         0.95         2.37         1.12         0.33 
TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FJ TCGA-AN-A0FK 
        1.78         8.02         0.16         0.33         7.96         7.00 
TCGA-AN-A0FY TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03O TCGA-AO-A0J4 
        0.33         0.33         0.33         5.59        81.63        52.18 
TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12G TCGA-AO-A1KR TCGA-AO-A1KS 
      102.58        96.10        77.56        41.62        70.39         0.53 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
       26.93       130.09         5.65        74.79        86.66        29.75 
TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AU TCGA-AR-A1AV 
       98.93        65.36       101.95        61.84        76.21        61.28 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24Q TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LL 
       20.22       109.58       101.52        78.48        93.83         7.36 
TCGA-AR-A2LR TCGA-B6-A0I9 TCGA-B6-A0IO TCGA-B6-A0RS TCGA-B6-A402 TCGA-BH-A0AV 
       20.38        12.13       110.14       100.70        54.28        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BF TCGA-BH-A0BG 
       20.45        25.55        39.55        56.94        25.71        24.85 
TCGA-BH-A0BL TCGA-BH-A0C1 TCGA-BH-A0DZ TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0HQ 
       44.05        44.02        16.27         9.63        24.49        36.85 
TCGA-BH-A18Q TCGA-BH-A18U TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1F0 TCGA-BH-A1F6 
       55.63        51.39        91.99        12.00        25.81        97.48 
TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A42V TCGA-C8-A12L 
       74.73        72.07        38.60        57.83         8.94        11.93 
TCGA-C8-A12Q TCGA-C8-A130 TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A1HM TCGA-C8-A278 
        0.07         3.12         3.85        11.34         2.30         0.03 
TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1J8 
        0.99        20.88        13.97        14.17        19.20        14.17 
TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1XD 
       12.03        20.09        20.09        21.01        18.58        17.16 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A27F 
       21.83        14.50        16.41        16.54        15.32        16.04 
TCGA-D8-A27V TCGA-E2-A10C TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V 
       12.53        40.11        40.96        38.60        33.30        34.26 
TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A155 TCGA-E2-A159 TCGA-E2-A15M 
       31.96        17.03        25.41        21.04        25.05         7.73 
TCGA-E2-A1B0 TCGA-E2-A1IE TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A2P5 
       53.62        38.30        33.70        27.42       106.75        16.93 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1RF 
       34.92        19.89         9.21        12.00        13.12         6.58 
TCGA-E9-A248 TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-EW-A1OV TCGA-EW-A1OW 
        1.94         0.72        26.07         0.62        25.94        22.82 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A3U0 TCGA-EW-A423 
       29.82        18.48        30.08         7.86        17.49        10.16 
TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LD-A7W5 
      109.87        53.13        42.71        42.28        69.30         4.08 
TCGA-LL-A5YN TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7T0 TCGA-OL-A5DA 
       14.70         3.88         4.14         4.50         3.22        58.62 
TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-PL-A8LZ TCGA-S3-AA0Z TCGA-Z7-A8R5 
       36.36        20.38         3.95        10.59       100.01 

$`AMP PEAK  9(6Q21) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N 
       47.24        20.88         7.96        39.32        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04X 
       18.02        41.95        82.16        73.84        22.06        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        64.57       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
      107.93        75.55        75.25         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       56.81        34.55        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU 
       80.28       107.61        74.40        37.05        35.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       31.82        29.75        24.72        54.64        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       50.43        44.28        17.13        18.71        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       18.90        20.75        32.55        25.28        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       21.67        14.50        19.33        48.46        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       23.47        17.36        36.79        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU 
       91.92        10.59        20.88        39.65        33.93        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY 
       32.75        49.48        31.99        38.37         7.30        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH 
       23.21        21.14        21.90        38.30        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       30.61        37.45        33.11        31.73        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A56D 
       11.28        13.41        11.97        14.93        13.74        14.73 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       10.72        11.05        10.29         9.37        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06Y 
       13.02        13.02         1.02        17.98        53.06        26.01 
TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G 
        1.02        53.98         9.01        43.00        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       14.01        12.00        17.03         9.99        10.98         7.99 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 
       24.99         9.99        28.04        18.05        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O 
        0.99        33.01        19.96        12.00        37.05        31.00 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       93.04        43.00        40.01        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D 
       41.98        12.00         9.99         9.99         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R 
       49.05        45.07        29.98        33.07        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23G 
       13.02        21.04         0.99        13.02        38.04        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        2.66         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       36.99        38.79        26.04        50.70         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        2.27         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
       16.57        19.79        23.24        24.79         1.55         0.07 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP 
        1.81         1.18         0.69         0.43         1.68         1.74 
TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 
        1.12         1.32         0.33         0.23         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT 
        2.96         1.71         7.36         6.51         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        6.44         4.64         7.59         7.17         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO 
        0.33         0.36         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L 
        0.30         0.33         0.33         0.33         5.33        80.28 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       47.84        66.77        84.69        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       29.13        32.78        21.40        24.16        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
       22.36        53.03        21.53        50.70        50.86        72.00 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       76.77        21.37        26.24        50.24        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12D 
       71.80        99.25       108.72       106.78        90.58        64.04 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       57.30        48.36        28.37        14.73        82.62        61.87 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O 
       17.79        24.79        15.62        32.52         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TX TCGA-AR-A0TY 
        9.99       111.32        49.32         5.26        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ 
       76.14        83.87       114.02        85.97        75.55        52.77 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       51.25        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K 
       43.07        17.23        37.81        63.62        62.14        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       73.02        96.89        78.51        84.20         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       76.01        53.36        85.35        50.96        83.77        79.00 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       56.15        73.18        72.76        58.92       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86        42.87        40.04        38.17        39.39        40.54 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      149.59       220.90       129.57        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      112.37       176.98        18.77       126.12        84.59       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      140.88       211.56        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       78.02       172.96       162.05       102.77       140.48        89.46 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      131.21       157.41        97.48       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       21.47       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN 
       68.94        58.88        43.59       101.52        73.51       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
      170.17        85.35        49.94       103.63        55.00        24.53 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 
       28.50        46.95        40.83        39.16        48.36        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BM 
       51.68        37.22        32.02        18.21        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT 
       35.67        48.69        27.19        53.69        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 
       49.94        11.67        49.05        41.75        48.13        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       45.83        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       48.23        17.26        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
       45.17        47.41         4.41        15.68        14.30        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       46.19        32.65        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 
       15.16        37.78        35.51        24.56        23.08        41.00 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       52.96        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
       24.95        42.35        44.81        23.05         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
        7.23        20.12        90.84        26.66        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN 
       30.28        37.55        66.05         7.36        51.16        69.93 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
      113.82        82.85        42.28        55.69        49.58        17.69 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD 
       31.53        89.16        24.66       120.62       114.15        33.17 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        45.63       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O 
       72.07         6.90         0.72        83.31       130.16        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-C8-A12M TCGA-C8-A12N 
        6.44        20.12         0.99       109.28        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       12.66        11.77        12.66        12.66        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE 
        1.78         1.45         0.69         0.62         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN 
       10.92        11.34         0.16        12.03        10.42         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
        0.30         0.23         0.36         0.43         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03         0.03        12.20         0.03         0.23        11.90 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.25        20.58        13.48        21.14        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH 
       18.71        15.78        18.15        18.90        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT 
       18.97        20.12        19.40        20.38        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA 
       14.70        17.79        16.73        25.74        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM 
       18.15         2.66        15.22        14.73        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
        7.96        15.85        16.31         6.35        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       12.66        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-D8-A3Z5 
        4.80         0.76        10.09        13.08        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 
       18.51         7.33        43.00        34.42        27.52        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O 
       40.41        37.51        28.44        28.87        47.15        44.68 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A152 
       38.24        33.17        43.33        32.02        28.60        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C 
       23.24        19.43        23.87        14.79        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
       17.29        20.71        21.63        18.21        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
       19.40         9.04        20.58        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.07        14.99        60.53        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       28.50        16.47        17.10        37.41        32.78        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU 
       28.44        22.65         3.88        22.19        20.98        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       54.18        39.62        19.66        24.59        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
       18.87       102.61         8.75        43.04         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
        7.20        30.61        19.00        19.20        36.82        13.48 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       36.56        39.55        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
        9.86        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
        1.38         2.76        21.21        32.09        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
        0.66        34.65        21.27        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E 
        0.79        12.53        13.32        39.09        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 
       23.51        24.10        17.06         0.69         0.85        27.22 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 
        0.95        24.56        17.75         0.76        18.41        15.72 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP 
       12.33         0.23        14.70         0.26        13.81        14.40 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       15.39        12.20        39.72         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OX TCGA-EW-A1OY 
       13.25        16.57        15.68        28.77        29.95        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1PA 
       40.41        41.13        39.78        52.96        23.11        18.90 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       19.99         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       19.96        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD 
       10.59         7.40        59.57       194.27        53.52        43.04 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       18.12        11.84        11.57        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.75         9.53        11.44        10.95         7.59        17.06 
TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A740 
       15.32        14.47        14.79        11.57         2.63         4.50 
TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        5.59         6.21         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66        46.55        31.99        27.65        34.92        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       24.72        22.32        26.70        23.47        65.62        33.57 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ 
       31.07        26.04         7.23        14.07        28.21        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH 
        0.23         0.16         0.26        16.50         6.81         8.65 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
        7.92         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        5.29         9.60         9.14       105.04 

  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                       0.03                        0.03 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                     130.09                      234.28 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                      21.14                       22.70 
[1] "0.0 - 130.1 (21.1)" "0.0 - 234.3 (22.7)"
[1] "hr=" "1.4"
D9V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  9(6Q21) MUTATED        11        6        2        1        81
  AMP PEAK  9(6Q21) WILD-TYPE      72       74        7        4       261
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  9(6Q21) MUTATED          46         0         26          3
  AMP PEAK  9(6Q21) WILD-TYPE       188         2        116         26
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  9(6Q21) MUTATED            9        4         0       2
  AMP PEAK  9(6Q21) WILD-TYPE         54       14         1      14
D9V3, multiclass
            clus
vv           AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  STAGE I                           11                          72
  STAGE IA                           6                          74
  STAGE IB                           2                           7
  STAGE II                           1                           4
  STAGE IIA                         81                         261
  STAGE IIB                         46                         188
  STAGE III                          0                           2
  STAGE IIIA                        26                         116
  STAGE IIIB                         3                          26
  STAGE IIIC                         9                          54
  STAGE IV                           4                          14
  STAGE TIS                          0                           1
  STAGE X                            2                          14
[1] 13  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(6Q21) MUTATED    30 138  20   4
  AMP PEAK  9(6Q21) WILD-TYPE 235 456 104  35
D9V4, multiclass
    clus
vv   AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  T1                        30                         235
  T2                       138                         456
  T3                        20                         104
  T4                         4                          35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                           N0  N1  N2  N3
  AMP PEAK  9(6Q21) MUTATED   101  55  24  10
  AMP PEAK  9(6Q21) WILD-TYPE 380 284  89  64
D9V5, multiclass
    clus
vv   AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  N0                       101                         380
  N1                        55                         284
  N2                        24                          89
  N3                        10                          64
[1] 4 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                          CM0 (I+)  M0  M1  MX
  AMP PEAK  9(6Q21) MUTATED          0 165   4  23
  AMP PEAK  9(6Q21) WILD-TYPE        5 689  15 124
D9V6, multiclass
          clus
vv         AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  CM0 (I+)                         0                           5
  M0                             165                         689
  M1                               4                          15
  MX                              23                         124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V7, binary
                             cls
clus                            0   1
  AMP PEAK  9(6Q21) MUTATED   191   1
  AMP PEAK  9(6Q21) WILD-TYPE 823  10
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED    191    1
  AMP PEAK  9(6Q21) WILD-TYPE  823   10
        clus
vv       AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  FEMALE                       191                         823
  MALE                           1                          10
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  AMP PEAK  9(6Q21) MUTATED                            1
  AMP PEAK  9(6Q21) WILD-TYPE                          0
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  AMP PEAK  9(6Q21) MUTATED                             164
  AMP PEAK  9(6Q21) WILD-TYPE                           590
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  9(6Q21) MUTATED                               14
  AMP PEAK  9(6Q21) WILD-TYPE                            161
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  9(6Q21) MUTATED                     3
  AMP PEAK  9(6Q21) WILD-TYPE                   3
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK  9(6Q21) MUTATED                                  1
  AMP PEAK  9(6Q21) WILD-TYPE                               28
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK  9(6Q21) MUTATED                    0              9
  AMP PEAK  9(6Q21) WILD-TYPE                 15             35
D9V8, multiclass
                                  clus
vv                                 AMP PEAK  9(6Q21) MUTATED
  INFILTRATING CARCINOMA NOS                               1
  INFILTRATING DUCTAL CARCINOMA                          164
  INFILTRATING LOBULAR CARCINOMA                          14
  MEDULLARY CARCINOMA                                      3
  MIXED HISTOLOGY (PLEASE SPECIFY)                         1
  MUCINOUS CARCINOMA                                       0
  OTHER  SPECIFY                                           9
                                  clus
vv                                 AMP PEAK  9(6Q21) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            590
  INFILTRATING LOBULAR CARCINOMA                           161
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          28
  MUCINOUS CARCINOMA                                        15
  OTHER  SPECIFY                                            35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V9, binary
                             cls
clus                            0   1
  AMP PEAK  9(6Q21) MUTATED    58 134
  AMP PEAK  9(6Q21) WILD-TYPE 224 609
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED     58  134
  AMP PEAK  9(6Q21) WILD-TYPE  224  609
     clus
vv    AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  NO                         58                         224
  YES                       134                         609
[1] 2 2
[1] FALSE
D9V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK  9(6Q21) MUTATED                                  0     9
  AMP PEAK  9(6Q21) WILD-TYPE                                1    47
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK  9(6Q21) MUTATED                          39   126
  AMP PEAK  9(6Q21) WILD-TYPE                       119   591
D9V11, multiclass
                                  clus
vv                                 AMP PEAK  9(6Q21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    9
  BLACK OR AFRICAN AMERICAN                               39
  WHITE                                                  126
                                  clus
vv                                 AMP PEAK  9(6Q21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     47
  BLACK OR AFRICAN AMERICAN                                119
  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"
D9V12, binary
                             cls
clus                            0   1
  AMP PEAK  9(6Q21) MUTATED     7 152
  AMP PEAK  9(6Q21) WILD-TYPE  29 674
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED      7  152
  AMP PEAK  9(6Q21) WILD-TYPE   29  674
                        clus
vv                       AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  HISPANIC OR LATINO                             7                          29
  NOT HISPANIC OR LATINO                       152                         674
[1] 2 2
[1] FALSE

Clustering(10) Variable = AMP PEAK 10(8P11.23) MUTATION ANALYSIS
D10V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 10(8P11.23) MUTATED   328  57
  AMP PEAK 10(8P11.23) WILD-TYPE 558  62
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           385                            620 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                            57                             62 
$`AMP PEAK 10(8P11.23) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK 
        0.39        43.43        48.10        14.27        13.68        31.79 
TCGA-A2-A04N TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT 
      104.81        73.84        63.12        24.79        92.48        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
        5.19        63.45        21.14        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV 
       25.22        80.28        74.40        37.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T3 
       29.75        24.72        27.12        44.88         8.38        18.71 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YK TCGA-A2-A0YT 
       17.46        18.90        18.21        21.67        19.33        23.77 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25D 
       23.47        36.79        20.25        19.20        19.56        18.15 
TCGA-A2-A3XT TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       83.01        24.39        21.30        26.96        21.14        21.90 
TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F 
       38.30        30.61        37.45        10.72        12.72        24.26 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A426 TCGA-A7-A4SD 
       23.80        21.73        10.59        10.29        11.97        14.50 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U 
       12.10        10.72        13.02         1.02        17.98        29.03 
TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07F TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07W 
       26.01        53.98        18.97        17.03        10.98         9.99 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08O 
       18.05        13.02        28.96        33.01        19.96        31.00 
TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 
        0.99        93.04        40.01        33.01        17.95        12.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09M 
        9.99        12.00         1.02        49.05        29.98        33.07 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A9 TCGA-A8-A0AB 
       25.02         8.98        14.01        19.04        13.02        17.03 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3QP 
        2.37        10.85        38.20        26.04        50.70        22.19 
TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO 
       23.24         0.07         1.12         0.69         0.43         1.68 
TCGA-AN-A03X TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        0.33         6.44         7.00         0.36         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03O 
        0.33         0.33        12.33         0.33         5.33        81.63 
TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0JA 
       68.75        32.78        21.40        24.16        20.32        21.53 
TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A128 
       50.70        72.00        50.24        55.33        71.80       106.78 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT 
       77.56        57.30        82.62        61.87         0.53        17.79 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TY 
       32.52         2.56        32.91        74.79        98.93        55.86 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       83.87       114.02        85.97        75.55        61.84        52.77 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A24H TCGA-AR-A24R TCGA-AR-A24V 
       43.07        17.23        76.21       109.58        87.22        85.35 
TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A256 TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LO 
       50.96        56.15        93.83        20.25        42.87        39.39 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB 
       16.04        20.45       143.38       149.59       220.90       129.57 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RM 
      112.37       176.98       126.12        68.45        81.17        78.02 
TCGA-B6-A0RP TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      102.77       157.41        97.48       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KN 
       21.47       113.79       186.48        68.94        43.59       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0B2 
      170.17        85.35        49.94        24.53        25.55        40.83 
TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BT TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0DI 
       37.22        18.21        45.57        49.05        44.02        22.13 
TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E1 TCGA-BH-A0E2 
       48.23        15.65         2.56        38.47        15.68        14.30 
TCGA-BH-A0E6 TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H6 TCGA-BH-A0H7 
        9.63        24.43        30.35        10.78        24.56        23.08 
TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W5 
       26.50        36.85        51.32        27.25        50.79        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN 
       44.81        23.05         7.23        66.05        51.39        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 
       91.99       113.82        42.28        12.00        49.58        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FH 
       31.53        89.16        24.66       114.15        33.17        36.92 
TCGA-BH-A1FM TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
       45.63         6.90        38.60        83.31        57.83       130.16 
TCGA-BH-A42T TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12V 
        0.99         8.94        11.77        12.66        11.77        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK 
       12.66        12.66         1.45        11.34        11.34        12.03 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-C8-A3M8 
        2.30         3.25         8.28         9.67        12.20         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JF 
       11.90        20.88        20.58        19.20        15.78        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       14.01        18.97        20.09        13.32        14.70        17.79 
TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XT TCGA-D8-A1XY 
       18.15        17.16        15.22        14.50         6.35        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27I TCGA-D8-A27L 
       15.32         3.81        14.24        14.14        14.43        16.41 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 
       10.09        12.53        12.26        43.00        34.42        46.59 
TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14T 
       40.41        40.11        47.15        44.68        40.96        33.30 
TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       19.43        25.05        23.34        22.82        17.29        21.63 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ 
        7.73        13.02        17.06        14.07        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH 
       53.62        28.50        17.10        38.30        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1L6 TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A2P5 
       33.70        22.19        54.18        18.87         8.75        16.93 
TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 
        7.20        34.92        19.00         9.21        36.82        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R6 TCGA-E9-A1RA 
       13.12        35.77         0.62         2.10         2.76        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A228 TCGA-E9-A22A TCGA-E9-A22B 
       20.81        40.24        34.65        12.53        39.09        22.75 
TCGA-E9-A22E TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT 
       12.89        17.06        27.22         0.72        17.75         0.76 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UP TCGA-EW-A1IX 
       15.72        12.33         0.23        14.70        14.40        39.72 
TCGA-EW-A1IY TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P5 
        8.48        18.90        28.77        40.41        41.13        23.11 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FR TCGA-GI-A2C8 
       18.90        19.99         6.15        19.96        55.00         7.40 
TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DO TCGA-GM-A3NW TCGA-JL-A3YX 
       59.57        53.52        42.71        53.36       110.50        11.57 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A5YN TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        4.60         9.53        14.70         4.50         5.59         3.22 
TCGA-LL-A9Q3 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66N 
        7.36        31.99        58.62        23.47        65.62        26.04 
TCGA-PL-A8LV TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-S3-AA12 TCGA-W8-A86G 
        0.23        16.50         6.81         7.92         8.52         5.29 
TCGA-XX-A899 
        9.60 

$`AMP PEAK 10(8P11.23) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN 
        8.52        14.37        47.24        20.88         7.96        39.32 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
       28.01        19.20        18.21        18.02        41.95        82.16 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       22.06        64.04        55.43        36.13       136.73        64.57 
TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CW TCGA-A2-A0CX 
      112.08        88.60       107.93        75.55        64.04        56.81 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EY 
      101.72        89.36       107.61        79.76        35.05        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 
       99.19        54.64        50.43        44.28        17.52        17.13 
TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       20.52        20.75        32.55        25.28        15.42        21.90 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FW TCGA-A2-A1FZ 
       14.50        18.61        48.46        31.73        17.36        22.45 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25E 
       16.47        52.47       107.70        16.31        17.19        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV 
       10.59        20.88        39.65        33.93        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW 
       49.48        38.40        34.98        31.99        38.37         7.30 
TCGA-A2-A4S0 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DA TCGA-A7-A0DB 
       23.21        35.31        34.29        35.47        35.67        33.11 
TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26J 
       31.73        23.61        29.56        31.36        23.74        20.61 
TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA 
       22.32        11.34        11.28        13.41        14.70        14.93 
TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZX TCGA-A7-A6VV 
       13.74        21.17        17.92        14.73        11.05        10.29 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06T TCGA-A8-A06X 
        9.37        10.42         8.75        13.02        53.06        31.00 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G 
        1.02        17.03         9.01        43.00        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U 
       14.01        12.00         9.99         8.98         7.99        24.99 
TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08I 
       28.04        15.06        36.95         0.99        38.01        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 
       37.05         9.99        31.00        33.01        43.00        30.97 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09T 
       41.98         9.99        50.04        45.07         1.02        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
       15.02         0.99        12.00        13.02        21.04         0.99 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB 
       38.04         0.95         2.66         1.48        38.53        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       55.43        36.99        38.79         1.02         0.92         2.27 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 
        0.99         0.69        14.83         1.12        16.57        19.79 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A8OP TCGA-AC-A8OQ 
       24.79         1.55         1.81         1.18         1.74         1.12 
TCGA-AC-A8OR TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        1.32         0.33         0.23         0.33         0.62         2.96 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM 
        1.78         1.71         8.02         7.36         6.51         0.16 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL 
        0.33         0.33         0.33         4.64         7.96         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0XL TCGA-AN-A0XP 
        7.17         6.28         6.02         0.33         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         0.33         5.59        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 
       66.77        84.69        47.87        59.05        29.13        52.18 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       37.48        22.36        53.03        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 
       26.24        62.04       102.58        99.25       108.72        96.10 
TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       90.58        64.04        48.36        41.62        28.37        14.73 
TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       70.39        24.79        26.93       130.09         5.65        15.62 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99       111.32        49.32         5.26        86.66        29.75 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AK TCGA-AR-A1AL 
       64.83        76.14        65.36       101.95        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV 
       62.56        43.73        43.56        39.98        37.81        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       63.62        62.14        20.22        50.89        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U 
       78.51        84.20         0.85       101.52        76.01        53.36 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 
       83.77        79.00        78.48        73.18        72.76        58.92 
TCGA-AR-A2LE TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ 
      128.65        62.86         7.36        40.04        38.17        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0IC 
       20.38        54.74        10.59        77.62        12.13        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
       65.72       146.50        18.77        84.59       110.14       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RN TCGA-B6-A0RO 
      140.88       211.56       189.01       234.28       172.96       162.05 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WZ TCGA-B6-A0X0 
      140.48       100.70        89.46       131.21       129.57       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A402 TCGA-B6-A40B 
       28.27        58.88       101.52        73.51        54.28       103.63 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 
       55.00        38.79        20.45        28.50        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        51.68        32.02 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       25.71        24.85        21.70        44.05        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW 
       48.69        27.19        53.69        53.95        49.94        11.67 
TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       41.75        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX 
       38.01        13.91        17.26         3.22        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       16.27         4.41        44.81        46.19        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H9 TCGA-BH-A0HA 
       31.00        15.16        37.78        35.51        41.00        52.96 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0RX 
       20.38         5.85         2.50        13.61        12.89         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K 
       23.93        24.95         8.81         2.01        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       26.66        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 
        7.36        51.16        82.85        55.69        17.69        97.48 
TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN 
      120.62        74.73       122.89        63.35        55.00        72.07 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
      144.59        72.07         0.72        10.65         6.44        20.12 
TCGA-BH-A42U TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A130 
      109.28        11.93        11.77         0.07        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        1.78         0.69         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
       10.92         0.16        10.42         0.30         0.23         0.36 
TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 
        0.43         0.03         0.03         0.03         0.99         0.03 
TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 
       13.25        13.97        14.17        13.48        21.14        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       17.49        16.50        18.71        18.15        18.90        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       20.09        20.12        19.40        20.38        21.01        12.20 
TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC 
       18.58        16.73        25.74        23.90        27.58         2.66 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       14.73        21.83        19.92        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 
       15.85        16.31        12.99        15.16        12.66        15.52 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27M 
       17.42        16.04        13.45        13.05         9.44        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        4.80         0.76        13.08        14.50        18.51         7.33 
TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A14R 
       27.52        37.51        28.44        28.87        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       33.17        43.33        34.26        32.02        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       17.03        25.41        27.12        23.24        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       14.79        20.71        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15P TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
        9.04        20.58        19.56        53.03        29.95        32.35 
TCGA-E2-A1BC TCGA-E2-A1IF TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       16.47        37.41        28.44        22.65         3.88        20.98 
TCGA-E2-A1IU TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        27.42        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
       28.90       106.75       102.61        43.04         5.52        15.72 
TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       30.61        19.89        19.20        12.00        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       12.59        20.05        21.57         9.86        11.90        14.30 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG 
        6.12         1.38        21.21         0.66         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22G 
       34.59        35.64        34.13         0.79        13.32        23.51 
TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
       24.10         0.69         0.85         1.94         0.95        24.56 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE 
       26.07        18.41         0.62         0.26        13.81        15.39 
TCGA-EW-A1IW TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
       12.20        18.21        13.25        16.57        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       22.82        29.95        29.85        39.78        52.96        29.82 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       18.48        30.08         7.86        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
       34.55        52.73        25.91        22.09        21.27        17.49 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD 
       10.16        10.59       109.87       194.27        53.13        43.04 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.28        61.91        62.33        90.84        76.64        77.33 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF 
       18.12        11.84        21.24         6.67         4.08         8.75 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO 
       11.44        10.95         7.59        17.06        15.32        14.47 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.79        11.57         2.63         3.88         4.14         4.50 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        6.21        27.91         2.79         2.10        12.66        46.55 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        34.92        36.36        16.87        24.72        22.32 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       20.38        26.70        33.57        31.07         7.23        14.07 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH 
       28.21        19.73         0.16         0.26         3.95         8.65 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-XX-A89A 
       10.59         5.56         7.17         6.87         3.91         9.14 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                        220.90                         234.28 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                         22.82                          22.32 
[1] "0.1 - 220.9 (22.8)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.4"
D10V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 10(8P11.23) MUTATED        24       25        5        0       131
  AMP PEAK 10(8P11.23) WILD-TYPE      59       55        4        5       211
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 10(8P11.23) MUTATED          86         2         54         16
  AMP PEAK 10(8P11.23) WILD-TYPE       148         0         88         13
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 10(8P11.23) MUTATED           28       11         0       8
  AMP PEAK 10(8P11.23) WILD-TYPE         35        7         1       8
D10V3, multiclass
            clus
vv           AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  STAGE I                              24                             59
  STAGE IA                             25                             55
  STAGE IB                              5                              4
  STAGE II                              0                              5
  STAGE IIA                           131                            211
  STAGE IIB                            86                            148
  STAGE III                             2                              0
  STAGE IIIA                           54                             88
  STAGE IIIB                           16                             13
  STAGE IIIC                           28                             35
  STAGE IV                             11                              7
  STAGE TIS                             0                              1
  STAGE X                               8                              8
[1] 13  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(8P11.23) MUTATED    97 230  44  18
  AMP PEAK 10(8P11.23) WILD-TYPE 168 364  80  21
D10V4, multiclass
    clus
vv   AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  T1                           97                            168
  T2                          230                            364
  T3                           44                             80
  T4                           18                             21
[1] 4 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  N3
  AMP PEAK 10(8P11.23) MUTATED   165 138  46  33
  AMP PEAK 10(8P11.23) WILD-TYPE 316 201  67  41
D10V5, multiclass
    clus
vv   AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  N0                          165                            316
  N1                          138                            201
  N2                           46                             67
  N3                           33                             41
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 10(8P11.23) MUTATED          1 330  11  48
  AMP PEAK 10(8P11.23) WILD-TYPE        4 524   8  99
D10V6, multiclass
          clus
vv         AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                330                            524
  M1                                 11                              8
  MX                                 48                             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"
D10V7, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.23) MUTATED   387   3
  AMP PEAK 10(8P11.23) WILD-TYPE 627   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED    387    3
  AMP PEAK 10(8P11.23) WILD-TYPE  627    8
        clus
vv       AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  FEMALE                          387                            627
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 10(8P11.23) MUTATED                            1
  AMP PEAK 10(8P11.23) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 10(8P11.23) MUTATED                             294
  AMP PEAK 10(8P11.23) WILD-TYPE                           460
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 10(8P11.23) MUTATED                               59
  AMP PEAK 10(8P11.23) WILD-TYPE                            116
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 10(8P11.23) MUTATED                     4
  AMP PEAK 10(8P11.23) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 10(8P11.23) MUTATED                                 10
  AMP PEAK 10(8P11.23) WILD-TYPE                               19
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 10(8P11.23) MUTATED                    5             16
  AMP PEAK 10(8P11.23) WILD-TYPE                 10             28
D10V8, multiclass
                                  clus
vv                                 AMP PEAK 10(8P11.23) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             294
  INFILTRATING LOBULAR CARCINOMA                             59
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           10
  MUCINOUS CARCINOMA                                          5
  OTHER  SPECIFY                                             16
                                  clus
vv                                 AMP PEAK 10(8P11.23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               460
  INFILTRATING LOBULAR CARCINOMA                              116
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             19
  MUCINOUS CARCINOMA                                           10
  OTHER  SPECIFY                                               28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V9, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.23) MUTATED   110 280
  AMP PEAK 10(8P11.23) WILD-TYPE 172 463
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED    110  280
  AMP PEAK 10(8P11.23) WILD-TYPE  172  463
     clus
vv    AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  NO                           110                            172
  YES                          280                            463
[1] 2 2
[1] FALSE
D10V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 10(8P11.23) MUTATED                                  0    24
  AMP PEAK 10(8P11.23) WILD-TYPE                                1    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 10(8P11.23) MUTATED                          60   268
  AMP PEAK 10(8P11.23) WILD-TYPE                        98   449
D10V11, multiclass
                                  clus
vv                                 AMP PEAK 10(8P11.23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  60
  WHITE                                                     268
                                  clus
vv                                 AMP PEAK 10(8P11.23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    98
  WHITE                                                       449
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V12, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.23) MUTATED    12 318
  AMP PEAK 10(8P11.23) WILD-TYPE  24 508
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED     12  318
  AMP PEAK 10(8P11.23) WILD-TYPE   24  508
                        clus
vv                       AMP PEAK 10(8P11.23) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          318
                        clus
vv                       AMP PEAK 10(8P11.23) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            508
[1] 2 2
[1] FALSE

Clustering(11) Variable = AMP PEAK 11(8P11.21) MUTATION ANALYSIS
D11V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 11(8P11.21) MUTATED   344  52
  AMP PEAK 11(8P11.21) WILD-TYPE 542  67
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           396                            609 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            52                             67 
$`AMP PEAK 11(8P11.21) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SO 
        0.39        43.43        14.27        13.68        31.79        28.01 
TCGA-A2-A04N TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT 
      104.81        73.84        63.12        24.79        92.48        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 
        5.19        63.45        56.81        21.14        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU 
       28.77        25.22        80.28        74.40        37.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 
       31.82        24.72        44.88         8.38        18.71        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT 
       18.90        18.21        21.67        18.61        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25D 
       23.47        36.79        20.25        19.20        19.56        18.15 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY 
       83.01        29.98        38.40        38.37        24.39        21.30 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A13E 
       26.96        21.14        21.90        38.30        30.61        10.72 
TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3J0 
       12.72        24.26        23.80        21.73        20.61        10.29 
TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A6VX TCGA-A8-A06O 
       11.97        14.50        12.10        10.72        10.42        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07F 
       13.02         1.02        26.01        53.98        43.00        18.97 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W 
       14.01        17.03         9.99        10.98         8.98         9.99 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08R 
       18.05        13.02        28.96        33.01        19.96         0.99 
TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A09A 
       33.01        40.01        33.01        30.97        17.95         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09X 
       12.00         1.02        49.05        45.07        33.07        14.01 
TCGA-A8-A0A2 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2BM 
       19.04        13.02        17.03         2.37        10.85        38.20 
TCGA-AC-A2FM TCGA-AC-A3QP TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW 
       26.04        22.19        23.24         0.07         1.12         0.69 
TCGA-AC-A6NO TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A0AS TCGA-AN-A0FK TCGA-AN-A0FW 
        1.68         0.33         0.33         0.33         7.00         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS 
        0.33         0.33         0.33         0.33        12.33         0.33 
TCGA-AN-A0XV TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J6 
        5.33        81.63        68.75        32.78        21.40        37.48 
TCGA-AO-A0J7 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A126 
       20.32        21.53        72.00        55.33        71.80       108.72 
TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
      106.78        77.56        82.62        61.87        70.39         0.53 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TS 
       24.79       130.09        32.52         2.56        32.91        74.79 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       98.93        64.83       114.02        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A1AY 
       52.77        43.07        17.23        76.21        62.14        20.22 
TCGA-AR-A24H TCGA-AR-A24R TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A2LH 
      109.58        87.22        50.96        79.00        78.48        20.25 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QP TCGA-AR-A5QQ 
       42.87         7.36        39.39        20.38        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IH 
       77.62       143.38       149.59       220.90       129.57       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RM 
      176.98       126.12       211.56        68.45        81.17        78.02 
TCGA-B6-A0RP TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW 
      102.77       131.21       157.41        97.48       188.68        17.98 
TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN 
       21.47       186.48        68.94        43.59       101.52       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AY TCGA-BH-A0B2 
      170.17        85.35        54.28        49.94        25.55        40.83 
TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 
       37.22        18.21        45.57        49.94        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E1 
       44.02        48.23        15.65         2.56        38.47        15.68 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H6 
        9.63        44.81        30.35        10.78        15.16        24.56 
TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
       23.08        26.50        36.85        12.89        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18S 
       50.79        42.35        44.81        23.05         7.23        66.05 
TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX 
        7.36        91.99        42.28        12.00        55.69        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD 
       25.81        31.53        89.16       120.62       114.15        33.17 
TCGA-BH-A1FG TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 
      122.89        45.63        72.07         6.90         0.72        83.31 
TCGA-BH-A209 TCGA-BH-A42T TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12V 
      130.16         0.99         8.94        11.77        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM TCGA-C8-A1HN 
       12.66         1.45        11.34        11.34         2.30         3.25 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M8 
        0.36         8.28         0.03        12.20         0.99         0.23 
TCGA-D8-A13Y TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JF 
       11.90        20.58        14.17        19.20        15.78        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JT 
       14.01        18.97        20.12        20.09        19.40        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XK 
       14.70        17.79        18.15        17.16        15.22        14.50 
TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27I 
        6.35        16.54         3.81        14.24        14.14        14.43 
TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27V TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A 
       13.48        10.09        12.53        34.42        46.59        40.41 
TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14U 
       40.11        47.15        44.68        40.96        33.17        43.33 
TCGA-E2-A14X TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       31.96        19.43        25.05        23.34        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15M TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ 
       20.71        21.63         7.73        17.06        14.07        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1II 
       53.62        28.50        17.10        38.30        32.78        33.70 
TCGA-E2-A1IN TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z 
       22.19        18.87       102.61         8.75        16.93         7.20 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 
       34.92        19.89        19.00         9.21        36.82        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R6 TCGA-E9-A1RA 
       13.12        35.77         0.62         2.10         2.76        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A243 TCGA-E9-A247 
       20.81        40.24        34.65         6.58        17.06        27.22 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X 
        0.72        17.75         0.76         0.62        15.72        12.33 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UP TCGA-EW-A1IY TCGA-EW-A1J1 TCGA-EW-A1J6 
        0.23        14.70        14.40         8.48        18.90        28.77 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       29.85        40.41        41.13        52.96        23.11        18.48 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-GI-A2C8 TCGA-GI-A2C9 
        7.86        18.90        19.99         6.15         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3NW TCGA-JL-A3YX 
       59.57        53.52        43.04        42.71       110.50        11.57 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A73Y TCGA-LL-A740 
        4.08         4.60        15.32        14.79         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OL-A5D7 TCGA-OL-A5D8 
        5.59         3.22         6.21         7.36        46.55        31.99 
TCGA-OL-A5DA TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66N TCGA-OL-A6VO TCGA-PL-A8LV 
       58.62        23.47        65.62        26.04        28.21         0.23 
TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-W8-A86G TCGA-XX-A899 
       16.50         6.81         8.65         7.92         5.29         9.60 

$`AMP PEAK 11(8P11.21) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM 
        8.52        14.37        48.10        47.24        20.88         7.96 
TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
       39.32        19.20        18.21        18.02        41.95        82.16 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       22.06        64.04        55.43        36.13       136.73        64.57 
TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CW TCGA-A2-A0EM 
      112.08        88.60       107.93        75.55        64.04       101.72 
TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EW TCGA-A2-A0EY 
       89.36       107.61        79.76        35.05        29.75        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        27.12        50.43        44.28        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
       17.13        20.52        20.75        32.55        25.28        15.42 
TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FW TCGA-A2-A1FZ 
       21.90        14.50        19.33        48.46        17.36        22.45 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25E 
       16.47        52.47       107.70        16.31        17.19        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        20.88        39.65        33.93        32.75        49.48 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4S0 TCGA-A7-A0CE TCGA-A7-A0CG 
       34.98        31.99         7.30        23.21        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G 
       35.47        37.45        35.67        33.11        31.73        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       29.56        31.36        23.74        22.32        11.34        10.59 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE 
       11.28        13.41        14.70        14.93        13.74        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY 
       17.92        14.73        11.05        10.29         9.37         8.75 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 
       17.98        53.06        29.03        31.00         1.02        17.03 
TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07S TCGA-A8-A07U 
        9.01        19.99        18.97        12.00         7.99        24.99 
TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08I 
       28.04        15.06        36.95         0.99        38.01        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08T TCGA-A8-A08X 
       37.05         9.99        31.00        31.00        93.04        43.00 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N 
       41.98        12.00         9.99        50.04        29.98         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 
       25.02         8.98        19.04        15.02         0.99        12.00 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H 
       13.02        21.04         0.99        38.04         0.95         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        1.48        38.53        40.57        55.43        36.99        38.79 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       50.70         1.02         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YJ TCGA-AC-A5XS 
       14.83         1.12        16.57        19.79        24.79         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR 
        1.81         1.18         0.43         1.74         1.12         1.32 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.23         0.33         0.62         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT 
        8.02         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.96         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT 
        6.02         0.33         0.33         0.30         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P 
        0.33         5.59        80.28        47.84        66.77        84.69 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 
       47.87        59.05        29.13        52.18        24.16        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
       53.03        50.70        50.86        76.77        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A129 TCGA-AO-A12A 
       50.24        62.04       102.58        99.25        96.10        90.58 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A7U7 TCGA-AR-A0TP 
       17.79        26.93         5.65        15.62         9.99       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ 
       49.32         5.26        86.66        29.75        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       65.36       101.95        83.87        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW 
       43.73        43.56        39.98        37.81        61.28        63.62 
TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       50.89        73.02        96.89        78.51        84.20         0.85 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A250 
      101.52        76.01        53.36        85.35        83.77        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ 
       73.18        72.76        58.92        93.83       128.65        62.86 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-B6-A0I9 
       40.04        38.17        40.54        54.74        16.04        12.13 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IO 
       50.70        65.72       146.50        18.77        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RN TCGA-B6-A0RO 
      110.93       140.88       189.01       234.28       172.96       162.05 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ 
      140.48       100.70        89.46        79.63       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A40B TCGA-B6-A40C 
      129.70        28.27        58.88        73.51       103.63        55.00 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 
       24.53        38.79        20.45        28.50        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        51.68        32.02 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       25.71        24.85        21.70        44.05        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C3 
       48.69        27.19        53.69        53.95        11.67        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       42.90        45.83        31.17        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ 
       13.91        17.26         3.22        45.17        47.41        16.27 
TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE 
        4.41        14.30        46.19        32.65        24.49        31.00 
TCGA-BH-A0EI TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI 
       24.43        37.78        35.51        41.00        52.96        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
        5.85         2.50        13.61         5.59        23.93        24.95 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
        8.81         2.01        20.12        90.84        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18U TCGA-BH-A18V 
       37.74        30.28        55.63        37.55        51.39        51.16 
TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1F8 
       69.93       113.82        82.85        17.69        97.48        24.66 
TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
       74.73        36.92        63.35        55.00       144.59        72.07 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       38.60        57.83        10.65         6.44        20.12       109.28 
TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W 
       11.93        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
        3.12         1.78         0.69         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26V 
       12.33        10.92         0.16        12.03        10.42         0.30 
TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 
        0.23         0.43         9.67         0.03         0.03         0.03 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 
       20.88        13.25        13.97        13.48        21.14        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       17.49        16.50        18.71        18.15        18.90        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1X5 TCGA-D8-A1X7 
       20.09        20.38        21.01        12.20        18.58        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XG TCGA-D8-A1XJ 
       25.74        23.90        27.58         2.66        14.73        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       19.92        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A27E 
       12.99        15.16        12.66        15.32        15.52        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N 
       16.04        13.45        13.05         9.44        16.41         4.80 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        13.08        12.26        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q 
       43.00        27.52        37.51        28.44        28.87        38.24 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z 
       38.60        33.30        34.26        32.02        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       25.41        27.12        23.24        21.04        23.87        14.79 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       18.21        12.92        17.42        19.40         9.04        20.58 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       13.02        19.56        14.99        53.03        29.95        32.35 
TCGA-E2-A1BC TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       16.47        37.41        33.73        28.44        22.65         3.88 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 
       20.98        11.08        54.18        27.42        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E2-A2P6 
       24.59        40.47        28.90       106.75        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       15.72        30.61        19.20        12.00        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       12.59        20.05        21.57         9.86        11.90        14.30 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RH 
        6.12         1.38        21.21         0.66        21.27        34.59 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       35.64        34.13         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 
       22.75        12.89        23.51        24.10         0.69         0.85 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A5FL 
        1.94         0.95        24.56        26.07        18.41         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J2 
       13.81        15.39        12.20        39.72        18.21        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P1 
       16.57        15.68        25.94        22.82        29.95        39.78 
TCGA-EW-A1P4 TCGA-EW-A1P7 TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       29.82        30.08        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       19.96        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH 
       17.49        10.16        10.59       194.27        53.13        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A9QF TCGA-LL-A440 
       18.12        11.84        21.24         6.67         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO 
       11.44        10.95         7.59        17.06        14.70        14.47 
TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LQ-A4E4 TCGA-MS-A51U 
       11.57         2.63         3.88         4.50        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
        2.10        12.66        27.65        34.92        36.36        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66K TCGA-OL-A66L 
       24.72        22.32        20.38        26.70        33.57        31.07 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
        7.23        14.07        19.73         0.16         0.26         3.95 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         5.56         8.52         7.17         6.87         3.91 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                        220.90                         234.28 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                        22.045                         22.650 
[1] "0.0 - 220.9 (22.0)" "0.0 - 234.3 (22.6)"
[1] "hr=" "1"  
D11V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 11(8P11.21) MUTATED        30       29        5        2       141
  AMP PEAK 11(8P11.21) WILD-TYPE      53       51        4        3       201
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 11(8P11.21) MUTATED          83         2         55         13
  AMP PEAK 11(8P11.21) WILD-TYPE       151         0         87         16
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 11(8P11.21) MUTATED           28        6         0       8
  AMP PEAK 11(8P11.21) WILD-TYPE         35       12         1       8
D11V3, multiclass
            clus
vv           AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  STAGE I                              30                             53
  STAGE IA                             29                             51
  STAGE IB                              5                              4
  STAGE II                              2                              3
  STAGE IIA                           141                            201
  STAGE IIB                            83                            151
  STAGE III                             2                              0
  STAGE IIIA                           55                             87
  STAGE IIIB                           13                             16
  STAGE IIIC                           28                             35
  STAGE IV                              6                             12
  STAGE TIS                             0                              1
  STAGE X                               8                              8
[1] 13  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(8P11.21) MUTATED   101 239  46  14
  AMP PEAK 11(8P11.21) WILD-TYPE 164 355  78  25
D11V4, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  T1                          101                            164
  T2                          239                            355
  T3                           46                             78
  T4                           14                             25
[1] 4 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  N3
  AMP PEAK 11(8P11.21) MUTATED   190 127  45  32
  AMP PEAK 11(8P11.21) WILD-TYPE 291 212  68  42
D11V5, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  N0                          190                            291
  N1                          127                            212
  N2                           45                             68
  N3                           32                             42
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 11(8P11.21) MUTATED          1 344   6  51
  AMP PEAK 11(8P11.21) WILD-TYPE        4 510  13  96
D11V6, multiclass
          clus
vv         AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                344                            510
  M1                                  6                             13
  MX                                 51                             96
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V7, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED   399   3
  AMP PEAK 11(8P11.21) WILD-TYPE 615   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED    399    3
  AMP PEAK 11(8P11.21) WILD-TYPE  615    8
        clus
vv       AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  FEMALE                          399                            615
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 11(8P11.21) MUTATED                            1
  AMP PEAK 11(8P11.21) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                             314
  AMP PEAK 11(8P11.21) WILD-TYPE                           440
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                               51
  AMP PEAK 11(8P11.21) WILD-TYPE                            124
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                     5
  AMP PEAK 11(8P11.21) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 11(8P11.21) MUTATED                                  9
  AMP PEAK 11(8P11.21) WILD-TYPE                               20
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 11(8P11.21) MUTATED                    4             17
  AMP PEAK 11(8P11.21) WILD-TYPE                 11             27
D11V8, multiclass
                                  clus
vv                                 AMP PEAK 11(8P11.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             314
  INFILTRATING LOBULAR CARCINOMA                             51
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            9
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             17
                                  clus
vv                                 AMP PEAK 11(8P11.21) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               440
  INFILTRATING LOBULAR CARCINOMA                              124
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                           11
  OTHER  SPECIFY                                               27
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V9, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED   118 284
  AMP PEAK 11(8P11.21) WILD-TYPE 164 459
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED    118  284
  AMP PEAK 11(8P11.21) WILD-TYPE  164  459
     clus
vv    AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  NO                           118                            164
  YES                          284                            459
[1] 2 2
[1] FALSE
D11V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 11(8P11.21) MUTATED                                  0    23
  AMP PEAK 11(8P11.21) WILD-TYPE                                1    33
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 11(8P11.21) MUTATED                          72   267
  AMP PEAK 11(8P11.21) WILD-TYPE                        86   450
D11V11, multiclass
                                  clus
vv                                 AMP PEAK 11(8P11.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      23
  BLACK OR AFRICAN AMERICAN                                  72
  WHITE                                                     267
                                  clus
vv                                 AMP PEAK 11(8P11.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        33
  BLACK OR AFRICAN AMERICAN                                    86
  WHITE                                                       450
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V12, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED    12 324
  AMP PEAK 11(8P11.21) WILD-TYPE  24 502
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     12  324
  AMP PEAK 11(8P11.21) WILD-TYPE   24  502
                        clus
vv                       AMP PEAK 11(8P11.21) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          324
                        clus
vv                       AMP PEAK 11(8P11.21) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            502
[1] 2 2
[1] FALSE

Clustering(12) Variable = AMP PEAK 12(8Q24.21) MUTATION ANALYSIS
D12V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 12(8Q24.21) MUTATED   555  84
  AMP PEAK 12(8Q24.21) WILD-TYPE 331  35
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           639                            366 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            84                             35 
$`AMP PEAK 12(8Q24.21) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04P 
       13.68        31.79        39.32        19.20       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y 
       41.95        82.16        73.84        22.06        63.12        36.13 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV 
       64.57        24.79        92.48        75.25         5.19        63.45 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       64.04        56.81        21.14        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0EU TCGA-A2-A0EX TCGA-A2-A0EY 
       25.22        80.28        79.76        34.29        24.72        24.16 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 
       27.12        44.88        50.43        17.52        17.13         8.38 
TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YG TCGA-A2-A0YH 
       18.71        17.46        18.90        20.75        21.90        21.67 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       18.61        31.73        23.77        23.47        17.36        36.79 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25D 
       20.25        19.20        19.56        52.47        16.31        18.15 
TCGA-A2-A25E TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX 
       91.92        39.65        33.93        83.01        29.98        38.40 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S2 
       34.98        38.37         7.30        24.39        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA 
       21.90        38.30        35.31        30.61        37.45        35.67 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       31.73        10.72        12.72        24.26        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A426 TCGA-A7-A4SA 
       21.73        20.61        22.32        10.29        11.97        14.93 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A6VV 
       14.50        21.17        17.92        12.10        10.72        10.29 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R 
       10.42         8.75        13.02        13.02         1.02        17.98 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
       53.06        29.03        31.00        26.01         1.02        17.03 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       53.98         9.01        43.00        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07U 
       14.01        17.03         9.99        10.98         8.98        24.99 
TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08C 
        9.99        18.05        36.95        13.02        38.01        28.96 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P 
       33.01        19.96        12.00        37.05         9.99        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 
        0.99        33.01        93.04        43.00        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       17.95        12.00         9.99        12.00         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q 
       49.05        45.07        29.98        33.07         1.02        25.02 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A7 
        8.98        19.04         0.99        14.01        19.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
       13.02        17.03         2.37        10.85         2.66         1.48 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ 
       38.53        38.20        26.04        50.70         1.02         2.27 
TCGA-AC-A3QP TCGA-AC-A3W5 TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW 
       22.19        16.57        23.24         0.07         1.12         0.69 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.68         1.74         1.12         0.33         0.33         0.23 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.62         2.96         1.78         1.71         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FJ TCGA-AN-A0FK 
        6.51         0.16         0.33         0.33         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ 
        7.59         6.02         0.36         0.33         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV 
        0.33         0.33        12.33         0.33         0.33         5.33 
TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03V 
       47.84        81.63        84.69        68.75        47.87        29.13 
TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JI 
       21.40        52.18        20.32        50.70        76.77        50.24 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B 
       55.33        71.80       102.58       106.78        96.10        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ 
       64.04        57.30        48.36        41.62        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       70.39         0.53        17.79        24.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP 
        5.65        15.62        32.52         2.56        32.91       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY 
       49.32        74.79        86.66        29.75        98.93        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI 
       65.36       101.95        83.87       114.02        85.97        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AU 
       52.77        51.25        43.73        39.98        43.07        76.21 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24N 
       63.62        62.14        20.22       109.58        50.89        78.51 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z 
      101.52        87.22        53.36        85.35        50.96        79.00 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LH 
       56.15        78.48        72.76        58.92        93.83        20.25 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QP 
       42.87         7.36        39.39        20.38        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB 
       10.59        77.62       143.38       149.59       220.90       129.57 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
       65.72       146.50       112.37       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RM 
       84.59       140.88       211.56        68.45       189.01        78.02 
TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
      102.77       100.70        89.46       131.21       157.41        97.48 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A0X5 TCGA-B6-A0X7 
       17.98        21.47       113.79       186.48        68.94        58.88 
TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 
       43.59       101.52       139.17       170.17        85.35        54.28 
TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       49.94        55.00        24.53        38.79        20.45        25.55 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA 
       40.83        39.55        39.16        56.94        56.98        37.22 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BT 
       18.21        25.71        24.85        44.05        48.69        45.57 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DH 
       11.67        49.05        41.75        44.02        45.83        38.01 
TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       22.13        48.23        15.65         3.22         2.56        38.47 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EE 
       16.27         4.41        15.68        14.30        44.81        31.00 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 
       30.35        10.78        15.16        24.56        23.08        41.00 
TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY 
       26.50        36.85        12.89        51.32        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18L 
        5.59        42.35        44.81        23.05         7.23        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U 
       72.56        37.74        55.63        37.55         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV 
       51.16        69.93        91.99       113.82        42.28        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 
       55.69        49.58        17.69        31.53        89.16        97.48 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FM 
      120.62       114.15        33.17        74.73       122.89        45.63 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 
       72.07        72.07         0.72        38.60        83.31       130.16 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
        8.94        11.93        11.77        11.77        12.66        11.77 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 
       12.66        12.66        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HG 
        1.45         0.69         0.62         3.85         3.75        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26W 
       11.34         0.16        12.03         2.30         3.25         0.23 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A 
        0.36         8.28         9.67         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 
        0.99        11.90        20.58        13.97        14.17        19.20 
TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       17.49        15.78        18.15        12.03        12.03        14.01 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JT 
       20.09        20.12        20.09        19.40        21.01        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XD 
       14.70        18.58        17.79        23.90        18.15        17.16 
TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XS 
       15.22        21.83        14.50        19.92        16.41        16.31 
TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       12.99        12.66        16.54        15.32        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27L 
       14.24        14.14        16.04        13.05        14.43        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z6 
       13.48         4.80        10.09        12.53        12.26        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10C 
        7.33        43.00        34.42        27.52        46.59        40.11 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
       47.15        44.68        40.96        38.60        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       43.33        34.26        32.02        31.96        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 
       25.41        27.12        23.24        19.43        14.79        25.05 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H 
       23.34        22.82        17.29        20.71        21.63        12.92 
TCGA-E2-A15J TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ 
       19.40         7.73        13.02        14.07        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II 
       53.62        32.35        28.50        17.10        33.73        33.70 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG 
       22.19        20.98        27.42        24.59        28.90        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 
      106.75       102.61         8.75        16.93         7.20        34.92 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 
       19.89        19.00         9.21        36.82        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NI 
       13.12        36.56        39.55        35.77        20.05         9.86 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA 
        0.62         2.10         6.12         2.76        21.21        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22A 
       20.81        40.24        34.65        21.27        34.59        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       22.75        12.89        23.51        17.06         0.69        27.22 
TCGA-E9-A248 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X 
        1.94         0.72        17.75         0.62        15.72        12.33 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1IY TCGA-EW-A1J1 
        0.23        14.70         0.26        14.40         8.48        18.90 
TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       28.77        22.82        29.85        40.41        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PB 
       52.96        29.82        23.11        18.48         7.86        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A3U0 
        6.15        13.94        14.43        19.96        25.91        17.49 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
      109.87       194.27        53.13        53.52        43.04        42.71 
TCGA-GM-A2DO TCGA-GM-A3XL TCGA-GM-A5PV TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A7W5 
       53.36        69.30        13.55        11.84        11.57         4.08 
TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR 
       11.44        15.32        14.70        14.47        14.79         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 
        4.14         4.50         4.50         5.59         3.22         6.21 
TCGA-LL-A9Q3 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ 
        7.36        46.55        31.99        58.62        36.36        22.32 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66N TCGA-OL-A66P TCGA-OL-A6VO TCGA-PL-A8LV 
       20.38        23.47        26.04        14.07        28.21         0.23 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA12 
        3.95        16.50         6.81         8.65         7.92         8.52 
TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R6 
        5.29         9.60       105.04 

$`AMP PEAK 12(8Q24.21) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04W 
        8.52        20.88         7.96        28.01        18.21        64.04 
TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       55.43       136.73       112.08        88.60       107.93        75.55 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET 
      101.72        89.36       107.61        74.40        37.05        35.05 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SY TCGA-A2-A0T4 
       31.82        29.75        99.19        54.64        44.28        20.52 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK 
       32.55        25.28        18.21        15.42        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A1FZ TCGA-A2-A1G6 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25F 
       48.46        22.45        16.47       107.70        17.19        10.59 
TCGA-A2-A3KC TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RY TCGA-A2-A4S0 
       20.88        32.75        49.48        31.99        21.30        23.21 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       34.29        35.47        33.11        23.61        29.56        31.36 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SB 
       11.34        10.59        11.28        13.41        14.70        13.74 
TCGA-A7-A56D TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A8-A07J TCGA-A8-A07S TCGA-A8-A07Z 
       14.73        11.05         9.37        12.00         7.99        28.04 
TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08O TCGA-A8-A08Z TCGA-A8-A095 TCGA-A8-A099 
       15.06         0.99        31.00        40.01        41.98         9.99 
TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0AD TCGA-AC-A23C 
       15.02        12.00        13.02        21.04        38.04         0.95 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QI TCGA-AC-A3BB 
       40.57        55.43        36.99        38.79         0.92         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YJ TCGA-AC-A5XS 
        0.69        14.83         1.12        19.79        24.79         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A0AT 
        1.81         1.18         0.43         1.32         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0XP 
        6.44         4.64         7.17         6.28         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03U 
        0.33         0.33         5.59        80.28        66.77        59.05 
TCGA-AO-A0J2 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       32.78        24.16        37.48        22.36        53.03        21.53 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A125 
       50.86        72.00        21.37        26.24        62.04        99.25 
TCGA-AO-A126 TCGA-AO-A12A TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A7U7 TCGA-AR-A0TR 
      108.72        90.58        28.37        14.73         9.99         5.26 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A1AH TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO 
       64.83        76.14        75.55        48.82        62.56        43.56 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O 
       17.23        37.81        61.28        73.02        96.89        84.20 
TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A2LE TCGA-AR-A2LJ 
        0.85        76.01        83.77        73.18       128.65        62.86 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-B6-A0I9 TCGA-B6-A0IC 
       40.04        38.17        40.54        54.74        12.13        50.70 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RO 
      110.14       110.93       234.28        81.17       172.96       162.05 
TCGA-B6-A0RQ TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
      140.48       188.68        79.63       129.57       129.70        28.27 
TCGA-B6-A1KI TCGA-B6-A40B TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B5 TCGA-BH-A0B9 
       73.51       103.63        28.50        46.95        48.36        51.68 
TCGA-BH-A0BC TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       32.02        21.70        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG 
       53.95        49.94        48.13        42.90        31.17        23.44 
TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E6 TCGA-BH-A0E9 
       13.91        17.26        45.17        47.41         9.63        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0HA 
       32.65        24.49        24.43        37.78        35.51        52.96 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0W3 TCGA-BH-A0W4 
       20.38         5.85         2.50        13.61        23.93        24.95 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18P TCGA-BH-A18S 
        8.81         2.01        20.12        90.84        30.28        66.05 
TCGA-BH-A1ET TCGA-BH-A1F0 TCGA-BH-A1F8 TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       82.85        25.81        24.66        36.92        63.35        55.00 
TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
      144.59         6.90        57.83        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-C8-A12Q TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HL 
        0.99       109.28         0.07        12.33        10.92        10.42 
TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z 
        0.30         0.43         0.03         0.03         0.23        20.88 
TCGA-D8-A140 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.25        13.48        21.14        14.17        16.50        18.71 
TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1X7 TCGA-D8-A1X8 
       18.90        18.97        20.38        12.20        16.73        25.74 
TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       27.58         2.66        14.73        17.69         7.96        15.85 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27P 
        6.35        15.16        17.42        13.45         9.44         0.76 
TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       13.08        14.50        40.41        37.51        28.44        28.87 
TCGA-E2-A14Q TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15K 
       38.24        21.04        23.87        18.21        17.42         9.04 
TCGA-E2-A15L TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1BC 
       20.58        19.56        17.06        53.03        29.95        16.47 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       38.30        37.41        32.78        28.44        22.65         3.88 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LL 
       11.08        54.18        39.62        19.66        40.47        43.04 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1ND TCGA-E9-A1NG 
        5.52        15.72        30.61        19.20        12.59        21.57 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R5 TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RI 
       11.90        14.30         1.38         0.66         6.58        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A245 
       34.13         0.79        12.53        13.32        24.10         0.85 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A5UO 
        0.95        24.56         0.76        26.07        18.41        13.81 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 
       15.39        12.20        39.72        18.21        13.25        16.57 
TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PE 
       15.68        25.94        29.95        30.08        18.90        10.52 
TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 
       34.55        55.00        52.73        22.09        21.27        10.16 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       10.59         7.40        59.57        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       90.84        76.64        77.33       110.50        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       66.38        72.03        18.12        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A6FP 
        8.75         9.53        10.95         7.59        17.06        11.57 
TCGA-LL-A6FQ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5RU 
        2.63        27.91         2.79         2.10        12.66        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K 
       34.92        16.87        24.72        26.70        65.62        33.57 
TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-AA0Z 
       31.07         7.23        19.73         0.16         0.26        10.59 
TCGA-S3-AA11 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-XX-A89A TCGA-Z7-A8R5 
        5.56         7.17         6.87         3.91         9.14       100.01 

  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                        220.90                         234.28 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                         22.19                          22.93 
[1] "0.0 - 220.9 (22.2)" "0.0 - 234.3 (22.9)"
[1] "hr=" "1.3"
D12V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 12(8Q24.21) MUTATED        48       43        4        2       229
  AMP PEAK 12(8Q24.21) WILD-TYPE      35       37        5        3       113
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 12(8Q24.21) MUTATED         144         2         94         20
  AMP PEAK 12(8Q24.21) WILD-TYPE        90         0         48          9
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 12(8Q24.21) MUTATED           40       11         1      12
  AMP PEAK 12(8Q24.21) WILD-TYPE         23        7         0       4
D12V3, multiclass
            clus
vv           AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  STAGE I                              48                             35
  STAGE IA                             43                             37
  STAGE IB                              4                              5
  STAGE II                              2                              3
  STAGE IIA                           229                            113
  STAGE IIB                           144                             90
  STAGE III                             2                              0
  STAGE IIIA                           94                             48
  STAGE IIIB                           20                              9
  STAGE IIIC                           40                             23
  STAGE IV                             11                              7
  STAGE TIS                             1                              0
  STAGE X                              12                              4
[1] 13  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(8Q24.21) MUTATED   151 399  74  24
  AMP PEAK 12(8Q24.21) WILD-TYPE 114 195  50  15
D12V4, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  T1                          151                            114
  T2                          399                            195
  T3                           74                             50
  T4                           24                             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  N3
  AMP PEAK 12(8Q24.21) MUTATED   307 205  78  47
  AMP PEAK 12(8Q24.21) WILD-TYPE 174 134  35  27
D12V5, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  N0                          307                            174
  N1                          205                            134
  N2                           78                             35
  N3                           47                             27
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 12(8Q24.21) MUTATED          1 560  11  79
  AMP PEAK 12(8Q24.21) WILD-TYPE        4 294   8  68
D12V6, multiclass
          clus
vv         AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                560                            294
  M1                                 11                              8
  MX                                 79                             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"
D12V7, binary
                                cls
clus                               0   1
  AMP PEAK 12(8Q24.21) MUTATED   642   9
  AMP PEAK 12(8Q24.21) WILD-TYPE 372   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED    642    9
  AMP PEAK 12(8Q24.21) WILD-TYPE  372    2
        clus
vv       AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  FEMALE                          642                            372
  MALE                              9                              2
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 12(8Q24.21) MUTATED                            1
  AMP PEAK 12(8Q24.21) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                             532
  AMP PEAK 12(8Q24.21) WILD-TYPE                           222
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                               63
  AMP PEAK 12(8Q24.21) WILD-TYPE                            112
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                     6
  AMP PEAK 12(8Q24.21) WILD-TYPE                   0
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 12(8Q24.21) MUTATED                                 16
  AMP PEAK 12(8Q24.21) WILD-TYPE                               13
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 12(8Q24.21) MUTATED                    5             27
  AMP PEAK 12(8Q24.21) WILD-TYPE                 10             17
D12V8, multiclass
                                  clus
vv                                 AMP PEAK 12(8Q24.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             532
  INFILTRATING LOBULAR CARCINOMA                             63
  MEDULLARY CARCINOMA                                         6
  MIXED HISTOLOGY (PLEASE SPECIFY)                           16
  MUCINOUS CARCINOMA                                          5
  OTHER  SPECIFY                                             27
                                  clus
vv                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               222
  INFILTRATING LOBULAR CARCINOMA                              112
  MEDULLARY CARCINOMA                                           0
  MIXED HISTOLOGY (PLEASE SPECIFY)                             13
  MUCINOUS CARCINOMA                                           10
  OTHER  SPECIFY                                               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V9, binary
                                cls
clus                               0   1
  AMP PEAK 12(8Q24.21) MUTATED   191 460
  AMP PEAK 12(8Q24.21) WILD-TYPE  91 283
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED    191  460
  AMP PEAK 12(8Q24.21) WILD-TYPE   91  283
     clus
vv    AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  NO                           191                             91
  YES                          460                            283
[1] 2 2
[1] FALSE
D12V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 12(8Q24.21) MUTATED                                  1    40
  AMP PEAK 12(8Q24.21) WILD-TYPE                                0    16
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 12(8Q24.21) MUTATED                         114   426
  AMP PEAK 12(8Q24.21) WILD-TYPE                        44   291
D12V11, multiclass
                                  clus
vv                                 AMP PEAK 12(8Q24.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      40
  BLACK OR AFRICAN AMERICAN                                 114
  WHITE                                                     426
                                  clus
vv                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        16
  BLACK OR AFRICAN AMERICAN                                    44
  WHITE                                                       291
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V12, binary
                                cls
clus                               0   1
  AMP PEAK 12(8Q24.21) MUTATED    19 516
  AMP PEAK 12(8Q24.21) WILD-TYPE  17 310
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     19  516
  AMP PEAK 12(8Q24.21) WILD-TYPE   17  310
                        clus
vv                       AMP PEAK 12(8Q24.21) MUTATED
  HISPANIC OR LATINO                               19
  NOT HISPANIC OR LATINO                          516
                        clus
vv                       AMP PEAK 12(8Q24.21) WILD-TYPE
  HISPANIC OR LATINO                                 17
  NOT HISPANIC OR LATINO                            310
[1] 2 2
[1] FALSE

Clustering(13) Variable = AMP PEAK 13(10P15.1) MUTATION ANALYSIS
D13V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 13(10P15.1) MUTATED   249  42
  AMP PEAK 13(10P15.1) WILD-TYPE 637  77
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           291                            714 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                            42                             77 
$`AMP PEAK 13(10P15.1) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SO 
        0.39        14.37        43.43        48.10        13.68        28.01 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CM TCGA-A2-A0D0 
       18.02        41.95        73.84        22.06        24.79        21.14 
TCGA-A2-A0D2 TCGA-A2-A0EQ TCGA-A2-A0EV TCGA-A2-A0ST TCGA-A2-A0SW TCGA-A2-A0SX 
       33.76        79.76        31.82        99.19        44.88        50.43 
TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE 
       17.52        17.13         8.38        18.71        20.75        18.21 
TCGA-A2-A0YG TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS 
       21.90        18.61        31.73        19.20        16.31        33.93 
TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A7-A0DA TCGA-A7-A13D 
       83.01        38.40        38.37         7.30        35.67        31.73 
TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A4SA TCGA-A7-A4SD 
       10.72        24.26        23.74        21.73        14.93        14.50 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       17.92        14.73        12.10        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X 
        8.75        13.02         1.02        17.98        29.03        31.00 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07Z 
       43.00        19.99        18.97         8.98        24.99        28.04 
TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P 
       38.01        33.01        19.96        37.05         9.99        31.00 
TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B 
        0.99        43.00        30.97        12.00         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09Q TCGA-A8-A09X TCGA-AC-A23C 
       50.04        49.05        45.07        25.02        14.01         0.95 
TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2FO TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW 
        2.37        38.53        50.70         0.07         1.12         0.69 
TCGA-AC-A8OQ TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS 
        1.12         1.78         1.71         6.51         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FL TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AO-A03O 
        0.33         7.59         0.33         0.33         0.33        81.63 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A124 
       29.13        32.78        21.40        37.48        55.33       102.58 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A1KR TCGA-AO-A1KS 
      106.78        96.10        90.58        48.36        70.39         0.53 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
       24.79       130.09         5.65         2.56        32.91         9.99 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AI 
       74.79        86.66        98.93        83.87        85.97        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AY 
       52.77        51.25        43.07        17.23        63.62        20.22 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A254 
      109.58        50.89        53.36        85.35        78.48        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LR TCGA-B6-A0IB TCGA-B6-A0IE 
       58.92        93.83         7.36        20.38       129.57        65.72 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE 
      112.37       176.98        84.59       110.14       140.88       211.56 
TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF 
      162.05       100.70        89.46       186.48        43.59       101.52 
TCGA-B6-A402 TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BG 
       54.28        20.45        25.55        39.55        56.94        24.85 
TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0DS TCGA-BH-A0DT 
       44.05        48.69        11.67        41.75         2.56        38.47 
TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0GY 
        4.41         9.63        44.81        32.65        31.00        30.35 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HU TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0WA 
       23.08        41.00        12.89        50.79         5.59        23.05 
TCGA-BH-A18L TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EV 
       26.66        55.63         7.36        51.16        69.93        12.00 
TCGA-BH-A1EW TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FD 
       55.69        25.81        31.53        97.48       114.15        33.17 
TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W 
      130.16        11.93        12.66        11.77         0.07        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A1HJ TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 
        3.12         1.78         0.16         0.36         8.28         0.03 
TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF 
        0.99        20.88        13.97        18.71        18.15        12.03 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XF TCGA-D8-A1XK 
       20.12        20.09        18.58        23.90        15.22        14.50 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A27R TCGA-D8-A3Z6 
        6.35        12.99        12.66        15.32        10.09        18.51 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14R TCGA-E2-A14V 
       34.42        27.52        47.15        44.68        38.60        34.26 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A 
       25.41        27.12        19.43        14.79        25.05        23.34 
TCGA-E2-A15G TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1LH TCGA-E2-A1LI 
       18.21         7.73        14.07        60.53       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N9 TCGA-E9-A1NE 
        8.75        16.93        34.92        19.89        13.12        35.77 
TCGA-E9-A1RB TCGA-E9-A1RH TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 
       20.81        34.59        22.75        23.51         0.69        27.22 
TCGA-E9-A295 TCGA-E9-A3QA TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
        0.72         0.62        14.40        28.77        25.94        22.82 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PH 
       29.85        40.41         7.86        19.99         6.15        19.96 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DB 
       52.73        25.91        17.49        10.16       109.87        53.13 
TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YW 
       53.52        42.71        42.28        62.33        69.30        11.84 
TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FQ 
        4.08         8.75        11.44        15.32        14.47         2.63 
TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 
        4.50         6.21         2.79        46.55        36.36        20.38 
TCGA-OL-A66I TCGA-OL-A6VO TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z 
       23.47        28.21         0.23         3.95        16.50        10.59 
TCGA-S3-AA10 TCGA-S3-AA17 TCGA-Z7-A8R6 
        7.92         3.91       105.04 

$`AMP PEAK 13(10P15.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM 
        8.52        14.27        47.24        20.88        31.79         7.96 
TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04V 
       39.32        19.20        18.21       104.81        82.16        63.12 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO 
       64.04        55.43        36.13       136.73        64.57       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
       92.48        88.60       107.93        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 
       63.45        64.04        56.81        34.55        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
      101.72        89.36        80.28       107.61        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SU 
       35.05        34.29        29.75        24.72        24.16        54.64 
TCGA-A2-A0SV TCGA-A2-A0SY TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
       27.12        44.28        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       25.28        15.42        21.67        14.50        19.33        48.46 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       23.77        23.47        17.36        36.79        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D 
       19.56        16.47        52.47       107.70        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       49.48        34.98        31.99        24.39        21.30        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       26.96        21.14        21.90        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G 
       35.47        30.61        37.45        33.11        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       29.56        31.36        23.80        20.61        22.32        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       10.59        10.29        11.28        13.41        14.70        11.97 
TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06P TCGA-A8-A06T 
       13.74        21.17        10.72        11.05        13.02        53.06 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07F 
       26.01         1.02        17.03        53.98         9.01        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       14.01        12.00        17.03         9.99        10.98         7.99 
TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.99        18.05        15.06        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z 
       28.96        12.00        31.00        33.01        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09K 
       33.01        17.95        41.98         9.99         1.02        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       33.07         1.02         8.98        19.04        15.02         0.99 
TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 
       12.00        19.04        13.02        21.04         0.99        13.02 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM 
       17.03        38.04        10.85         2.66         1.48        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QH 
       40.57        55.43        36.99        38.79        26.04         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83        22.19 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12        16.57        19.79        23.24        24.79         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR 
        1.81         1.18         0.43         1.68         1.74         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        0.33         0.33         0.23         0.33         0.62         2.96 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        8.02         7.36         0.16         6.44         4.64         7.96 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        7.00         7.17         6.28         6.02         0.33         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         5.33         5.59        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J4 
       66.77        84.69        68.75        47.87        59.05        52.18 
TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       24.16        20.32        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A12B TCGA-AO-A12D 
       62.04        71.80        99.25       108.72        77.56        64.04 
TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       57.30        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TP TCGA-AR-A0TQ 
       17.79        26.93        15.62        32.52       111.32        49.32 
TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
        5.26        29.75        64.83        55.86        76.14        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
      101.95       114.02        75.55        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX 
       43.56        39.98        37.81        76.21        61.28        62.14 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       87.22        76.01        50.96        83.77        79.00        56.15 
TCGA-AR-A252 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM 
       73.18       128.65        20.25        62.86        42.87        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       38.17        39.39        40.54        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       10.59        77.62       143.38       149.59        12.13       220.90 
TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0RG 
       50.70       146.50        18.77       126.12       110.93        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP 
      189.01       234.28        81.17        78.02       172.96       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      140.48       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
       17.98        21.47       113.79       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88        73.51       139.17       170.17        85.35 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AZ 
       49.94       103.63        55.00        24.53        38.79        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 
       46.95        40.83        39.16        48.36        56.98        51.68 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM 
       37.22        32.02        18.21        25.71        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       35.67        27.19        53.69        53.95        45.57        49.94 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.05        44.02        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       23.44        38.01        22.13        13.91        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
       15.65         3.22        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 
       14.30        46.19        24.49        24.43        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       37.78        35.51        24.56        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX 
        5.85         2.50        13.61        36.85        51.32        27.25 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G 
       23.93        24.95        42.35        44.81         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        7.23        20.12        90.84        72.56        37.74        30.28 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       37.55        66.05        51.39        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       42.28        49.58        17.69        89.16        24.66       120.62 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       74.73       122.89        36.92        63.35        55.00        45.63 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       72.07       144.59        72.07         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       83.31        57.83        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12U TCGA-C8-A12V 
      109.28         8.94        11.77        11.77        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
       12.66         1.45         0.69         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL 
       12.33        10.92        11.34        11.34        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 
        2.30         3.25         0.30         0.23         0.43         9.67 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03         0.03        12.20         0.03         0.23        11.90 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
       13.25        20.58        14.17        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JG 
       14.17        17.49        16.50        15.78        18.90        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP 
       14.01        18.97        20.09        19.40        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        17.79        16.73        25.74 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ 
       27.58        18.15         2.66        17.16        14.73        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       19.92        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 
       15.16        16.54        15.52         3.81        14.24        14.14 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
       17.42        16.04        13.45        13.05        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
       16.41        13.48         4.80         0.76        13.08        12.53 
TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A109 TCGA-E2-A10A 
       12.26        14.50         7.33        43.00        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q 
       37.51        40.11        28.44        28.87        40.96        38.24 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       33.17        33.30        43.33        32.02        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D 
       17.03        23.24        21.04        23.87        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       20.71        21.63        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 
       20.58        13.02        19.56        17.06        14.99        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       53.03        29.95        32.35        28.50        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ 
       38.30        37.41        32.78        33.73        33.70        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       22.65         3.88        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       27.42        39.62        19.66        24.59        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
       18.87        43.04         5.52        15.72         7.20        30.61 
TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 
       19.00         9.21        19.20        36.82        13.48        12.00 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       36.56        39.55        12.59        20.05        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       11.90        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        2.76        21.21        32.09        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        6.58        21.27        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
       13.32        39.09        12.89        24.10        17.06         0.85 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO 
        1.94         0.95        24.56        17.75         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       18.41        15.72        12.33         0.23        14.70         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       13.81        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX TCGA-EW-A1P0 
       18.90        13.25        16.57        15.68        29.95        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       39.78        52.96        29.82        23.11        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR 
       18.90        13.94        10.52        14.43        34.55        55.00 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        10.59         7.40        59.57       194.27 
TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       43.04        61.91        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       18.12        11.57        21.24         6.67         4.60         9.53 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP 
       10.95         7.59        17.06        14.70        14.79        11.57 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 
        3.88         4.14         4.50         5.59         3.22         7.36 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
       27.91         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J 
       34.92        16.87        24.72        22.32        26.70        65.62 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ 
       33.57        31.07        26.04         7.23        14.07        19.73 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-S3-AA12 
        0.16         0.26         6.81         8.65         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        7.17         6.87         5.29         9.60         9.14       100.01 

  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                         23.47                          22.11 
[1] "0.0 - 211.6 (23.5)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.3"
D13V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 13(10P15.1) MUTATED        26       16        2        1       113
  AMP PEAK 13(10P15.1) WILD-TYPE      57       64        7        4       229
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 13(10P15.1) MUTATED          56         0         41         10
  AMP PEAK 13(10P15.1) WILD-TYPE       178         2        101         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 13(10P15.1) MUTATED           18        7         1       5
  AMP PEAK 13(10P15.1) WILD-TYPE         45       11         0      11
D13V3, multiclass
            clus
vv           AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  STAGE I                              26                             57
  STAGE IA                             16                             64
  STAGE IB                              2                              7
  STAGE II                              1                              4
  STAGE IIA                           113                            229
  STAGE IIB                            56                            178
  STAGE III                             0                              2
  STAGE IIIA                           41                            101
  STAGE IIIB                           10                             19
  STAGE IIIC                           18                             45
  STAGE IV                              7                             11
  STAGE TIS                             1                              0
  STAGE X                               5                             11
[1] 13  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(10P15.1) MUTATED    68 182  30  15
  AMP PEAK 13(10P15.1) WILD-TYPE 197 412  94  24
D13V4, multiclass
    clus
vv   AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  T1                           68                            197
  T2                          182                            412
  T3                           30                             94
  T4                           15                             24
[1] 4 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  N3
  AMP PEAK 13(10P15.1) MUTATED   145  88  36  22
  AMP PEAK 13(10P15.1) WILD-TYPE 336 251  77  52
D13V5, multiclass
    clus
vv   AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  N0                          145                            336
  N1                           88                            251
  N2                           36                             77
  N3                           22                             52
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 13(10P15.1) MUTATED          1 253   7  36
  AMP PEAK 13(10P15.1) WILD-TYPE        4 601  12 111
D13V6, multiclass
          clus
vv         AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                253                            601
  M1                                  7                             12
  MX                                 36                            111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V7, binary
                                cls
clus                               0   1
  AMP PEAK 13(10P15.1) MUTATED   295   2
  AMP PEAK 13(10P15.1) WILD-TYPE 719   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED    295    2
  AMP PEAK 13(10P15.1) WILD-TYPE  719    9
        clus
vv       AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  FEMALE                          295                            719
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 13(10P15.1) MUTATED                            1
  AMP PEAK 13(10P15.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 13(10P15.1) MUTATED                             257
  AMP PEAK 13(10P15.1) WILD-TYPE                           497
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 13(10P15.1) MUTATED                               19
  AMP PEAK 13(10P15.1) WILD-TYPE                            156
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 13(10P15.1) MUTATED                     5
  AMP PEAK 13(10P15.1) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 13(10P15.1) MUTATED                                  5
  AMP PEAK 13(10P15.1) WILD-TYPE                               24
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 13(10P15.1) MUTATED                    0              9
  AMP PEAK 13(10P15.1) WILD-TYPE                 15             35
D13V8, multiclass
                                  clus
vv                                 AMP PEAK 13(10P15.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             257
  INFILTRATING LOBULAR CARCINOMA                             19
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            5
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                              9
                                  clus
vv                                 AMP PEAK 13(10P15.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               497
  INFILTRATING LOBULAR CARCINOMA                              156
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  MUCINOUS CARCINOMA                                           15
  OTHER  SPECIFY                                               35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V9, binary
                                cls
clus                               0   1
  AMP PEAK 13(10P15.1) MUTATED    90 207
  AMP PEAK 13(10P15.1) WILD-TYPE 192 536
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED     90  207
  AMP PEAK 13(10P15.1) WILD-TYPE  192  536
     clus
vv    AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  NO                            90                            192
  YES                          207                            536
[1] 2 2
[1] FALSE
D13V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 13(10P15.1) MUTATED                                  1    14
  AMP PEAK 13(10P15.1) WILD-TYPE                                0    42
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 13(10P15.1) MUTATED                          69   184
  AMP PEAK 13(10P15.1) WILD-TYPE                        89   533
D13V11, multiclass
                                  clus
vv                                 AMP PEAK 13(10P15.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      14
  BLACK OR AFRICAN AMERICAN                                  69
  WHITE                                                     184
                                  clus
vv                                 AMP PEAK 13(10P15.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        42
  BLACK OR AFRICAN AMERICAN                                    89
  WHITE                                                       533
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V12, binary
                                cls
clus                               0   1
  AMP PEAK 13(10P15.1) MUTATED     8 234
  AMP PEAK 13(10P15.1) WILD-TYPE  28 592
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED      8  234
  AMP PEAK 13(10P15.1) WILD-TYPE   28  592
                        clus
vv                       AMP PEAK 13(10P15.1) MUTATED
  HISPANIC OR LATINO                                8
  NOT HISPANIC OR LATINO                          234
                        clus
vv                       AMP PEAK 13(10P15.1) WILD-TYPE
  HISPANIC OR LATINO                                 28
  NOT HISPANIC OR LATINO                            592
[1] 2 2
[1] FALSE

Clustering(14) Variable = AMP PEAK 14(10Q22.3) MUTATION ANALYSIS
D14V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 14(10Q22.3) MUTATED   122  24
  AMP PEAK 14(10Q22.3) WILD-TYPE 764  95
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           146                            859 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                            24                             95 
$`AMP PEAK 14(10Q22.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A2-A04Q TCGA-A2-A04W TCGA-A2-A0CL 
        0.39        14.37        48.10        41.95        64.04        64.57 
TCGA-A2-A0CM TCGA-A2-A0EQ TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T7 
       24.79        79.76        50.43        17.13         8.38        20.75 
TCGA-A2-A0YJ TCGA-A2-A1FW TCGA-A2-A25E TCGA-A7-A0CJ TCGA-A7-A26G TCGA-A7-A26I 
       18.61        17.36        91.92        30.61        23.74        21.73 
TCGA-A7-A4SB TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A07E 
       13.74        13.02        17.98        31.00        17.03        19.99 
TCGA-A8-A07L TCGA-A8-A07Z TCGA-A8-A08B TCGA-A8-A08P TCGA-A8-A092 TCGA-A8-A09Q 
       17.03        28.04        38.01        31.00        30.97        25.02 
TCGA-A8-A09X TCGA-AC-A23E TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A8OP TCGA-AN-A04C 
       14.01         2.37         0.07         1.12         1.74         1.78 
TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FV TCGA-AN-A0XN TCGA-AO-A03N 
        8.02         0.16         0.33         0.33         0.33        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J9 TCGA-AO-A0JL TCGA-AO-A124 
       81.63        84.69        29.13        53.03        55.33       102.58 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
      106.78        90.58        64.04        61.87        70.39         0.53 
TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TT TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ 
      130.09         2.56        86.66        61.84        52.77        43.07 
TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A254 TCGA-AR-A2LL 
       63.62        50.89        53.36        85.35        72.76         7.36 
TCGA-B6-A0I1 TCGA-B6-A0IE TCGA-B6-A0IO TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RS 
       77.62        65.72       110.14        81.17       162.05       100.70 
TCGA-B6-A0WV TCGA-B6-A1KC TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0B6 
       79.63        43.59       103.63        24.53        25.55        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BL TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E6 TCGA-BH-A0E7 
       51.68        44.05         2.56        38.47         9.63        44.81 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0HP TCGA-BH-A18L TCGA-BH-A18R TCGA-BH-A18T 
       32.65        31.00        13.61        26.66        37.55         7.36 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1FN 
       69.93        91.99        12.00        17.69        31.53        72.07 
TCGA-C8-A12O TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HK TCGA-C8-A1HM 
       12.66         3.12         1.45         3.75        12.03         2.30 
TCGA-C8-A26W TCGA-C8-A274 TCGA-D8-A13Z TCGA-D8-A147 TCGA-D8-A1JD TCGA-D8-A1JE 
        0.23         0.03        20.88        19.20        18.15        18.90 
TCGA-D8-A1JF TCGA-D8-A1XL TCGA-E2-A107 TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14Z 
       12.03        19.92        34.42        40.11        44.68        17.03 
TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A15G TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1LI 
       25.41        19.43        18.21        14.07        60.53       102.61 
TCGA-E2-A2P5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1R4 TCGA-E9-A1RH TCGA-E9-A22B 
       16.93        13.48        13.12         6.12        34.59        22.75 
TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A5UP TCGA-EW-A1OV TCGA-EW-A1OZ TCGA-EW-A1P4 
        0.69        27.22        14.40        25.94        40.41        29.82 
TCGA-EW-A1P8 TCGA-EW-A423 TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LD-A7W5 
        7.86        10.16        53.13        42.28        69.30         4.08 
TCGA-LD-A9QF TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Z TCGA-MS-A51U TCGA-OL-A5S0 
        8.75        14.47         2.63         4.50         2.79        20.38 
TCGA-PL-A8LV TCGA-S3-AA10 
        0.23         7.92 

$`AMP PEAK 14(10Q22.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        43.43        14.27        47.24        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       31.79         7.96        39.32        28.01        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V 
      104.81        18.02        82.16        73.84        22.06        63.12 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       55.43        36.13       136.73       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
      107.93        75.55        75.25         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
       56.81        21.14        34.55        33.76        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
      101.72        89.36        80.28       107.61        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       35.05        34.29        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        27.12        44.88        44.28        17.52 
TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD 
       18.71        20.52        17.46        18.90        32.55        25.28 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK 
       18.21        15.42        21.90        21.67        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ 
       48.46        31.73        23.77        23.47        36.79        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       20.25        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       16.31        17.19        18.15        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       33.93        83.01        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       34.98        31.99        38.37         7.30        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE 
       23.21        26.96        21.14        21.90        38.30        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D 
       34.29        35.47        37.45        35.67        33.11        31.73 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       10.72        12.72        23.61        29.56        31.36        24.26 
TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       23.80        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD 
       11.28        13.41        14.70        11.97        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       21.17        17.92        14.73        12.10        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q 
       10.29         9.37        10.42         8.75        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 
       53.06        29.03        26.01         1.02        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O 
       43.00        18.97        18.97        14.01        12.00         9.99 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A082 
       10.98         8.98         7.99        24.99         9.99        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08F 
       15.06        36.95        13.02         0.99        28.96        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08R 
       19.96        12.00        37.05         9.99        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 
       33.01        93.04        43.00        40.01        33.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       41.98        12.00         9.99         9.99        12.00         1.02 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N 
       50.04        49.05        45.07        29.98        33.07         1.02 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 
        8.98        19.04        15.02         0.99        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD 
       13.02        21.04         0.99        13.02        17.03        38.04 
TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        0.95        10.85         2.66         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
        1.02         0.92         2.27         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO 
        1.55         1.81         1.18         0.69         0.43         1.68 
TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        1.12         1.32         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR 
        0.62         2.96         1.71         7.36         6.51         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         6.44         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        7.17         6.28         6.02         0.36         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         5.33         5.59        80.28        47.84 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 
       68.75        47.87        59.05        32.78        21.40        52.18 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB 
       24.16        37.48        20.32        22.36        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12B 
       62.04        71.80        99.25       108.72        96.10        77.56 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       57.30        48.36        41.62        28.37        14.73        82.62 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       17.79        24.79        26.93         5.65        15.62        32.52 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
       32.91         9.99       111.32        49.32         5.26        74.79 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
       29.75        98.93        64.83        55.86        76.14        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK 
      101.95        83.87       114.02        85.97        75.55        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AR 
       48.82        62.56        43.73        43.56        39.98        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
       37.81        76.21        61.28        62.14        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       87.22        76.01        50.96        83.77        79.00        56.15 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       78.48        73.18        58.92        93.83       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86        42.87        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 
       20.38        54.74        16.04        20.45        10.59       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IG 
      149.59        12.13       220.90       129.57        50.70       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      112.37       176.98        18.77       126.12        84.59       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM 
      140.88       211.56        68.45       189.01       234.28        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      172.96       102.77       140.48        89.46       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
       97.48       188.68        17.98        21.47       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF 
      129.70       186.48        28.27        68.94        58.88       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
       73.51       139.17       170.17        85.35        54.28        49.94 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       55.00        38.79        20.45        28.50        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.55        39.16        48.36        56.98        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        24.85        21.70        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       48.69        27.19        53.69        53.95        45.57        49.94 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
       11.67        49.05        41.75        44.02        48.13        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       45.83        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX 
       48.23        17.26        15.65         3.22        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EB 
       16.27         4.41        15.68        14.30        46.19        24.49 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.43        30.35        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       24.56        23.08        41.00        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        5.85         2.50        36.85        12.89        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       50.79         5.59        23.93        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       23.05         8.81         2.01         7.23        20.12        90.84 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18U 
       72.56        37.74        30.28        55.63        66.05        51.39 
TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX 
       51.16       113.82        82.85        42.28        55.69        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        89.16        97.48        24.66       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       45.63       144.59        72.07         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       83.31        57.83       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77         0.07        12.66        12.66        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.78         0.69         0.62         3.85        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V 
       11.34        11.34         0.16        10.42         3.25         0.30 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 
        0.36         0.43         8.28         9.67         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 
       12.20         0.99         0.03         0.23        11.90        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 
       20.58        13.97        14.17        13.48        21.14        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JG TCGA-D8-A1JH 
       17.49        16.50        18.71        15.78        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       18.97        20.09        20.12        20.09        19.40        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
       21.01        12.20        13.32        14.70        18.58        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       16.73        25.74        23.90        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM 
       17.16        15.22        14.73        21.83        14.50        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU 
        7.96        16.41        15.85        16.31         6.35        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       15.16        12.66        16.54        15.32        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       14.24        14.14        17.42        16.04        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       14.43         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
       10.09        13.08        12.53        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B 
        7.33        43.00        27.52        46.59        40.41        37.51 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R 
       28.44        28.87        47.15        40.96        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
       33.17        33.30        43.33        34.26        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       28.60        27.12        23.24        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       25.05        23.34        22.82        17.29        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       12.92        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 
       13.02        19.56        17.06        14.99        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       37.41        32.78        33.73        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
        3.88        22.19        20.98        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       39.62        19.66        24.59        40.47        28.90        18.87 
TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
      106.75         8.75        43.04         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 
       30.61        34.92        19.89        19.00         9.21        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        12.00        36.56        39.55        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       20.05        21.57         9.86        11.90        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        2.10         1.38         2.76        21.21        32.09        20.81 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI 
       40.24         0.66        34.65         6.58        21.27        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E 
       34.13         0.79        12.53        13.32        39.09        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 
       23.51        24.10        17.06         0.85         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       24.56         0.72        17.75         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
        0.62        15.72        12.33         0.23        14.70         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       13.81        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OW 
       18.90        13.25        16.57        15.68        28.77        22.82 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 
       29.95        29.85        41.13        39.78        52.96        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       18.48        30.08        18.90        19.99         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS 
       10.52        14.43        34.55        19.96        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C8 
       25.91        22.09        21.27        17.49        10.59         7.40 
TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
      109.87        59.57       194.27        53.52        43.04        42.71 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       18.12        11.84        11.57        21.24         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        9.53        11.44        10.95         7.59        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 
       14.70        14.79        11.57         3.88         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        5.59         3.22         6.21         7.36        27.91         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       36.36        16.87        24.72        22.32        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       65.62        33.57        31.07        26.04         7.23        14.07 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       28.21        19.73         0.16         0.26         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        6.81         8.65        10.59         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                        162.05                         234.28 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                        24.905                         22.190 
[1] "0.0 - 162.1 (24.9)" "0.0 - 234.3 (22.2)"
[1] "hr=" "1.5"
D14V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 14(10Q22.3) MUTATED        10       10        1        1        61
  AMP PEAK 14(10Q22.3) WILD-TYPE      73       70        8        4       281
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 14(10Q22.3) MUTATED          25         0         23          5
  AMP PEAK 14(10Q22.3) WILD-TYPE       209         2        119         24
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 14(10Q22.3) MUTATED            6        3         1       3
  AMP PEAK 14(10Q22.3) WILD-TYPE         57       15         0      13
D14V3, multiclass
            clus
vv           AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  STAGE I                              10                             73
  STAGE IA                             10                             70
  STAGE IB                              1                              8
  STAGE II                              1                              4
  STAGE IIA                            61                            281
  STAGE IIB                            25                            209
  STAGE III                             0                              2
  STAGE IIIA                           23                            119
  STAGE IIIB                            5                             24
  STAGE IIIC                            6                             57
  STAGE IV                              3                             15
  STAGE TIS                             1                              0
  STAGE X                               3                             13
[1] 13  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 14(10Q22.3) MUTATED    28  97  17   6
  AMP PEAK 14(10Q22.3) WILD-TYPE 237 497 107  33
D14V4, multiclass
    clus
vv   AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  T1                           28                            237
  T2                           97                            497
  T3                           17                            107
  T4                            6                             33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  AMP PEAK 14(10Q22.3) MUTATED    77  41  20   8
  AMP PEAK 14(10Q22.3) WILD-TYPE 404 298  93  66
D14V5, multiclass
    clus
vv   AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  N0                           77                            404
  N1                           41                            298
  N2                           20                             93
  N3                            8                             66
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 14(10Q22.3) MUTATED          0 134   3  12
  AMP PEAK 14(10Q22.3) WILD-TYPE        5 720  16 135
D14V6, multiclass
          clus
vv         AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                134                            720
  M1                                  3                             16
  MX                                 12                            135
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V7, binary
                                cls
clus                               0   1
  AMP PEAK 14(10Q22.3) MUTATED   147   2
  AMP PEAK 14(10Q22.3) WILD-TYPE 867   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED    147    2
  AMP PEAK 14(10Q22.3) WILD-TYPE  867    9
        clus
vv       AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  FEMALE                          147                            867
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 14(10Q22.3) MUTATED                            0
  AMP PEAK 14(10Q22.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 14(10Q22.3) MUTATED                             126
  AMP PEAK 14(10Q22.3) WILD-TYPE                           628
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 14(10Q22.3) MUTATED                               11
  AMP PEAK 14(10Q22.3) WILD-TYPE                            164
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 14(10Q22.3) MUTATED                     3
  AMP PEAK 14(10Q22.3) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 14(10Q22.3) MUTATED                                  4
  AMP PEAK 14(10Q22.3) WILD-TYPE                               25
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 14(10Q22.3) MUTATED                    0              5
  AMP PEAK 14(10Q22.3) WILD-TYPE                 15             39
D14V8, multiclass
                                  clus
vv                                 AMP PEAK 14(10Q22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             126
  INFILTRATING LOBULAR CARCINOMA                             11
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            4
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                              5
                                  clus
vv                                 AMP PEAK 14(10Q22.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               628
  INFILTRATING LOBULAR CARCINOMA                              164
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             25
  MUCINOUS CARCINOMA                                           15
  OTHER  SPECIFY                                               39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V9, binary
                                cls
clus                               0   1
  AMP PEAK 14(10Q22.3) MUTATED    49 100
  AMP PEAK 14(10Q22.3) WILD-TYPE 233 643
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED     49  100
  AMP PEAK 14(10Q22.3) WILD-TYPE  233  643
     clus
vv    AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  NO                            49                            233
  YES                          100                            643
[1] 2 2
[1] FALSE
D14V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 14(10Q22.3) MUTATED                                  1     9
  AMP PEAK 14(10Q22.3) WILD-TYPE                                0    47
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 14(10Q22.3) MUTATED                          27    99
  AMP PEAK 14(10Q22.3) WILD-TYPE                       131   618
D14V11, multiclass
                                  clus
vv                                 AMP PEAK 14(10Q22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       9
  BLACK OR AFRICAN AMERICAN                                  27
  WHITE                                                      99
                                  clus
vv                                 AMP PEAK 14(10Q22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        47
  BLACK OR AFRICAN AMERICAN                                   131
  WHITE                                                       618
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V12, binary
                                cls
clus                               0   1
  AMP PEAK 14(10Q22.3) MUTATED     5 118
  AMP PEAK 14(10Q22.3) WILD-TYPE  31 708
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED      5  118
  AMP PEAK 14(10Q22.3) WILD-TYPE   31  708
                        clus
vv                       AMP PEAK 14(10Q22.3) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                          118
                        clus
vv                       AMP PEAK 14(10Q22.3) WILD-TYPE
  HISPANIC OR LATINO                                 31
  NOT HISPANIC OR LATINO                            708
[1] 2 2
[1] FALSE

Clustering(15) Variable = AMP PEAK 15(11P13) MUTATION ANALYSIS
D15V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 15(11P13) MUTATED   186  27
  AMP PEAK 15(11P13) WILD-TYPE 700  92
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         213                          792 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                          27                           92 
$`AMP PEAK 15(11P13) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A2-A04P 
        0.39        20.88        31.79         7.96        28.01        18.02 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CT TCGA-A2-A0D2 
       22.06        64.04        55.43        24.79        75.25        33.76 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EY TCGA-A2-A0ST 
       80.28        79.76        74.40        34.29        24.16        99.19 
TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE 
       17.52        17.13         8.38        18.71        20.75        18.21 
TCGA-A2-A0YI TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A3KD TCGA-A2-A3XT 
       14.50        17.36        36.79        19.20        39.65        83.01 
TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A3J0 
       38.30        30.61        24.26        23.74        20.61        10.29 
TCGA-A7-A425 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VX 
       14.70        14.50        21.17        12.10        10.29        10.42 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07F TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A082 
       17.03         9.01        18.97         8.98         9.99        18.05 
TCGA-A8-A08B TCGA-A8-A08S TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A09A TCGA-A8-A09I 
       38.01        33.01        33.01        17.95         9.99        45.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A0A1 TCGA-A8-A0A6 TCGA-A8-A0A7 
       29.98        33.07        25.02        12.00        21.04         0.99 
TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2BK TCGA-AC-A2FM TCGA-AC-A62V TCGA-AC-A62Y 
        0.95         2.66        38.53        26.04         0.07         1.81 
TCGA-AC-A8OP TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT 
        1.74         1.78         8.02         6.51         0.33         0.33 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XT 
        7.96         7.00         7.59         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0JD TCGA-AO-A126 
        0.33        80.28        32.78        21.40        72.00       108.72 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT 
       96.10        90.58        77.56        61.87         0.53        17.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX 
       26.93       130.09        15.62        86.66        98.93        64.83 
TCGA-AR-A0U2 TCGA-AR-A1AI TCGA-AR-A1AU TCGA-AR-A24K TCGA-AR-A24R TCGA-AR-A24V 
       83.87        61.84        76.21        50.89        87.22        85.35 
TCGA-AR-A250 TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0IB TCGA-B6-A0IG TCGA-B6-A0IH 
       56.15        20.38       143.38       129.57       146.50       112.37 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0X0 
      211.56        68.45       100.70       188.68        79.63       129.70 
TCGA-B6-A0X1 TCGA-B6-A1KI TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0BG 
      186.48        73.51        49.94        24.53        25.55        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0DD TCGA-BH-A0DO 
       21.70        48.69        45.57        41.75        45.83        17.26 
TCGA-BH-A0DP TCGA-BH-A0DZ TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0HB 
       15.65        16.27        24.43        30.35        23.08        26.50 
TCGA-BH-A18M TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1F2 
       72.56        51.39        51.16        69.93        91.99        31.53 
TCGA-BH-A1F6 TCGA-BH-A202 TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12O TCGA-C8-A12U 
       97.48         0.72        57.83       130.16        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A26Z TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A140 TCGA-D8-A142 
        1.45         8.28        12.20         0.99        13.25        13.97 
TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JD TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XL 
       14.17        19.20        18.15        15.22        14.50        19.92 
TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27R TCGA-E2-A14O TCGA-E2-A14V 
       16.54        15.52        14.14        10.09        44.68        34.26 
TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15M TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1BC 
       27.12        23.34         7.73        17.06        14.07        16.47 
TCGA-E2-A1II TCGA-E2-A1IU TCGA-E2-A1L7 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N5 
       33.70        11.08        27.42        19.89         9.21        36.82 
TCGA-E9-A1N8 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF 
       12.00         6.12         2.76        20.81        34.65         6.58 
TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA 
       17.06        27.22         0.95         0.72        17.75         0.62 
TCGA-E9-A5FL TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P5 TCGA-EW-A1P7 
        0.26        18.90        28.77        29.85        23.11        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 
        7.86        19.99         6.15        17.49        10.16         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DL TCGA-LL-A5YN 
      109.87       194.27        42.71        42.28        90.84        14.70 
TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-OL-A5RW TCGA-OL-A66I TCGA-OL-A6VO 
       14.79         2.63         4.14        36.36        23.47        28.21 
TCGA-PL-A8LZ TCGA-S3-AA17 TCGA-Z7-A8R6 
        3.95         3.91       105.04 

$`AMP PEAK 15(11P13) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SJ TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
       13.68        39.32        19.20        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       82.16        73.84        63.12        36.13       136.73        64.57 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU 
      112.08        92.48        88.60       107.93        75.55         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D3 
       63.45        64.04        56.81        21.14        34.55        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0ET 
       25.22       101.72        89.36       107.61        37.05        35.05 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       31.82        29.75        24.72        54.64        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
       50.43        44.28        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YK 
       25.28        15.42        21.90        21.67        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 
       48.46        31.73        23.77        23.47        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       19.56        16.47        52.47       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XU 
       18.15        91.92        10.59        20.88        33.93        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       32.75        49.48        38.40        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30        24.39        21.30        23.21        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA 
       21.90        35.31        34.29        35.47        37.45        35.67 
TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H 
       33.11        31.73        10.72        12.72        23.61        29.56 
TCGA-A7-A26E TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       31.36        23.80        21.73        22.32        11.34        10.59 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SF 
       11.28        13.41        11.97        14.93        13.74        17.92 
TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06O 
       14.73        10.72        11.05         9.37         8.75        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
       13.02         1.02        17.98        53.06        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G 
       26.01         1.02        53.98        43.00        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       14.01        12.00        17.03         9.99        10.98         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
       24.99        28.04        15.06        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L 
       28.96        33.01        19.96        12.00        37.05         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00        31.00         0.99        93.04        43.00        40.01 
TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C 
       30.97        41.98        12.00         9.99        12.00         1.02 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       50.04        49.05         1.02         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-A8-A0AB 
        0.99        14.01        19.04        13.02        13.02        17.03 
TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB 
       38.04         2.37        10.85         1.48        38.20        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       55.43        36.99        38.79        50.70         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        2.27         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
       16.57        19.79        23.24        24.79         1.55         1.12 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR 
        1.18         0.69         0.43         1.68         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        0.33         0.33         0.23         0.33         0.62         2.96 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF 
        1.71         7.36         0.16         0.33         6.44         4.64 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        7.17         6.28         6.02         0.33         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        5.33         5.59        47.84        66.77        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 
       68.75        47.87        59.05        29.13        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       37.48        20.32        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12D 
       55.33        71.80       102.58        99.25       106.78        64.04 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       57.30        48.36        41.62        28.37        14.73        82.62 
TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O 
       70.39        24.79         5.65        32.52         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
        9.99       111.32        49.32         5.26        74.79        29.75 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 
       55.86        76.14        65.36       101.95       114.02        85.97 
TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       75.55        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV 
       43.56        39.98        43.07        17.23        37.81        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M 
       63.62        62.14        20.22       109.58        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U 
       78.51        84.20         0.85       101.52        76.01        53.36 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        83.77        79.00        78.48        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       58.92        93.83       128.65        20.25        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM 
        7.36        40.04        38.17        39.39        40.54        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0I9 
       16.04        20.45        10.59        77.62       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
      220.90        50.70        65.72       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI 
       84.59       110.14       110.93       140.88       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WW TCGA-B6-A0WX 
       89.46       131.21       157.41        97.48        17.98        21.47 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
      113.79       129.57        28.27        68.94        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40B 
      101.52       139.17       170.17        85.35        54.28       103.63 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       55.00        38.79        20.45        28.50        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 
       39.55        39.16        48.36        56.94        56.98        51.68 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BM 
       37.22        32.02        18.21        25.71        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW 
       35.67        27.19        53.69        53.95        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG 
       49.05        44.02        48.13        42.90        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0DS 
       38.01        22.13        13.91        48.23         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       38.47        45.17        47.41         4.41        15.68        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE 
        9.63        44.81        46.19        32.65        24.49        31.00 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       10.78        15.16        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
       24.95        42.35        44.81        23.05         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18P 
        7.23        20.12        90.84        26.66        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1ES TCGA-BH-A1ET 
       55.63        37.55        66.05         7.36       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       42.28        12.00        55.69        49.58        17.69        25.81 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
       89.16        24.66       120.62       114.15        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN 
      122.89        36.92        63.35        55.00        45.63        72.07 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A28O 
      144.59        72.07         6.90        38.60        83.31        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L 
        6.44        20.12         0.99       109.28         8.94        11.93 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W 
       11.77        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
       12.66         3.12         1.78         0.69         0.62         3.85 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        3.75        12.33        10.92        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.03        10.42         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.36         0.43         9.67         0.03         0.03         0.03 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A145 
        0.03         0.23        11.90        20.88        20.58        13.48 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC 
       21.14        14.17        17.49        16.50        18.71        15.78 
TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ 
       18.90        12.03        12.03        14.01        18.97        20.09 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       20.12        20.09        19.40        20.38        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       13.32        14.70        18.58        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG 
       23.90        27.58        18.15         2.66        17.16        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       21.83        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y1 
        6.35        12.99        15.16        12.66        15.32         3.81 
TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.24        17.42        16.04        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
        9.44        16.41        13.48         4.80         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       12.53        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
       34.42        27.52        46.59        40.41        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R 
       28.44        28.87        47.15        40.96        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       33.17        33.30        43.33        32.02        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
       17.03        25.41        23.24        19.43        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       14.79        25.05        22.82        17.29        20.71        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       18.21        12.92        17.42        19.40         9.04        20.58 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
       13.02        19.56        14.99        60.53        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       29.95        32.35        28.50        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       32.78        33.73        28.44        22.65         3.88        22.19 
TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       20.98        54.18        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL 
       28.90        18.87       106.75       102.61         8.75        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 
       16.93         5.52        15.72         7.20        30.61        34.92 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.00        19.20        13.48        13.12        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       12.59        35.77        20.05        21.57         9.86        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA 
       14.30         0.62         2.10         1.38        21.21        32.09 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       40.24         0.66        21.27        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E 
        0.79        12.53        13.32        39.09        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A 
       23.51        24.10         0.69         0.85         1.94        24.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y 
        0.76        26.07        18.41        15.72        12.33         0.23 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
        8.48        18.21        13.25        16.57        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       22.82        29.95        40.41        41.13        39.78        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       29.82        18.48        18.90        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       34.55        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
       21.27        10.59        59.57        53.13        53.52        43.04 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       61.91        62.33        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       18.12        11.84        11.57        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.60         8.75         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Z 
       17.06        15.32        14.47        11.57         3.88         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 
        4.50         5.59         3.22         6.21         7.36        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
        2.79         2.10        12.66        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       27.65        34.92        16.87        24.72        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       26.70        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZF 
       14.07        19.73         0.23         0.16         0.26        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 
        6.81         8.65        10.59         7.92         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        7.17         6.87         5.29         9.60         9.14       100.01 

  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                        0.07                         0.03 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                      211.56                       234.28 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                        21.4                         22.7 
[1] "0.1 - 211.6 (21.4)" "0.0 - 234.3 (22.7)"
[1] "hr=" "1.1"
D15V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 15(11P13) MUTATED        14       15        4        1        73
  AMP PEAK 15(11P13) WILD-TYPE      69       65        5        4       269
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 15(11P13) MUTATED          51         0         27          9
  AMP PEAK 15(11P13) WILD-TYPE       183         2        115         20
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 15(11P13) MUTATED           11        6         0       3
  AMP PEAK 15(11P13) WILD-TYPE         52       12         1      13
D15V3, multiclass
            clus
vv           AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  STAGE I                            14                           69
  STAGE IA                           15                           65
  STAGE IB                            4                            5
  STAGE II                            1                            4
  STAGE IIA                          73                          269
  STAGE IIB                          51                          183
  STAGE III                           0                            2
  STAGE IIIA                         27                          115
  STAGE IIIB                          9                           20
  STAGE IIIC                         11                           52
  STAGE IV                            6                           12
  STAGE TIS                           0                            1
  STAGE X                             3                           13
[1] 13  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 15(11P13) MUTATED    48 133  23  10
  AMP PEAK 15(11P13) WILD-TYPE 217 461 101  29
D15V4, multiclass
    clus
vv   AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  T1                         48                          217
  T2                        133                          461
  T3                         23                          101
  T4                         10                           29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            N0  N1  N2  N3
  AMP PEAK 15(11P13) MUTATED   102  70  24  14
  AMP PEAK 15(11P13) WILD-TYPE 379 269  89  60
D15V5, multiclass
    clus
vv   AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  N0                        102                          379
  N1                         70                          269
  N2                         24                           89
  N3                         14                           60
[1] 4 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                           CM0 (I+)  M0  M1  MX
  AMP PEAK 15(11P13) MUTATED          1 182   6  26
  AMP PEAK 15(11P13) WILD-TYPE        4 672  13 121
D15V6, multiclass
          clus
vv         AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CM0 (I+)                          1                            4
  M0                              182                          672
  M1                                6                           13
  MX                               26                          121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V7, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED   211   4
  AMP PEAK 15(11P13) WILD-TYPE 803   7
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED    211    4
  AMP PEAK 15(11P13) WILD-TYPE  803    7
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  FEMALE                        211                          803
  MALE                            4                            7
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 15(11P13) MUTATED                            1
  AMP PEAK 15(11P13) WILD-TYPE                          0
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 15(11P13) MUTATED                             184
  AMP PEAK 15(11P13) WILD-TYPE                           570
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 15(11P13) MUTATED                               14
  AMP PEAK 15(11P13) WILD-TYPE                            161
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 15(11P13) MUTATED                     3
  AMP PEAK 15(11P13) WILD-TYPE                   3
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 15(11P13) MUTATED                                  2
  AMP PEAK 15(11P13) WILD-TYPE                               27
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 15(11P13) MUTATED                    2              9
  AMP PEAK 15(11P13) WILD-TYPE                 13             35
D15V8, multiclass
                                  clus
vv                                 AMP PEAK 15(11P13) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           184
  INFILTRATING LOBULAR CARCINOMA                           14
  MEDULLARY CARCINOMA                                       3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          2
  MUCINOUS CARCINOMA                                        2
  OTHER  SPECIFY                                            9
                                  clus
vv                                 AMP PEAK 15(11P13) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             570
  INFILTRATING LOBULAR CARCINOMA                            161
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           27
  MUCINOUS CARCINOMA                                         13
  OTHER  SPECIFY                                             35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V9, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED    66 149
  AMP PEAK 15(11P13) WILD-TYPE 216 594
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED     66  149
  AMP PEAK 15(11P13) WILD-TYPE  216  594
     clus
vv    AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  NO                          66                          216
  YES                        149                          594
[1] 2 2
[1] FALSE
D15V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 15(11P13) MUTATED                                  1     9
  AMP PEAK 15(11P13) WILD-TYPE                                0    47
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 15(11P13) MUTATED                          34   150
  AMP PEAK 15(11P13) WILD-TYPE                       124   567
D15V11, multiclass
                                  clus
vv                                 AMP PEAK 15(11P13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                     9
  BLACK OR AFRICAN AMERICAN                                34
  WHITE                                                   150
                                  clus
vv                                 AMP PEAK 15(11P13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      47
  BLACK OR AFRICAN AMERICAN                                 124
  WHITE                                                     567
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V12, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED     6 172
  AMP PEAK 15(11P13) WILD-TYPE  30 654
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED      6  172
  AMP PEAK 15(11P13) WILD-TYPE   30  654
                        clus
vv                       AMP PEAK 15(11P13) MUTATED
  HISPANIC OR LATINO                              6
  NOT HISPANIC OR LATINO                        172
                        clus
vv                       AMP PEAK 15(11P13) WILD-TYPE
  HISPANIC OR LATINO                               30
  NOT HISPANIC OR LATINO                          654
[1] 2 2
[1] FALSE

Clustering(16) Variable = AMP PEAK 16(11Q13.3) MUTATION ANALYSIS
D16V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 16(11Q13.3) MUTATED   324  50
  AMP PEAK 16(11Q13.3) WILD-TYPE 562  69
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           374                            631 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                            50                             69 
$`AMP PEAK 16(11Q13.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK 
        0.39        14.37        43.43        20.88        13.68        31.79 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04U 
        7.96        39.32        18.21        18.02        73.84        22.06 
TCGA-A2-A04V TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0D2 
       63.12       136.73        64.57        75.25        64.04        33.76 
TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EW 
       25.22        80.28        79.76        74.40        34.29        29.75 
TCGA-A2-A0EY TCGA-A2-A0SW TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T7 
       24.16        44.88        17.13        18.71        20.52        20.75 
TCGA-A2-A0YC TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       32.55        18.21        15.42        14.50        18.61        19.33 
TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25A 
       23.77        17.36        36.79        19.20        19.56       107.70 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3Y0 TCGA-A7-A0CD TCGA-A7-A0CJ 
       20.88        39.65        83.01        38.37        38.30        30.61 
TCGA-A7-A0DA TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A3J0 
       35.67        24.26        23.74        20.61        10.59        10.29 
TCGA-A7-A425 TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW 
       14.70        13.74        21.17        12.10        10.29         9.37 
TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 
       13.02         1.02        17.98        29.03         1.02        17.03 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07R 
        9.01        43.00        19.99        18.97        18.97         8.98 
TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F 
        9.99        18.05        36.95        13.02        38.01        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       19.96        12.00        37.05        31.00         0.99        33.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E 
       33.01        17.95        12.00         9.99         1.02        49.05 
TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 
       45.07        33.07        25.02         0.99        12.00        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23H TCGA-AC-A2BM 
       21.04         0.99        13.02        17.03         2.66        38.20 
TCGA-AC-A2FM TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A62Y 
       26.04         0.69        14.83        16.57         0.07         1.81 
TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ 
        0.43         0.33         0.33         0.62         1.78         8.02 
TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0FK TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FY 
        6.51         0.33         7.00         6.28         0.36         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03P 
        0.33         0.33         5.59        80.28        81.63        84.69 
TCGA-AO-A0J3 TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JM TCGA-AO-A126 
       21.40        72.00        76.77        26.24        71.80       108.72 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KS 
       90.58        77.56        57.30        48.36        41.62         0.53 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TV 
       17.79        24.79       130.09        15.62        32.91        29.75 
TCGA-AR-A0TW TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AK 
       98.93        76.14        83.87       114.02        85.97        51.25 
TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A24K TCGA-AR-A24L 
       43.73        39.98        76.21        61.28        50.89        73.02 
TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 TCGA-AR-A2LJ 
       87.22        85.35        79.00        56.15        58.92        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IB 
       42.87         7.36        20.38       143.38        12.13       129.57 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RE 
       65.72       146.50       112.37       110.14       110.93       211.56 
TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RV TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY 
       81.17       100.70       157.41        79.63        17.98       113.79 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A1KI TCGA-B6-A408 TCGA-B6-A40B TCGA-BH-A0AU 
      129.70       186.48        73.51        49.94       103.63        24.53 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       38.79        25.55        51.68        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 
       24.85        21.70        53.69        45.57        49.94        48.13 
TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       45.83        23.44        22.13        48.23        17.26        15.65 
TCGA-BH-A0DZ TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0HK 
       16.27        24.43        30.35        10.78        23.08         5.85 
TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18I TCGA-BH-A18J 
       12.89        27.25        50.79        23.93         7.23        20.12 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       26.66        72.56        37.55         7.36        51.39        51.16 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EW TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FC 
       91.99       113.82        55.69        31.53        24.66       114.15 
TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 
       72.07         6.90         0.72        38.60        57.83       130.16 
TCGA-BH-A28Q TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P 
        6.44         0.99        11.93        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A138 
        0.07        12.66         3.12         1.78         1.45         3.75 
TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26W TCGA-C8-A26Z 
       11.34        12.03        10.42         2.30         0.23         8.28 
TCGA-C8-A278 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A1J9 
        0.03         0.23        11.90        13.25        13.97        17.49 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1X5 TCGA-D8-A1X8 
       15.78        18.15        12.03        18.97        18.58        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XS 
       23.90        15.22        21.83        14.50        16.41        16.31 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27G 
       12.66        16.54        15.52        14.24        14.14        13.45 
TCGA-D8-A27H TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 
       13.05         4.80        10.09        12.26        43.00        34.42 
TCGA-E2-A109 TCGA-E2-A10E TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14V 
       46.59        28.44        44.68        40.96        33.17        34.26 
TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A15A TCGA-E2-A15E 
       31.96        25.41        27.12        19.43        23.34        20.71 
TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ 
        9.04         7.73        13.02        17.06        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IU TCGA-E2-A1LA 
       53.62        38.30        32.78        33.70        11.08        24.59 
TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A2P6 TCGA-E2-A56Z TCGA-E2-A574 TCGA-E2-A576 
      106.75         8.75         5.52         7.20        19.89        19.00 
TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1QZ 
        9.21        36.82        12.00        13.12        36.56        11.90 
TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A228 TCGA-E9-A244 
        2.76        20.81        34.65         6.58        12.53         0.69 
TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A5FL 
       27.22         0.95         0.72        17.75         0.62         0.26 
TCGA-EW-A1IW TCGA-EW-A1J1 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OX 
       12.20        18.90        16.57        15.68        28.77        29.95 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A2FR TCGA-EW-A2FS 
       23.11         7.86        18.90        19.99        55.00        52.73 
TCGA-EW-A2FW TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DF 
       22.09        10.16         7.40        59.57        53.13        42.71 
TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XL 
       42.28        62.33        90.84        53.36       110.50        69.30 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A6FQ TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5D7 
        4.60         9.53         2.63         5.59         3.22        46.55 
TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A66J TCGA-OL-A66O TCGA-PL-A8LX 
       58.62        36.36        22.32        65.62         7.23         0.16 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA17 TCGA-XX-A899 
        3.95        16.50         6.81         8.65         3.91         9.60 
TCGA-XX-A89A TCGA-Z7-A8R6 
        9.14       105.04 

$`AMP PEAK 16(11Q13.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SO TCGA-A1-A0SP 
        8.52        48.10        14.27        47.24        28.01        19.20 
TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
      104.81        41.95        82.16        64.04        55.43        36.13 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       24.79       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D3 
        5.19        63.45        56.81        21.14        34.55        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EV 
      101.72        89.36       107.61        37.05        35.05        31.82 
TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY 
       24.72        99.19        54.64        27.12        50.43        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YG 
       17.52         8.38        17.46        18.90        25.28        21.90 
TCGA-A2-A0YH TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 
       21.67        48.46        31.73        23.47        22.45        20.25 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
       16.47        52.47        16.31        17.19        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       10.59        33.93        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       34.98        31.99         7.30        24.39        21.30        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       26.96        21.14        21.90        35.31        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G 
       37.45        33.11        31.73        10.72        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IY 
       29.56        31.36        23.80        21.73        22.32        11.34 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SF 
       11.28        13.41        11.97        14.93        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P 
       14.73        10.72        11.05        10.42         8.75        13.02 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07I TCGA-A8-A07J 
       53.06        31.00        26.01        53.98        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z 
       17.03         9.99        10.98         7.99        24.99        28.04 
TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T 
       15.06         0.99        28.96         9.99        31.00        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B 
       43.00        40.01        30.97        41.98         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       50.04        29.98         1.02         8.98        19.04        15.02 
TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
       14.01        19.04        38.04         0.95         2.37        10.85 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        1.48        38.53        40.57        55.43        36.99        38.79 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3QP 
       50.70         1.02         0.92         2.27         0.99        22.19 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.12        19.79        23.24        24.79         1.55         1.12 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR 
        1.18         0.69         1.68         1.74         1.12         1.32 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM 
        0.23         0.33         2.96         1.71         7.36         0.16 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL 
        0.33         0.33         6.44         4.64         7.96         7.59 
TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XO 
        7.17         6.02         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV 
        0.30         0.33         0.33         0.33         0.33         5.33 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       47.84        66.77        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       32.78        52.18        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JI 
       53.03        21.53        50.70        50.86        21.37        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 
       62.04        55.33       102.58        99.25       106.78        96.10 
TCGA-AO-A12D TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
       64.04        28.37        14.73        82.62        61.87        70.39 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP 
       26.93         5.65        32.52         2.56         9.99       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY 
       49.32         5.26        74.79        86.66        64.83        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL 
       65.36       101.95        75.55        61.84        52.77        48.82 
TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AW 
       62.56        43.56        43.07        17.23        37.81        63.62 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       62.14        20.22       109.58        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X 
        0.85       101.52        76.01        53.36        50.96        83.77 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       78.48        73.18        72.76        93.83       128.65        20.25 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        38.17        39.39        40.54        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC 
       20.45        10.59        77.62       149.59       220.90        50.70 
TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IQ TCGA-B6-A0RG 
      176.98        18.77       126.12        84.59       140.88        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
      189.01       234.28        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX 
      140.48        89.46       131.21        97.48       188.68        21.47 
TCGA-B6-A0WZ TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
      129.57        28.27        68.94        58.88        43.59       101.52 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40C TCGA-BH-A0AW 
      139.17       170.17        85.35        54.28        55.00        20.45 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       28.50        46.95        40.83        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       56.94        56.98        37.22        44.05        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 
       48.69        27.19        53.95        11.67        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DQ 
       44.02        42.90        31.17        38.01        13.91         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       14.30         9.63        44.81        46.19        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       31.00        15.16        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        26.50        20.38         2.50        13.61        36.85 
TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       51.32         5.59        24.95        42.35        44.81        23.05 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
        8.81         2.01        90.84        37.74        30.28        55.63 
TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX 
       66.05        69.93        82.85        42.28        12.00        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FD 
       17.69        25.81        89.16        97.48       120.62        33.17 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       74.73       122.89        36.92        63.35        55.00        45.63 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42U 
      144.59        72.07        83.31        10.65        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A134 
        8.94        11.77        12.66        12.66        12.66         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.85        12.33        10.92        11.34         0.16 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 
        3.25         0.30         0.36         0.43         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A141 
        0.03        12.20         0.99         0.03        20.88        20.58 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA 
       14.17        13.48        21.14        19.20        14.17        16.50 
TCGA-D8-A1JB TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.71        18.90        12.03        14.01        20.09        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.09        19.40        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       14.70        17.79        16.73        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       17.16        14.73        19.92        17.69         7.96        15.85 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A27E 
        6.35        12.99        15.16        15.32         3.81        17.42 
TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P 
       16.04        14.43         9.44        16.41        13.48         0.76 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 
       13.08        12.53        14.50        18.51         7.33        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q 
       40.41        37.51        40.11        28.87        47.15        38.24 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z 
       38.60        33.30        43.33        32.02        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C 
       23.24        21.04        23.87        14.79        25.05        22.82 
TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       17.29        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15L TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       20.58        19.56        14.07        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1IJ 
       28.50        16.47        17.10        37.41        33.73        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L7 
       22.65         3.88        22.19        20.98        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LI 
       39.62        19.66        40.47        28.90        18.87       102.61 
TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 
       43.04        16.93        15.72        30.61        34.92        19.20 
TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       13.48        39.55        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
        9.86        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RH 
       21.21        32.09        40.24         0.66        21.27        34.59 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
       35.64        34.13         0.79        13.32        39.09        22.75 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 
       12.89        23.51        24.10        17.06         0.85         1.94 
TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X 
       24.56         0.76        26.07        18.41        15.72        12.33 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IX 
        0.23        14.70        13.81        14.40        15.39        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY 
        8.48        18.21        13.25        25.94        22.82        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 
       40.41        41.13        39.78        52.96        29.82        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       30.08         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C9 
       19.96        25.91        21.27        17.49        10.59       109.87 
TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DM TCGA-GM-A2DN 
      194.27        53.52        43.04        61.91        76.64        77.33 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       38.20        43.73        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF 
       11.84        11.57        21.24         6.67         4.08         8.75 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
       11.44        10.95         7.59        17.06        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.47        14.79        11.57         3.88         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         6.21         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
       12.66        31.99        27.65        34.92        16.87        24.72 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       20.38        26.70        23.47        33.57        31.07        26.04 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-S3-AA0Z 
       14.07        28.21        19.73         0.23         0.26        10.59 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G 
        7.92         5.56         8.52         7.17         6.87         5.29 
TCGA-Z7-A8R5 
      100.01 

  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                         20.96                          23.24 
[1] "0.0 - 211.6 (21.0)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.2"
D16V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 16(11Q13.3) MUTATED        30       21        5        2       131
  AMP PEAK 16(11Q13.3) WILD-TYPE      53       59        4        3       211
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 16(11Q13.3) MUTATED          84         1         56         14
  AMP PEAK 16(11Q13.3) WILD-TYPE       150         1         86         15
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 16(11Q13.3) MUTATED           22        9         1       5
  AMP PEAK 16(11Q13.3) WILD-TYPE         41        9         0      11
D16V3, multiclass
            clus
vv           AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  STAGE I                              30                             53
  STAGE IA                             21                             59
  STAGE IB                              5                              4
  STAGE II                              2                              3
  STAGE IIA                           131                            211
  STAGE IIB                            84                            150
  STAGE III                             1                              1
  STAGE IIIA                           56                             86
  STAGE IIIB                           14                             15
  STAGE IIIC                           22                             41
  STAGE IV                              9                              9
  STAGE TIS                             1                              0
  STAGE X                               5                             11
[1] 13  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 16(11Q13.3) MUTATED    84 236  41  18
  AMP PEAK 16(11Q13.3) WILD-TYPE 181 358  83  21
D16V4, multiclass
    clus
vv   AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  T1                           84                            181
  T2                          236                            358
  T3                           41                             83
  T4                           18                             21
[1] 4 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  N3
  AMP PEAK 16(11Q13.3) MUTATED   174 125  49  27
  AMP PEAK 16(11Q13.3) WILD-TYPE 307 214  64  47
D16V5, multiclass
    clus
vv   AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  N0                          174                            307
  N1                          125                            214
  N2                           49                             64
  N3                           27                             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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 16(11Q13.3) MUTATED          2 322  10  47
  AMP PEAK 16(11Q13.3) WILD-TYPE        3 532   9 100
D16V6, multiclass
          clus
vv         AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                322                            532
  M1                                 10                              9
  MX                                 47                            100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V7, binary
                                cls
clus                               0   1
  AMP PEAK 16(11Q13.3) MUTATED   374   7
  AMP PEAK 16(11Q13.3) WILD-TYPE 640   4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED    374    7
  AMP PEAK 16(11Q13.3) WILD-TYPE  640    4
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  FEMALE                          374                            640
  MALE                              7                              4
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 16(11Q13.3) MUTATED                            1
  AMP PEAK 16(11Q13.3) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 16(11Q13.3) MUTATED                             295
  AMP PEAK 16(11Q13.3) WILD-TYPE                           459
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 16(11Q13.3) MUTATED                               55
  AMP PEAK 16(11Q13.3) WILD-TYPE                            120
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 16(11Q13.3) MUTATED                     3
  AMP PEAK 16(11Q13.3) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 16(11Q13.3) MUTATED                                  8
  AMP PEAK 16(11Q13.3) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 16(11Q13.3) MUTATED                    4             15
  AMP PEAK 16(11Q13.3) WILD-TYPE                 11             29
D16V8, multiclass
                                  clus
vv                                 AMP PEAK 16(11Q13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             295
  INFILTRATING LOBULAR CARCINOMA                             55
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             15
                                  clus
vv                                 AMP PEAK 16(11Q13.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               459
  INFILTRATING LOBULAR CARCINOMA                              120
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           11
  OTHER  SPECIFY                                               29
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V9, binary
                                cls
clus                               0   1
  AMP PEAK 16(11Q13.3) MUTATED   106 275
  AMP PEAK 16(11Q13.3) WILD-TYPE 176 468
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED    106  275
  AMP PEAK 16(11Q13.3) WILD-TYPE  176  468
     clus
vv    AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  NO                           106                            176
  YES                          275                            468
[1] 2 2
[1] FALSE
D16V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 16(11Q13.3) MUTATED                                  1    24
  AMP PEAK 16(11Q13.3) WILD-TYPE                                0    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 16(11Q13.3) MUTATED                          58   252
  AMP PEAK 16(11Q13.3) WILD-TYPE                       100   465
D16V11, multiclass
                                  clus
vv                                 AMP PEAK 16(11Q13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  58
  WHITE                                                     252
                                  clus
vv                                 AMP PEAK 16(11Q13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                   100
  WHITE                                                       465
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V12, binary
                                cls
clus                               0   1
  AMP PEAK 16(11Q13.3) MUTATED    15 299
  AMP PEAK 16(11Q13.3) WILD-TYPE  21 527
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED     15  299
  AMP PEAK 16(11Q13.3) WILD-TYPE   21  527
                        clus
vv                       AMP PEAK 16(11Q13.3) MUTATED
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          299
                        clus
vv                       AMP PEAK 16(11Q13.3) WILD-TYPE
  HISPANIC OR LATINO                                 21
  NOT HISPANIC OR LATINO                            527
[1] 2 2
[1] FALSE

Clustering(17) Variable = AMP PEAK 17(11Q14.1) MUTATION ANALYSIS
D17V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 17(11Q14.1) MUTATED   216  33
  AMP PEAK 17(11Q14.1) WILD-TYPE 670  86
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           249                            756 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                            33                             86 
$`AMP PEAK 17(11Q14.1) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM 
        0.39        14.37        20.88        13.68        31.79         7.96 
TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04T TCGA-A2-A04U 
       39.32        28.01        19.20        18.21        73.84        22.06 
TCGA-A2-A0CL TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER 
       64.57        64.04        21.14        80.28        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SW 
       37.05        34.29        29.75        24.16        99.19        44.88 
TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A1FX TCGA-A2-A1G1 
       17.13        20.52        18.21        18.61        36.79        19.20 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CD 
       20.88        39.65        83.01         7.30        21.90        38.30 
TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A3IZ 
       30.61        35.67        10.72        24.26        23.74        10.59 
TCGA-A7-A3J0 TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A6VW TCGA-A8-A06Q 
       10.29        13.74        17.92        12.10         9.37         1.02 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07G 
        1.02        17.03         9.01        43.00        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F 
       14.01         9.99         8.98        13.02        38.01        33.01 
TCGA-A8-A08I TCGA-A8-A08R TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
       12.00         0.99         9.99         1.02        49.05        45.07 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 
       33.07        25.02         0.99        12.00        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62V 
        0.99        13.02        17.03        14.83        16.57         0.07 
TCGA-AC-A62Y TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A04C 
        1.81         0.43         0.33         0.33         0.62         1.78 
TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FK TCGA-AN-A0FV 
        6.51         0.33         0.33         0.33         7.00         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33         0.33         0.33         0.33         0.33         5.59 
TCGA-AO-A0J6 TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A126 TCGA-AO-A12A TCGA-AO-A12B 
       37.48        76.77        26.24       108.72        90.58        77.56 
TCGA-AO-A12G TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TT 
       41.62        17.79       130.09        15.62        32.91        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U2 TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A24K 
       29.75        98.93        83.87        39.98        76.21        50.89 
TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A2LJ TCGA-AR-A2LR 
       87.22        85.35        79.00        56.15        62.86        20.38 
TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IO TCGA-B6-A0RE 
      143.38        12.13       129.57        65.72       110.14       211.56 
TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0WY TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A1KI 
       81.17       100.70       113.79       129.70       186.48        73.51 
TCGA-B6-A408 TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0BC TCGA-BH-A0BD 
       49.94       103.63        38.79        25.55        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0DD 
       25.71        24.85        21.70        53.69        45.57        45.83 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0E0 TCGA-BH-A0EI 
       23.44        22.13        17.26        15.65         4.41        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18I 
       30.35        10.78        23.08        50.79        23.93         7.23 
TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U 
       20.12        72.56        30.28        37.55         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FN 
       51.16        69.93        91.99        24.66       114.15        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28Q 
        6.90         0.72        38.60        57.83       130.16         6.44 
TCGA-C8-A12L TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y 
       11.93        11.77         0.07         0.03        12.20        11.90 
TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1X5 
       13.25        13.97        17.49        15.78        12.03        18.58 
TCGA-D8-A1X8 TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XS TCGA-D8-A1XU 
       25.74        15.22        21.83        14.50        16.31        12.99 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H 
       12.66        16.54        15.52        14.14        13.45        13.05 
TCGA-D8-A27M TCGA-D8-A27R TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A14R TCGA-E2-A14S 
       13.48        10.09        40.41        28.44        38.60        33.17 
TCGA-E2-A14X TCGA-E2-A152 TCGA-E2-A155 TCGA-E2-A15A TCGA-E2-A1AZ TCGA-E2-A1B0 
       31.96        27.12        21.04        23.34        60.53        53.62 
TCGA-E2-A1IE TCGA-E2-A1II TCGA-E2-A1IU TCGA-E2-A1LK TCGA-E2-A2P6 TCGA-E2-A574 
       38.30        33.70        11.08         8.75         5.52        19.89 
TCGA-E2-A9RU TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1QZ TCGA-E9-A1R6 TCGA-E9-A1RB 
        9.21        12.00        36.56        11.90         2.76        20.81 
TCGA-E9-A228 TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 
       12.53        23.51         0.69        27.22         0.95         0.72 
TCGA-E9-A2JS TCGA-E9-A5FL TCGA-EW-A1J6 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA 
       17.75         0.26        28.77        23.11         7.86        18.90 
TCGA-EW-A1PB TCGA-EW-A2FW TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A3NW 
       19.99        22.09        59.57        53.13        42.28       110.50 
TCGA-GM-A3XL TCGA-LL-A441 TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-OL-A5D7 TCGA-PL-A8LZ 
       69.30        11.44         2.63         4.14        46.55         3.95 
TCGA-S3-A6ZF TCGA-S3-AA17 TCGA-XX-A899 
       16.50         3.91         9.60 

$`AMP PEAK 17(11Q14.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A2-A04N 
        8.52        43.43        48.10        14.27        47.24       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       18.02        41.95        82.16        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX 
      107.93        75.55        75.25         5.19        63.45        56.81 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       34.55        33.76        28.77        25.22       101.72        89.36 
TCGA-A2-A0EP TCGA-A2-A0ET TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0SU TCGA-A2-A0SV 
      107.61        35.05        31.82        24.72        54.64        27.12 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 
       50.43        44.28        17.52         8.38        18.71        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       18.90        20.75        32.55        25.28        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       21.67        14.50        19.33        48.46        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       23.47        17.36        22.45        20.25        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
       52.47       107.70        16.31        17.19        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       10.59        33.93        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       34.98        31.99        38.37        24.39        21.30        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
       26.96        21.14        35.31        34.29        35.47        37.45 
TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       33.11        31.73        12.72        23.61        29.56        31.36 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3J1 
       23.80        21.73        20.61        22.32        11.34        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SE 
       13.41        14.70        11.97        14.93        14.50        21.17 
TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY 
       14.73        10.72        11.05        10.29        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
       13.02        13.02        17.98        53.06        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07E TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P 
       26.01        53.98        19.99        12.00        17.03        10.98 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        7.99        24.99         9.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L 
       36.95         0.99        28.96        19.96        37.05         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00        31.00        33.01        93.04        43.00        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       33.01        30.97        17.95        41.98        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       12.00        50.04        29.98         1.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       15.02        14.01        19.04        38.04         0.95         2.37 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB 
       10.85         2.66         1.48        38.53        38.20        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH 
       55.43        36.99        38.79        26.04        50.70         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         2.27         0.99         0.69        22.19         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IV 
       19.79        23.24        24.79         1.55         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A041 
        0.69         1.68         1.74         1.12         1.32         0.23 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM 
        0.33         2.96         1.71         8.02         7.36         0.16 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.96         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        6.02         0.36         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
        0.33         0.33         5.33        80.28        47.84        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       81.63        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 
       32.78        21.40        52.18        24.16        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF 
       53.03        21.53        50.70        50.86        72.00        21.37 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       50.24        62.04        55.33        71.80       102.58        99.25 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H 
      106.78        96.10        64.04        57.30        48.36        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H 
       14.73        82.62        61.87        70.39         0.53        24.79 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP 
       26.93         5.65        32.52         2.56         9.99       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       49.32         5.26        74.79        64.83        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       65.36       101.95       114.02        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       52.77        51.25        48.82        62.56        43.73        43.56 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.07        17.23        37.81        61.28        63.62        62.14 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X 
        0.85       101.52        76.01        53.36        50.96        83.77 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       78.48        73.18        72.76        58.92        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       20.25        42.87         7.36        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       40.54        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ 
      149.59       220.90        50.70       146.50       112.37       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG 
       18.77       126.12        84.59       110.93       140.88        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
      189.01       234.28        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      140.48        89.46       131.21       157.41        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X4 TCGA-B6-A0X5 
       79.63        17.98        21.47       129.57        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       58.88        43.59       101.52       139.17       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 
       54.28        55.00        24.53        20.45        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       40.83        39.55        39.16        48.36        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       51.68        37.22        44.05        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 
       27.19        53.95        49.94        11.67        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DK 
       44.02        48.13        42.90        31.17        38.01        13.91 
TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       48.23         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 
       16.27        15.68        14.30         9.63        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       32.65        24.49        31.00        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       24.56        41.00        52.96        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        2.50        13.61        36.85        12.89        51.32        27.25 
TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
        5.59        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18S 
        2.01        90.84        26.66        37.74        55.63        66.05 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX 
      113.82        82.85        42.28        12.00        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB 
       17.69        25.81        31.53        89.16        97.48       120.62 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A2L8 
       45.63       144.59        72.07        83.31        10.65        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O 
        0.99       109.28         8.94        11.77        11.77        12.66 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 
       12.66        12.66        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        1.45         0.69         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
       10.92        11.34        11.34         0.16        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y 
        2.30         3.25         0.30         0.23         0.36         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27B TCGA-C8-A3M7 
        8.28         9.67         0.03         0.03         0.99         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
        0.23        20.88        20.58        14.17        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE 
       19.20        14.17        16.50        18.71        18.15        18.90 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL 
       12.03        14.01        18.97        20.09        20.12        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       19.40        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       17.79        16.73        23.90        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       17.16        14.73        19.92        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.85         6.35        15.16        15.32         3.81        14.24 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N 
       17.42        16.04        14.43         9.44        16.41         4.80 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        0.76        13.08        12.53        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10B 
        7.33        43.00        34.42        27.52        46.59        37.51 
TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q 
       40.11        28.87        47.15        44.68        40.96        38.24 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z 
       33.30        43.33        34.26        32.02        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 
       25.41        23.24        19.43        23.87        14.79        25.05 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H 
       22.82        17.29        20.71        21.63        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       17.42        19.40         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 
       19.56        17.06        14.07        14.99        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG 
       32.35        28.50        16.47        17.10        37.41        32.78 
TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO 
       33.73        28.44        22.65         3.88        22.19        20.98 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       54.18        27.42        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 
       28.90        18.87       106.75       102.61        43.04        16.93 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 TCGA-E9-A1N4 
       15.72         7.20        30.61        34.92        19.00        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        13.48        13.12        39.55        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 
       20.05        21.57         9.86        14.30         0.62         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD 
        6.12         1.38        21.21        32.09        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       34.65         6.58        21.27        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H 
        0.79        13.32        39.09        22.75        12.89        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO 
       17.06         0.85         1.94        24.56         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
       18.41         0.62        15.72        12.33         0.23        14.70 
TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
       13.81        14.40        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
       18.21        18.90        13.25        16.57        15.68        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       22.82        29.95        29.85        40.41        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PC TCGA-EW-A1PD 
       52.96        29.82        18.48        30.08         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS 
       10.52        14.43        34.55        19.96        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 
       25.91        21.27        17.49        10.16        10.59         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI 
      109.87       194.27        53.52        43.04        42.71        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY 
       62.33        90.84        76.64        77.33        53.36        38.20 
TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       43.73        66.38        72.03        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF 
       11.57        21.24         6.67         4.08         4.60         8.75 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        9.53        10.95         7.59        17.06        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 
       14.47        14.79        11.57         3.88         4.50         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        5.59         3.22         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        12.66        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       36.36        16.87        24.72        22.32        20.38        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.47        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY 
       14.07        28.21        19.73         0.23         0.16         0.26 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 
        6.81         8.65        10.59         7.92         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        7.17         6.87         5.29         9.14       100.01       105.04 

  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                         20.88                          23.47 
[1] "0.0 - 211.6 (20.9)" "0.0 - 234.3 (23.5)"
[1] "hr=" "1.2"
D17V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 17(11Q14.1) MUTATED        18       15        3        1        95
  AMP PEAK 17(11Q14.1) WILD-TYPE      65       65        6        4       247
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 17(11Q14.1) MUTATED          46         0         38          8
  AMP PEAK 17(11Q14.1) WILD-TYPE       188         2        104         21
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 17(11Q14.1) MUTATED           18        6         1       3
  AMP PEAK 17(11Q14.1) WILD-TYPE         45       12         0      13
D17V3, multiclass
            clus
vv           AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  STAGE I                              18                             65
  STAGE IA                             15                             65
  STAGE IB                              3                              6
  STAGE II                              1                              4
  STAGE IIA                            95                            247
  STAGE IIB                            46                            188
  STAGE III                             0                              2
  STAGE IIIA                           38                            104
  STAGE IIIB                            8                             21
  STAGE IIIC                           18                             45
  STAGE IV                              6                             12
  STAGE TIS                             1                              0
  STAGE X                               3                             13
[1] 13  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 17(11Q14.1) MUTATED    57 162  22   9
  AMP PEAK 17(11Q14.1) WILD-TYPE 208 432 102  30
D17V4, multiclass
    clus
vv   AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  T1                           57                            208
  T2                          162                            432
  T3                           22                            102
  T4                            9                             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                              N0  N1  N2  N3
  AMP PEAK 17(11Q14.1) MUTATED   122  70  35  21
  AMP PEAK 17(11Q14.1) WILD-TYPE 359 269  78  53
D17V5, multiclass
    clus
vv   AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  N0                          122                            359
  N1                           70                            269
  N2                           35                             78
  N3                           21                             53
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 17(11Q14.1) MUTATED          2 218   6  26
  AMP PEAK 17(11Q14.1) WILD-TYPE        3 636  13 121
D17V6, multiclass
          clus
vv         AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                218                            636
  M1                                  6                             13
  MX                                 26                            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V7, binary
                                cls
clus                               0   1
  AMP PEAK 17(11Q14.1) MUTATED   247   5
  AMP PEAK 17(11Q14.1) WILD-TYPE 767   6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED    247    5
  AMP PEAK 17(11Q14.1) WILD-TYPE  767    6
        clus
vv       AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  FEMALE                          247                            767
  MALE                              5                              6
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 17(11Q14.1) MUTATED                            1
  AMP PEAK 17(11Q14.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 17(11Q14.1) MUTATED                             204
  AMP PEAK 17(11Q14.1) WILD-TYPE                           550
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 17(11Q14.1) MUTATED                               28
  AMP PEAK 17(11Q14.1) WILD-TYPE                            147
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 17(11Q14.1) MUTATED                     2
  AMP PEAK 17(11Q14.1) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 17(11Q14.1) MUTATED                                  3
  AMP PEAK 17(11Q14.1) WILD-TYPE                               26
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 17(11Q14.1) MUTATED                    2             12
  AMP PEAK 17(11Q14.1) WILD-TYPE                 13             32
D17V8, multiclass
                                  clus
vv                                 AMP PEAK 17(11Q14.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             204
  INFILTRATING LOBULAR CARCINOMA                             28
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            3
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             12
                                  clus
vv                                 AMP PEAK 17(11Q14.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               550
  INFILTRATING LOBULAR CARCINOMA                              147
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             26
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               32
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V9, binary
                                cls
clus                               0   1
  AMP PEAK 17(11Q14.1) MUTATED    67 185
  AMP PEAK 17(11Q14.1) WILD-TYPE 215 558
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED     67  185
  AMP PEAK 17(11Q14.1) WILD-TYPE  215  558
     clus
vv    AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  NO                            67                            215
  YES                          185                            558
[1] 2 2
[1] FALSE
D17V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 17(11Q14.1) MUTATED                                  1     9
  AMP PEAK 17(11Q14.1) WILD-TYPE                                0    47
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 17(11Q14.1) MUTATED                          38   173
  AMP PEAK 17(11Q14.1) WILD-TYPE                       120   544
D17V11, multiclass
                                  clus
vv                                 AMP PEAK 17(11Q14.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       9
  BLACK OR AFRICAN AMERICAN                                  38
  WHITE                                                     173
                                  clus
vv                                 AMP PEAK 17(11Q14.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        47
  BLACK OR AFRICAN AMERICAN                                   120
  WHITE                                                       544
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V12, binary
                                cls
clus                               0   1
  AMP PEAK 17(11Q14.1) MUTATED     6 201
  AMP PEAK 17(11Q14.1) WILD-TYPE  30 625
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED      6  201
  AMP PEAK 17(11Q14.1) WILD-TYPE   30  625
                        clus
vv                       AMP PEAK 17(11Q14.1) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          201
                        clus
vv                       AMP PEAK 17(11Q14.1) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            625
[1] 2 2
[1] FALSE

Clustering(18) Variable = AMP PEAK 18(12P13.33) MUTATION ANALYSIS
D18V1, survival
                                 sevent
clus2                               0   1
  AMP PEAK 18(12P13.33) MUTATED   235  32
  AMP PEAK 18(12P13.33) WILD-TYPE 651  87
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            267                             738 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                             32                              87 
$`AMP PEAK 18(12P13.33) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO 
       48.10        47.24        13.68        31.79        39.32        28.01 
TCGA-A1-A0SP TCGA-A2-A04T TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D0 
       19.20        73.84        75.55         5.19        56.81        21.14 
TCGA-A2-A0D2 TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EY TCGA-A2-A0YE TCGA-A2-A0YH 
       33.76        35.05        34.29        24.16        18.21        21.67 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1FW TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XT 
       18.61        31.73        17.36        19.20        33.93        83.01 
TCGA-A2-A3XW TCGA-A2-A3Y0 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A13D TCGA-A7-A13E 
       49.48        38.37        38.30        35.31        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A425 TCGA-A7-A4SB 
       12.72        31.36        20.61        22.32        14.70        13.74 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VW 
       14.50        21.17        17.92        14.73        12.10         9.37 
TCGA-A7-A6VX TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07L 
       10.42        17.98        26.01        53.98         9.01        17.03 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08P 
        8.98        24.99        28.04        19.96        37.05        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09K 
        0.99        33.01        30.97         9.99         1.02        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A9 
       33.07         1.02        25.02        14.01        12.00        13.02 
TCGA-AC-A23E TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3W5 TCGA-AC-A62X TCGA-AC-A6IW 
        2.37        26.04         1.02        16.57         1.12         0.69 
TCGA-AN-A03Y TCGA-AN-A04C TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FJ 
        0.33         1.78         6.51         0.16         0.33         7.96 
TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XO 
        7.00         6.02         0.36         0.33         0.33        12.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A0J2 
        0.33        80.28        66.77        81.63        84.69        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 
       52.18        20.32        53.03        72.00        55.33       102.58 
TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
       96.10        57.30        48.36        61.87        70.39         0.53 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TV 
       26.93         5.65         2.56        49.32        74.79        29.75 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AQ TCGA-AR-A24H 
      114.02        85.97        61.84        51.25        43.07       109.58 
TCGA-AR-A24Q TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I2 
      101.52        50.96        79.00        20.38        54.74       143.38 
TCGA-B6-A0I9 TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RO 
       12.13       176.98       110.14       140.88       211.56       162.05 
TCGA-B6-A0RS TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI 
      100.70        79.63       113.79       186.48        43.59        73.51 
TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0B5 TCGA-BH-A0B9 
       54.28        49.94        24.53        38.79        48.36        51.68 
TCGA-BH-A0BA TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BT TCGA-BH-A0C1 TCGA-BH-A0DL 
       37.22        24.85        44.05        45.57        44.02        48.23 
TCGA-BH-A0E0 TCGA-BH-A0E7 TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0HX TCGA-BH-A18K 
        4.41        44.81        24.49        30.35        27.25        90.84 
TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18V 
       26.66        37.74        55.63        37.55         7.36        51.16 
TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1FC TCGA-BH-A1FN 
       91.99        42.28        12.00        55.69       114.15        72.07 
TCGA-BH-A202 TCGA-BH-A203 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U 
        0.72        38.60        11.93        12.66        11.77        12.66 
TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A26Z 
       12.66         3.12         0.16        12.03         2.30         8.28 
TCGA-D8-A13Z TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JC TCGA-D8-A1JD 
       20.88        14.17        19.20        14.17        15.78        18.15 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XU 
       20.09        19.40        17.16        21.83        14.50        12.99 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A27F TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R 
       15.32        15.52        16.04        13.48         4.80        10.09 
TCGA-D8-A27W TCGA-D8-A3Z6 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C 
       12.26        18.51        34.42        46.59        37.51        40.11 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A150 TCGA-E2-A152 
       47.15        44.68        40.96        38.60        25.41        27.12 
TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15G TCGA-E2-A15O TCGA-E2-A15S TCGA-E2-A1AZ 
       14.79        23.34        18.21        13.02        14.07        60.53 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL 
       33.73        33.70        20.98       106.75       102.61        43.04 
TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1N8 
       16.93         7.20        34.92        19.89        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R6 
       13.12        36.56        39.55        20.05         9.86         2.76 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 
       20.81        40.24        21.27        23.51        17.06         0.69 
TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA TCGA-EW-A1J6 TCGA-EW-A1OW 
       27.22         0.72        17.75         0.62        28.77        22.82 
TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A3U0 TCGA-GI-A2C9 
       29.82         7.86        19.99         6.15        17.49       109.87 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3XL TCGA-LD-A66U TCGA-LD-A7W5 TCGA-LL-A440 
       43.04        42.71        69.30        21.24         4.08         9.53 
TCGA-LL-A441 TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ 
       11.44        14.79        11.57         2.63         4.14         5.59 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-S3-A6ZF 
        3.22         6.21        46.55        34.92        36.36        16.50 
TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-Z7-A8R5 
        6.81         7.92       100.01 

$`AMP PEAK 18(12P13.33) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SI 
        0.39         8.52        14.37        43.43        14.27        20.88 
TCGA-A1-A0SM TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
        7.96        18.21       104.81        18.02        41.95        82.16 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       22.06        63.12        64.04        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CT TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 
       75.25        63.45        64.04        34.55        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
      101.72        89.36        80.28       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU 
       37.05        31.82        29.75        24.72        99.19        54.64 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 
       27.12        44.88        50.43        44.28        17.52        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
        8.38        18.71        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK 
       32.55        25.28        15.42        21.90        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       48.46        23.77        23.47        36.79        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       19.56        16.47        52.47       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU 
       18.15        91.92        10.59        20.88        39.65        29.98 
TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX 
       32.75        38.40        34.98        31.99         7.30        24.39 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CG 
       21.30        23.21        26.96        21.14        21.90        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13G 
       35.47        30.61        37.45        35.67        33.11        23.61 
TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IY 
       29.56        24.26        23.74        23.80        21.73        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA 
       10.59        10.29        11.28        13.41        11.97        14.93 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P 
       10.72        11.05        10.29         8.75        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 
        1.02        53.06        29.03        31.00         1.02        17.03 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
       43.00        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A084 
        9.99        10.98         7.99         9.99        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       36.95        13.02         0.99        38.01        28.96        33.01 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       12.00         9.99        31.00        93.04        43.00        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B 
       33.01        17.95        41.98        12.00         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       50.04        49.05        45.07         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB 
        0.99        19.04        13.02        21.04         0.99        17.03 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
       38.04         0.95        10.85         2.66         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO 
       38.20        40.57        55.43        36.99        38.79        50.70 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83        22.19 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.12        19.79        23.24        24.79         1.55         0.07 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ 
        1.81         1.18         0.43         1.68         1.74         1.12 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        1.32         0.33         0.23         0.33         0.62         2.96 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        1.71         8.02         7.36         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX 
        4.64         7.59         7.17         6.28         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        0.33         0.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
        5.33         5.59        47.84        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA 
       29.13        21.40        24.16        37.48        22.36        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.70        50.86        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       62.04        71.80        99.25       108.72       106.78        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       77.56        64.04        41.62        28.37        14.73        82.62 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O 
       17.79        24.79       130.09        15.62        32.52        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX 
        9.99       111.32         5.26        86.66        98.93        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AH 
       55.86        76.14        65.36       101.95        83.87        75.55 
TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       52.77        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       17.23        37.81        76.21        61.28        63.62        62.14 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X 
        0.85        87.22        76.01        53.36        85.35        83.77 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       56.15        78.48        73.18        72.76        58.92        93.83 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM 
      128.65        20.25        62.86        42.87         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       38.17        39.39        40.54        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
       77.62       149.59       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      146.50       112.37        18.77       126.12        84.59       110.93 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
       68.45       189.01       234.28        81.17        78.02       172.96 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
      102.77       140.48        89.46       131.21       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
      188.68        17.98        21.47       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88       101.52       139.17       170.17        85.35 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
      103.63        55.00        20.45        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BC 
       40.83        39.55        39.16        56.94        56.98        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       18.21        25.71        21.70        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       27.19        53.69        53.95        49.94        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       41.75        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       38.01        22.13        13.91        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI 
       14.30         9.63        46.19        32.65        31.00        24.43 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       10.78        15.16        37.78        35.51        24.56        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       41.00        52.96        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX 
       13.61        36.85        12.89        51.32        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
       23.93        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18S 
        2.01         7.23        20.12        72.56        30.28        66.05 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1EY 
       51.39        69.93       113.82        82.85        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB 
       25.81        31.53        89.16        97.48        24.66       120.62 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 TCGA-BH-A208 
       45.63       144.59        72.07         6.90        83.31        57.83 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
      130.16        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X 
        8.94        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
        1.78         1.45         0.69         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HN 
       12.33        10.92        11.34        11.34        10.42         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 
        0.30         0.23         0.36         0.43         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.03         0.03        12.20         0.99         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 
       11.90        13.25        20.58        13.97        13.48        21.14 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       17.49        16.50        18.71        18.90        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JP 
       14.01        18.97        20.09        20.12        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 
       12.20        13.32        14.70        18.58        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF 
       25.74        23.90        27.58        18.15         2.66        15.22 
TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       14.73        19.92        17.69         7.96        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 
       16.31         6.35        15.16        12.66        16.54         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.24        14.14        17.42        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 
        9.44        16.41         0.76        13.08        12.53        14.50 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A10F 
        7.33        43.00        27.52        40.41        28.44        28.87 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.24        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 
       31.96        28.60        17.03        23.24        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       23.87        25.05        22.82        17.29        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       12.92        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       19.56        17.06        14.99        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       32.35        28.50        16.47        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       32.78        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       54.18        27.42        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
       28.90        18.87         8.75         5.52        15.72        30.61 
TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1ND TCGA-E9-A1NE 
       19.00         9.21        19.20        36.82        12.59        35.77 
TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
       21.57        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF 
        1.38        21.21        32.09         0.66        34.65         6.58 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.59        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A248 
       39.09        22.75        12.89        24.10         0.85         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 
        0.95        24.56         0.76        26.07        18.41        15.72 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP 
       12.33         0.23        14.70         0.26        13.81        14.40 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       15.39        12.20        39.72         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OY 
       13.25        16.57        15.68        25.94        29.95        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       40.41        41.13        39.78        52.96        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       30.08        18.90        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       19.96        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       10.16        10.59         7.40        59.57       194.27        53.13 
TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.52        42.28        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN 
       77.33        53.36       110.50        38.20        43.73        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U 
       72.03        13.55        18.12        11.84        11.57         6.67 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        4.60         8.75        10.95         7.59        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A9Q3 
       14.70        14.47         3.88         4.50         4.50         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.79         2.10        12.66        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       27.65        16.87        24.72        22.32        20.38        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.47        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY 
       14.07        28.21        19.73         0.23         0.16         0.26 
TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        3.95         8.65        10.59         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        6.87         3.91         5.29         9.60         9.14       105.04 

  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                           0.16                            0.03 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                         211.56                          234.28 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                          23.51                           22.19 
[1] "0.2 - 211.6 (23.5)" "0.0 - 234.3 (22.2)"
[1] "hr=" "1"  
D18V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 18(12P13.33) MUTATED        18       13        1        1       103
  AMP PEAK 18(12P13.33) WILD-TYPE      65       67        8        4       239
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 18(12P13.33) MUTATED          55         0         43          9
  AMP PEAK 18(12P13.33) WILD-TYPE       179         2         99         20
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 18(12P13.33) MUTATED           18        5         0       5
  AMP PEAK 18(12P13.33) WILD-TYPE         45       13         1      11
D18V3, multiclass
            clus
vv           AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  STAGE I                               18                              65
  STAGE IA                              13                              67
  STAGE IB                               1                               8
  STAGE II                               1                               4
  STAGE IIA                            103                             239
  STAGE IIB                             55                             179
  STAGE III                              0                               2
  STAGE IIIA                            43                              99
  STAGE IIIB                             9                              20
  STAGE IIIC                            18                              45
  STAGE IV                               5                              13
  STAGE TIS                              0                               1
  STAGE X                                5                              11
[1] 13  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 18(12P13.33) MUTATED    46 178  34  12
  AMP PEAK 18(12P13.33) WILD-TYPE 219 416  90  27
D18V4, multiclass
    clus
vv   AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  T1                            46                             219
  T2                           178                             416
  T3                            34                              90
  T4                            12                              27
[1] 4 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  N3
  AMP PEAK 18(12P13.33) MUTATED   132  83  31  21
  AMP PEAK 18(12P13.33) WILD-TYPE 349 256  82  53
D18V5, multiclass
    clus
vv   AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  N0                           132                             349
  N1                            83                             256
  N2                            31                              82
  N3                            21                              53
[1] 4 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                              CM0 (I+)  M0  M1  MX
  AMP PEAK 18(12P13.33) MUTATED          0 233   5  33
  AMP PEAK 18(12P13.33) WILD-TYPE        5 621  14 114
D18V6, multiclass
          clus
vv         AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  CM0 (I+)                             0                               5
  M0                                 233                             621
  M1                                   5                              14
  MX                                  33                             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V7, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED   270   1
  AMP PEAK 18(12P13.33) WILD-TYPE 744  10
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED    270    1
  AMP PEAK 18(12P13.33) WILD-TYPE  744   10
        clus
vv       AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  FEMALE                           270                             744
  MALE                               1                              10
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  AMP PEAK 18(12P13.33) MUTATED                            1
  AMP PEAK 18(12P13.33) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 18(12P13.33) MUTATED                             223
  AMP PEAK 18(12P13.33) WILD-TYPE                           531
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 18(12P13.33) MUTATED                               25
  AMP PEAK 18(12P13.33) WILD-TYPE                            150
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 18(12P13.33) MUTATED                     4
  AMP PEAK 18(12P13.33) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 18(12P13.33) MUTATED                                  9
  AMP PEAK 18(12P13.33) WILD-TYPE                               20
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 18(12P13.33) MUTATED                    1              8
  AMP PEAK 18(12P13.33) WILD-TYPE                 14             36
D18V8, multiclass
                                  clus
vv                                 AMP PEAK 18(12P13.33) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              223
  INFILTRATING LOBULAR CARCINOMA                              25
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             9
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                               8
                                  clus
vv                                 AMP PEAK 18(12P13.33) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                531
  INFILTRATING LOBULAR CARCINOMA                               150
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              20
  MUCINOUS CARCINOMA                                            14
  OTHER  SPECIFY                                                36
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V9, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED    82 189
  AMP PEAK 18(12P13.33) WILD-TYPE 200 554
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED     82  189
  AMP PEAK 18(12P13.33) WILD-TYPE  200  554
     clus
vv    AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  NO                             82                             200
  YES                           189                             554
[1] 2 2
[1] FALSE
D18V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 18(12P13.33) MUTATED                                  0    13
  AMP PEAK 18(12P13.33) WILD-TYPE                                1    43
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 18(12P13.33) MUTATED                          55   175
  AMP PEAK 18(12P13.33) WILD-TYPE                       103   542
D18V11, multiclass
                                  clus
vv                                 AMP PEAK 18(12P13.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       13
  BLACK OR AFRICAN AMERICAN                                   55
  WHITE                                                      175
                                  clus
vv                                 AMP PEAK 18(12P13.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         43
  BLACK OR AFRICAN AMERICAN                                    103
  WHITE                                                        542
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V12, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED     5 224
  AMP PEAK 18(12P13.33) WILD-TYPE  31 602
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED      5  224
  AMP PEAK 18(12P13.33) WILD-TYPE   31  602
                        clus
vv                       AMP PEAK 18(12P13.33) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           224
                        clus
vv                       AMP PEAK 18(12P13.33) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             602
[1] 2 2
[1] FALSE

Clustering(19) Variable = AMP PEAK 19(12Q15) MUTATION ANALYSIS
D19V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 19(12Q15) MUTATED   224  34
  AMP PEAK 19(12Q15) WILD-TYPE 662  85
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         258                          747 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                          34                           85 
$`AMP PEAK 19(12Q15) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SN TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U 
       48.10        13.68        39.32        82.16        73.84        22.06 
TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0ET TCGA-A2-A0EU 
       24.79        75.55        56.81        21.14        35.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T7 TCGA-A2-A0YG TCGA-A2-A0YH 
       31.82        44.88        17.52        20.75        21.90        21.67 
TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A25B TCGA-A2-A25E TCGA-A2-A3XW TCGA-A2-A3Y0 
       23.77        17.36        16.31        91.92        49.48        38.37 
TCGA-A7-A0CD TCGA-A7-A13F TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A425 TCGA-A7-A4SB 
       38.30        12.72        20.61        22.32        14.70        13.74 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A6VX TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
       17.92        14.73        10.42         1.02        17.98        53.06 
TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G 
       29.03         1.02        17.03        53.98         9.01        18.97 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A08B TCGA-A8-A08F 
       10.98         8.98         9.99        28.04        38.01        33.01 
TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       19.96        37.05         9.99        31.00         0.99        33.01 
TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09M 
       30.97         9.99         1.02        50.04        45.07        33.07 
TCGA-A8-A09Q TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E 
       25.02        14.01        12.00         0.99        13.02         2.37 
TCGA-AC-A23H TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3W5 TCGA-AN-A03Y TCGA-AN-A04D 
        2.66        26.04        50.70        16.57         0.33         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ 
        8.02         6.51         0.16         0.33         4.64         7.96 
TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XO 
        7.00         6.02         0.36         0.33         0.33        12.33 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A0J2 TCGA-AO-A0J3 
       80.28        66.77        81.63        84.69        32.78        21.40 
TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JD TCGA-AO-A0JM TCGA-AO-A12E TCGA-AO-A1KQ 
       20.32        53.03        72.00        71.80        57.30        61.87 
TCGA-AO-A1KS TCGA-AQ-A0Y5 TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        0.53         5.65        32.91       111.32        49.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AV 
       86.66        98.93        64.83        83.87        51.25        61.28 
TCGA-AR-A24M TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A256 
       96.89        85.35        50.96        79.00        56.15        93.83 
TCGA-AR-A2LN TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0RH 
       38.17        20.38        54.74       176.98       110.14       189.01 
TCGA-B6-A0RO TCGA-B6-A0WV TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KI 
      162.05        79.63        21.47       113.79        43.59        73.51 
TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BA 
       49.94        24.53        39.55        39.16        48.36        37.22 
TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0C1 TCGA-BH-A0DD 
       24.85        48.69        45.57        11.67        44.02        45.83 
TCGA-BH-A0DQ TCGA-BH-A0DX TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EB TCGA-BH-A0GY 
        3.22        47.41        14.30        44.81        24.49        30.35 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A18K TCGA-BH-A18L 
       23.08        41.00        27.25        50.79        90.84        26.66 
TCGA-BH-A18N TCGA-BH-A18R TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       37.74        37.55        91.99        42.28        12.00        55.69 
TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FM TCGA-BH-A208 TCGA-C8-A12L TCGA-C8-A12M 
       97.48       114.15        45.63        57.83        11.93        11.77 
TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A138 TCGA-C8-A1HG 
       12.66        12.66        12.66         3.12         3.75        11.34 
TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HN TCGA-C8-A26Z TCGA-C8-A278 TCGA-D8-A13Y 
       11.34        12.03         3.25         8.28         0.03        11.90 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A1J8 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       20.88        13.25        14.17        15.78        18.15        18.90 
TCGA-D8-A1JP TCGA-D8-A1X9 TCGA-D8-A1XD TCGA-D8-A1XL TCGA-D8-A1XU TCGA-D8-A1XY 
       21.01        23.90        17.16        19.92        12.99        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z6 
       15.32        15.52        10.09        12.53        12.26        18.51 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14T 
       34.42        46.59        37.51        40.11        44.68        33.30 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15G TCGA-E2-A15O 
       34.26        32.02        27.12        23.34        18.21        13.02 
TCGA-E2-A15S TCGA-E2-A1B5 TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L8 
       14.07        32.35        33.73        33.70        20.98        39.62 
TCGA-E2-A1LA TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N6 
       24.59        16.93         7.20        19.89         9.21        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RC 
       13.12        20.05         9.86         2.76        20.81        40.24 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A295 
        6.58        21.27        23.51         0.69        27.22         0.72 
TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5UO TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY 
       17.75         0.23        13.81        28.77        22.82        29.85 
TCGA-EW-A1P5 TCGA-EW-A1PD TCGA-EW-A2FV TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DH 
       23.11        13.94        25.91       109.87        59.57        42.28 
TCGA-GM-A2DK TCGA-LD-A66U TCGA-LD-A7W5 TCGA-LL-A440 TCGA-LL-A5YM TCGA-LL-A6FP 
       62.33        21.24         4.08         9.53        15.32        11.57 
TCGA-LL-A6FQ TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5RV TCGA-OL-A5RW 
        2.63         4.50         5.59         3.22        34.92        36.36 
TCGA-OL-A66O TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-XX-A899 TCGA-Z7-A8R5 
        7.23        16.50         6.81         7.92         9.60       100.01 

$`AMP PEAK 19(12Q15) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        31.79         7.96        28.01        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
      104.81        18.02        41.95        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        64.57       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 
      107.93        75.25         5.19        63.45        64.04        34.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       33.76        28.77        25.22       101.72        89.36        80.28 
TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EW TCGA-A2-A0EX 
      107.61        79.76        74.40        37.05        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY 
       24.16        99.19        54.64        27.12        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       17.13         8.38        18.71        20.52        17.46        18.90 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ 
       32.55        25.28        18.21        15.42        14.50        18.61 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ 
       19.33        48.46        31.73        23.47        36.79        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       20.25        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
       17.19        18.15        10.59        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       83.01        29.98        32.75        38.40        34.98        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30        24.39        21.30        23.21        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.90        35.31        34.29        35.47        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H 
       35.67        33.11        31.73        10.72        23.61        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IY 
       31.36        24.26        23.74        23.80        21.73        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA 
       10.59        10.29        11.28        13.41        11.97        14.93 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       14.50        21.17        12.10        10.72        11.05        10.29 
TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06X TCGA-A8-A06Y 
        9.37         8.75        13.02        13.02        31.00        26.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       43.00        19.99        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
        9.99         7.99        24.99        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A08T 
       13.02         0.99        28.96        12.00        31.00        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       43.00        40.01        33.01        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R 
        9.99        12.00        49.05        29.98         1.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
       19.04        15.02         0.99        19.04        13.02        21.04 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK 
       17.03        38.04         0.95        10.85         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH 
       38.20        40.57        55.43        36.99        38.79         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83        22.19 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.12        19.79        23.24        24.79         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO 
        1.12         1.81         1.18         0.69         0.43         1.68 
TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.74         1.12         1.32         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0AT 
        0.62         2.96         1.78         7.36         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX 
        6.44         7.59         7.17         6.28         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        0.33         0.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03R TCGA-AO-A03T 
        0.33         5.33         5.59        47.84        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       59.05        29.13        52.18        24.16        37.48        22.36 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
       21.53        50.70        50.86        76.77        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       50.24        62.04        55.33       102.58        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F 
      106.78        96.10        90.58        77.56        64.04        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KT 
       41.62        28.37        14.73        82.62        70.39        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79        26.93       130.09        15.62        32.52         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
        9.99        74.79        29.75        55.86        76.14        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
      101.95       114.02        85.97        75.55        61.84        52.77 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
       48.82        62.56        43.73        43.56        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       17.23        37.81        76.21        63.62        62.14        20.22 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        50.89        73.02        78.51        84.20         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A251 
      101.52        87.22        76.01        53.36        83.77        78.48 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       73.18        72.76        58.92       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN 
       42.87         7.36        40.04        39.39        40.54        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       20.45        10.59        77.62       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
      220.90       129.57        50.70        65.72       146.50       112.37 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
       18.77       126.12        84.59       110.93       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP 
       68.45       234.28        81.17        78.02       172.96       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
      140.48       100.70        89.46       131.21       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68        17.98       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88       101.52       139.17       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       54.28       103.63        55.00        38.79        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 
       28.50        46.95        40.83        56.94        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
       32.02        18.21        25.71        21.70        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BZ 
       35.67        27.19        53.69        53.95        49.94        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       41.75        48.13        42.90        31.17        23.44        38.01 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS 
       22.13        13.91        48.23        17.26        15.65         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 
       38.47        45.17        16.27         4.41        15.68         9.63 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 
       46.19        32.65        31.00        24.43        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       37.78        35.51        24.56        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
        5.85         2.50        13.61        36.85        12.89        51.32 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
        5.59        23.93        24.95        42.35        44.81        23.05 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18P 
        8.81         2.01         7.23        20.12        72.56        30.28 
TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       55.63        66.05         7.36        51.39        51.16        69.93 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
      113.82        82.85        49.58        17.69        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        24.66       120.62        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU 
       36.92        63.35        55.00        72.07       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O 
        6.90         0.72        38.60        83.31       130.16        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N 
        6.44        20.12         0.99       109.28         8.94        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 
       11.77         0.07        12.66        12.66         1.78         1.45 
TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ 
        0.69         0.62         3.85        12.33        10.92         0.16 
TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y 
       10.42         2.30         0.30         0.23         0.36         0.43 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 
        9.67         0.03         0.03        12.20         0.99         0.03 
TCGA-C8-A3M8 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
        0.23        20.58        13.97        14.17        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JG 
       19.20        17.49        16.50        18.71        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       14.01        18.97        20.09        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
       20.38        12.20        13.32        14.70        18.58        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF 
       16.73        25.74        27.58        18.15         2.66        15.22 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       14.73        21.83        14.50        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y1 
       15.85        16.31         6.35        15.16        12.66         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       14.24        14.14        17.42        16.04        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       14.43         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A 
       13.08        14.50         7.33        43.00        27.52        40.41 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R 
       28.44        28.87        47.15        40.96        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       33.17        43.33        31.96        28.60        17.03        25.41 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 
       23.24        19.43        21.04        23.87        14.79        25.05 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I 
       22.82        17.29        20.71        21.63        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15R 
       19.40         9.04        20.58         7.73        19.56        17.06 
TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B6 
       14.99        60.53        53.62        53.03        29.95        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ 
       16.47        17.10        38.30        37.41        32.78        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       22.65         3.88        22.19        11.08        54.18        27.42 
TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       19.66        40.47        28.90        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 
        8.75        43.04         5.52        15.72        30.61        34.92 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.00        19.20        36.82        12.00        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       12.59        35.77        21.57        11.90        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD 
        2.10         6.12         1.38        21.21        32.09         0.66 
TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
       34.65        34.59        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 
       13.32        39.09        22.75        12.89        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO 
        0.85         1.94         0.95        24.56         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL 
       18.41         0.62        15.72        12.33        14.70         0.26 
TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       14.40        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX 
       18.90        13.25        16.57        15.68        25.94        29.95 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 
       40.41        41.13        39.78        52.96        29.82        18.48 
TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE 
       30.08         7.86        18.90        19.99         6.15        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW 
       14.43        34.55        19.96        55.00        52.73        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2DA 
       21.27        17.49        10.16        10.59         7.40       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DL 
       53.13        53.52        43.04        42.71        61.91        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        66.38        72.03        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A441 TCGA-LL-A442 
       11.57         6.67         4.60         8.75        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR 
        7.59        17.06        14.70        14.47        14.79         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.14         4.50         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55        31.99        58.62        27.65 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       16.87        24.72        22.32        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-OL-A6VO 
       65.62        33.57        31.07        26.04        14.07        28.21 
TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH 
       19.73         0.23         0.16         0.26         3.95         8.65 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A89A TCGA-Z7-A8R6 
        5.29         9.14       105.04 

  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                      189.01                       234.28 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                       22.19                        22.45 
[1] "0.0 - 189.0 (22.2)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.3"
D19V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 19(12Q15) MUTATED        20       13        1        0        84
  AMP PEAK 19(12Q15) WILD-TYPE      63       67        8        5       258
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 19(12Q15) MUTATED          57         0         51         11
  AMP PEAK 19(12Q15) WILD-TYPE       177         2         91         18
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 19(12Q15) MUTATED           19        5         0       3
  AMP PEAK 19(12Q15) WILD-TYPE         44       13         1      13
D19V3, multiclass
            clus
vv           AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  STAGE I                            20                           63
  STAGE IA                           13                           67
  STAGE IB                            1                            8
  STAGE II                            0                            5
  STAGE IIA                          84                          258
  STAGE IIB                          57                          177
  STAGE III                           0                            2
  STAGE IIIA                         51                           91
  STAGE IIIB                         11                           18
  STAGE IIIC                         19                           44
  STAGE IV                            5                           13
  STAGE TIS                           0                            1
  STAGE X                             3                           13
[1] 13  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 19(12Q15) MUTATED    51 169  30  15
  AMP PEAK 19(12Q15) WILD-TYPE 214 425  94  24
D19V4, multiclass
    clus
vv   AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  T1                         51                          214
  T2                        169                          425
  T3                         30                           94
  T4                         15                           24
[1] 4 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  N3
  AMP PEAK 19(12Q15) MUTATED   107  86  44  22
  AMP PEAK 19(12Q15) WILD-TYPE 374 253  69  52
D19V5, multiclass
    clus
vv   AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  N0                        107                          374
  N1                         86                          253
  N2                         44                           69
  N3                         22                           52
[1] 4 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                           CM0 (I+)  M0  M1  MX
  AMP PEAK 19(12Q15) MUTATED          0 231   5  29
  AMP PEAK 19(12Q15) WILD-TYPE        5 623  14 118
D19V6, multiclass
          clus
vv         AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  CM0 (I+)                          0                            5
  M0                              231                          623
  M1                                5                           14
  MX                               29                          118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V7, binary
                              cls
clus                             0   1
  AMP PEAK 19(12Q15) MUTATED   258   7
  AMP PEAK 19(12Q15) WILD-TYPE 756   4
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED    258    7
  AMP PEAK 19(12Q15) WILD-TYPE  756    4
        clus
vv       AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  FEMALE                        258                          756
  MALE                            7                            4
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 19(12Q15) MUTATED                            0
  AMP PEAK 19(12Q15) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 19(12Q15) MUTATED                             217
  AMP PEAK 19(12Q15) WILD-TYPE                           537
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 19(12Q15) MUTATED                               31
  AMP PEAK 19(12Q15) WILD-TYPE                            144
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 19(12Q15) MUTATED                     1
  AMP PEAK 19(12Q15) WILD-TYPE                   5
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 19(12Q15) MUTATED                                  8
  AMP PEAK 19(12Q15) WILD-TYPE                               21
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 19(12Q15) MUTATED                    2              6
  AMP PEAK 19(12Q15) WILD-TYPE                 13             38
D19V8, multiclass
                                  clus
vv                                 AMP PEAK 19(12Q15) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           217
  INFILTRATING LOBULAR CARCINOMA                           31
  MEDULLARY CARCINOMA                                       1
  MIXED HISTOLOGY (PLEASE SPECIFY)                          8
  MUCINOUS CARCINOMA                                        2
  OTHER  SPECIFY                                            6
                                  clus
vv                                 AMP PEAK 19(12Q15) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             537
  INFILTRATING LOBULAR CARCINOMA                            144
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           21
  MUCINOUS CARCINOMA                                         13
  OTHER  SPECIFY                                             38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V9, binary
                              cls
clus                             0   1
  AMP PEAK 19(12Q15) MUTATED    72 193
  AMP PEAK 19(12Q15) WILD-TYPE 210 550
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED     72  193
  AMP PEAK 19(12Q15) WILD-TYPE  210  550
     clus
vv    AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  NO                          72                          210
  YES                        193                          550
[1] 2 2
[1] FALSE
D19V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 19(12Q15) MUTATED                                  0    16
  AMP PEAK 19(12Q15) WILD-TYPE                                1    40
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 19(12Q15) MUTATED                          44   167
  AMP PEAK 19(12Q15) WILD-TYPE                       114   550
D19V11, multiclass
                                  clus
vv                                 AMP PEAK 19(12Q15) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    16
  BLACK OR AFRICAN AMERICAN                                44
  WHITE                                                   167
                                  clus
vv                                 AMP PEAK 19(12Q15) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      40
  BLACK OR AFRICAN AMERICAN                                 114
  WHITE                                                     550
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V12, binary
                              cls
clus                             0   1
  AMP PEAK 19(12Q15) MUTATED     6 203
  AMP PEAK 19(12Q15) WILD-TYPE  30 623
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED      6  203
  AMP PEAK 19(12Q15) WILD-TYPE   30  623
                        clus
vv                       AMP PEAK 19(12Q15) MUTATED
  HISPANIC OR LATINO                              6
  NOT HISPANIC OR LATINO                        203
                        clus
vv                       AMP PEAK 19(12Q15) WILD-TYPE
  HISPANIC OR LATINO                               30
  NOT HISPANIC OR LATINO                          623
[1] 2 2
[1] FALSE

Clustering(20) Variable = AMP PEAK 20(13Q34) MUTATION ANALYSIS
D20V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 20(13Q34) MUTATED   150  20
  AMP PEAK 20(13Q34) WILD-TYPE 736  99
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         170                          835 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                          20                           99 
$`AMP PEAK 20(13Q34) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A0D0 TCGA-A2-A0D2 
       13.68        31.79        28.01        73.84        21.14        33.76 
TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SX TCGA-A2-A0T0 
       79.76        35.05        24.16        99.19        50.43        17.52 
TCGA-A2-A0T7 TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XT 
       20.75        18.61        31.73        19.20        33.93        83.01 
TCGA-A2-A3Y0 TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A26F TCGA-A7-A3J0 
       38.37        35.31        35.67        31.73        24.26        10.29 
TCGA-A7-A4SD TCGA-A8-A07I TCGA-A8-A07R TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
       14.50        14.01         8.98        19.96        12.00        37.05 
TCGA-A8-A08L TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09C TCGA-A8-A09M 
        9.99        33.01        41.98        12.00         1.02        33.07 
TCGA-A8-A0AB TCGA-AC-A2B8 TCGA-AC-A2FM TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A8OP 
       17.03         1.48        26.04        14.83        16.57         1.74 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AM 
        0.33         0.23         1.78         1.71         6.51         0.16 
TCGA-AN-A0AR TCGA-AN-A0FJ TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        0.33         7.96         6.02         0.33         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03U 
        0.33         0.33        12.33         0.33         0.33        59.05 
TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       20.32        50.70       102.58        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AQ-A04J TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0U3 TCGA-AR-A1AN 
       64.04        26.93       111.32        86.66       114.02        43.73 
TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24U TCGA-AR-A256 TCGA-AR-A2LR TCGA-B6-A0IB 
       63.62       109.58        53.36        93.83        20.38       129.57 
TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RS 
      176.98       110.14       211.56        68.45       162.05       100.70 
TCGA-B6-A0RU TCGA-B6-A0WV TCGA-B6-A0WY TCGA-BH-A0AV TCGA-BH-A0B9 TCGA-BH-A0BT 
      131.21        79.63       113.79        38.79        51.68        45.57 
TCGA-BH-A0C7 TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0EB TCGA-BH-A0HQ TCGA-BH-A18N 
       42.90         4.41        14.30        24.49        36.85        37.74 
TCGA-BH-A18Q TCGA-BH-A18V TCGA-BH-A1EX TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A208 
       55.63        51.16        49.58        45.63        72.07        57.83 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A26Y TCGA-C8-A275 
       11.93        11.77         1.78         0.69         0.43         0.03 
TCGA-C8-A27B TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A1JF TCGA-D8-A1JJ TCGA-D8-A1JL 
        0.99        20.58        14.17        12.03        20.09        20.09 
TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XQ TCGA-D8-A1XW TCGA-D8-A27H TCGA-D8-A27M 
       15.22        21.83        16.41        12.66        13.05        13.48 
TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14X 
       10.09        12.26        40.96        38.60        33.30        31.96 
TCGA-E2-A14Y TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A15E TCGA-E2-A15I TCGA-E2-A1BD 
       28.60        19.43        14.79        20.71        17.42        17.10 
TCGA-E2-A1L9 TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A56Z 
       19.66        28.90        18.87       106.75       102.61         7.20 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI 
       34.92        19.89        12.00        12.59        20.05         9.86 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1RF TCGA-E9-A22G TCGA-E9-A248 TCGA-E9-A3HO 
        0.62         2.10         6.58        23.51         1.94        26.07 
TCGA-E9-A5FL TCGA-EW-A1J6 TCGA-EW-A1P0 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A2FV 
        0.26        28.77        41.13        30.08        19.99        25.91 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DF TCGA-GM-A3NW TCGA-JL-A3YW 
       17.49        10.16       109.87        42.71       110.50        11.84 
TCGA-JL-A3YX TCGA-LD-A7W5 TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-MS-A51U TCGA-PL-A8LV 
       11.57         4.08         2.63         4.14         2.79         0.23 
TCGA-S3-A6ZG TCGA-S3-AA10 
        6.81         7.92 

$`AMP PEAK 20(13Q34) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       47.24        20.88         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V 
      104.81        18.02        41.95        82.16        22.06        63.12 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       64.04        55.43        36.13       136.73        64.57        24.79 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT 
      112.08        92.48        88.60       107.93        75.55        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 
        5.19        63.45        64.04        56.81        34.55        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER 
       25.22       101.72        89.36        80.28       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU 
       37.05        34.29        31.82        29.75        24.72        54.64 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 
       27.12        44.88        44.28        17.13         8.38        18.71 
TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       20.52        17.46        18.90        32.55        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       15.42        21.90        21.67        14.50        19.33        48.46 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       23.77        23.47        17.36        36.79        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       19.56        16.47        52.47       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU 
       18.15        91.92        10.59        20.88        39.65        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW 
       32.75        49.48        38.40        34.98        31.99         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       24.39        21.30        23.21        26.96        21.14        21.90 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB 
       38.30        34.29        35.47        30.61        37.45        33.11 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G 
       10.72        12.72        23.61        29.56        31.36        23.74 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.80        21.73        20.61        22.32        11.34        10.59 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       11.28        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       21.17        17.92        14.73        12.10        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P 
       10.29         9.37        10.42         8.75        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y 
        1.02        17.98        53.06        29.03        31.00        26.01 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
        1.02        17.03        53.98         9.01        43.00        19.99 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       18.97        18.97        12.00        17.03         9.99        10.98 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        7.99        24.99         9.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       36.95        13.02         0.99        38.01        28.96        33.01 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X 
       31.00        31.00         0.99        33.01        93.04        43.00 
TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B 
       40.01        30.97        17.95         9.99         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
       50.04        49.05        45.07        29.98         1.02        25.02 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
        8.98        19.04        15.02         0.99        14.01        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD 
       19.04        13.02        21.04         0.99        13.02        38.04 
TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2BK TCGA-AC-A2BM 
        0.95         2.37        10.85         2.66        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH 
       40.57        55.43        36.99        38.79        50.70         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         2.27         0.99         0.69        22.19         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X 
       19.79        23.24        24.79         1.55         0.07         1.12 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ 
        1.81         1.18         0.69         0.43         1.68         1.12 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ 
        1.32         0.33         0.33         0.62         2.96         8.02 
TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK 
        7.36         0.33         0.33         6.44         4.64         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP 
        7.59         7.17         6.28         0.33         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         5.33         5.59        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03V 
       66.77        81.63        84.69        68.75        47.87        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       32.78        21.40        52.18        24.16        37.48        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.86        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 
       26.24        50.24        62.04        55.33        71.80        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
      108.72       106.78        57.30        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       14.73        82.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79       130.09         5.65        15.62        32.52         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
       32.91         9.99        49.32         5.26        74.79        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       98.93        64.83        55.86        76.14        65.36       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       83.87        85.97        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       48.82        62.56        43.56        39.98        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K 
       37.81        76.21        61.28        62.14        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       87.22        76.01        85.35        50.96        83.77        79.00 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       56.15        78.48        73.18        72.76        58.92       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
       20.25        62.86        42.87         7.36        40.04        38.17 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       39.39        40.54        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC 
       77.62       143.38       149.59        12.13       220.90        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
       65.72       146.50       112.37        18.77       126.12        84.59 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      110.93       140.88       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      172.96       102.77       140.48        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
      188.68        17.98        21.47       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI 
       28.27        68.94        58.88        43.59       101.52        73.51 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B 
      139.17       170.17        85.35        54.28        49.94       103.63 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       55.00        24.53        20.45        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       40.83        39.55        39.16        48.36        56.94        56.98 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       37.22        32.02        18.21        25.71        24.85        21.70 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR 
       44.05        61.68        35.67        48.69        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
       53.95        49.94        11.67        49.05        41.75        44.02 
TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       48.13        45.83        31.17        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       13.91        48.23        17.26        15.65         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 
       38.47        45.17        47.41        16.27        15.68         9.63 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        46.19        32.65        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       10.78        15.16        37.78        35.51        24.56        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       41.00        52.96        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
       13.61        12.89        51.32        27.25        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
       23.93        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
        2.01         7.23        20.12        90.84        26.66        72.56 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN 
       30.28        37.55        66.05         7.36        51.39        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       91.99       113.82        82.85        42.28        12.00        55.69 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       17.69        25.81        31.53        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
      120.62       114.15        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       38.60        83.31       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
        0.99       109.28         8.94        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
        0.07        12.66        12.66        12.66        12.66         3.12 
TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.45         0.62         3.85         3.75        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
       11.34        11.34         0.16        12.03        10.42         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 
        3.25         0.30         0.23         0.36         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03         0.03        12.20         0.03         0.23        11.90 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
       20.88        13.25        13.97        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       14.17        17.49        16.50        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM 
       18.90        12.03        14.01        18.97        20.12        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       20.38        21.01        12.20        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB 
       17.79        16.73        25.74        23.90        27.58        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM 
        2.66        17.16        14.73        14.50        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
        7.96        15.85        16.31         6.35        12.99        15.16 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 
       16.54        15.32        15.52         3.81        14.24        14.14 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        16.04        13.45        14.43         9.44        16.41 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        4.80         0.76        13.08        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
        7.33        43.00        34.42        27.52        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O 
       37.51        40.11        28.44        28.87        47.15        44.68 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z 
       38.24        33.17        43.33        34.26        32.02        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 
       25.41        27.12        23.24        21.04        23.87        25.05 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H 
       23.34        22.82        17.29        21.63        18.21        12.92 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
       19.40         9.04        20.58         7.73        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
       17.06        14.07        14.99        60.53        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF 
       29.95        32.35        28.50        16.47        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       32.78        33.73        33.70        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 
       22.19        20.98        11.08        54.18        27.42        39.62 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 
       24.59        40.47         8.75        43.04        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       15.72        30.61        19.00         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG 
       13.48        13.12        36.56        39.55        35.77        21.57 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
       11.90        14.30         6.12         1.38         2.76        21.21 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG 
       32.09        20.81        40.24         0.66        34.65        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.59        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
       39.09        22.75        12.89        24.10        17.06         0.69 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
        0.85        27.22         0.95        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y 
        0.76        18.41         0.62        15.72        12.33         0.23 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
        8.48        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P1 
       25.94        22.82        29.95        29.85        40.41        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PA 
       52.96        29.82        23.11        18.48         7.86        18.90 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
        6.15        13.94        10.52        14.43        34.55        19.96 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 
       55.00        52.73        22.09        21.27        10.59         7.40 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DH 
       59.57       194.27        53.13        53.52        43.04        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       18.12        21.24         6.67         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
       11.44        10.95         7.59        17.06        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 
       14.47        14.79        11.57         3.88         4.50         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        5.59         3.22         6.21         7.36        27.91         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       36.36        16.87        24.72        22.32        20.38        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.47        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
       14.07        28.21        19.73         0.16         0.26         3.95 
TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
       16.50         8.65        10.59         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                      211.56                       234.28 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                       20.35                        23.05 
[1] "0.0 - 211.6 (20.4)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.1"
D20V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 20(13Q34) MUTATED         6       11        1        0        75
  AMP PEAK 20(13Q34) WILD-TYPE      77       69        8        5       267
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 20(13Q34) MUTATED          36         0         23          4
  AMP PEAK 20(13Q34) WILD-TYPE       198         2        119         25
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 20(13Q34) MUTATED           10        3         0       3
  AMP PEAK 20(13Q34) WILD-TYPE         53       15         1      13
D20V3, multiclass
            clus
vv           AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  STAGE I                             6                           77
  STAGE IA                           11                           69
  STAGE IB                            1                            8
  STAGE II                            0                            5
  STAGE IIA                          75                          267
  STAGE IIB                          36                          198
  STAGE III                           0                            2
  STAGE IIIA                         23                          119
  STAGE IIIB                          4                           25
  STAGE IIIC                         10                           53
  STAGE IV                            3                           15
  STAGE TIS                           0                            1
  STAGE X                             3                           13
[1] 13  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 20(13Q34) MUTATED    30 119  17   5
  AMP PEAK 20(13Q34) WILD-TYPE 235 475 107  34
D20V4, multiclass
    clus
vv   AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  T1                         30                          235
  T2                        119                          475
  T3                         17                          107
  T4                          5                           34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            N0  N1  N2  N3
  AMP PEAK 20(13Q34) MUTATED    94  48  18  12
  AMP PEAK 20(13Q34) WILD-TYPE 387 291  95  62
D20V5, multiclass
    clus
vv   AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  N0                         94                          387
  N1                         48                          291
  N2                         18                           95
  N3                         12                           62
[1] 4 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                           CM0 (I+)  M0  M1  MX
  AMP PEAK 20(13Q34) MUTATED          0 156   3  13
  AMP PEAK 20(13Q34) WILD-TYPE        5 698  16 134
D20V6, multiclass
          clus
vv         AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  CM0 (I+)                          0                            5
  M0                              156                          698
  M1                                3                           16
  MX                               13                          134
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V7, binary
                              cls
clus                             0   1
  AMP PEAK 20(13Q34) MUTATED   172   0
  AMP PEAK 20(13Q34) WILD-TYPE 842  11
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED    172    0
  AMP PEAK 20(13Q34) WILD-TYPE  842   11
        clus
vv       AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  FEMALE                        172                          842
  MALE                            0                           11
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 20(13Q34) MUTATED                            0
  AMP PEAK 20(13Q34) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 20(13Q34) MUTATED                             143
  AMP PEAK 20(13Q34) WILD-TYPE                           611
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 20(13Q34) MUTATED                               13
  AMP PEAK 20(13Q34) WILD-TYPE                            162
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 20(13Q34) MUTATED                     1
  AMP PEAK 20(13Q34) WILD-TYPE                   5
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 20(13Q34) MUTATED                                  3
  AMP PEAK 20(13Q34) WILD-TYPE                               26
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 20(13Q34) MUTATED                    2             10
  AMP PEAK 20(13Q34) WILD-TYPE                 13             34
D20V8, multiclass
                                  clus
vv                                 AMP PEAK 20(13Q34) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           143
  INFILTRATING LOBULAR CARCINOMA                           13
  MEDULLARY CARCINOMA                                       1
  MIXED HISTOLOGY (PLEASE SPECIFY)                          3
  MUCINOUS CARCINOMA                                        2
  OTHER  SPECIFY                                           10
                                  clus
vv                                 AMP PEAK 20(13Q34) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             611
  INFILTRATING LOBULAR CARCINOMA                            162
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           26
  MUCINOUS CARCINOMA                                         13
  OTHER  SPECIFY                                             34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V9, binary
                              cls
clus                             0   1
  AMP PEAK 20(13Q34) MUTATED    47 125
  AMP PEAK 20(13Q34) WILD-TYPE 235 618
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED     47  125
  AMP PEAK 20(13Q34) WILD-TYPE  235  618
     clus
vv    AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  NO                          47                          235
  YES                        125                          618
[1] 2 2
[1] FALSE
D20V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 20(13Q34) MUTATED                                  0    11
  AMP PEAK 20(13Q34) WILD-TYPE                                1    45
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 20(13Q34) MUTATED                          30   119
  AMP PEAK 20(13Q34) WILD-TYPE                       128   598
D20V11, multiclass
                                  clus
vv                                 AMP PEAK 20(13Q34) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    11
  BLACK OR AFRICAN AMERICAN                                30
  WHITE                                                   119
                                  clus
vv                                 AMP PEAK 20(13Q34) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      45
  BLACK OR AFRICAN AMERICAN                                 128
  WHITE                                                     598
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V12, binary
                              cls
clus                             0   1
  AMP PEAK 20(13Q34) MUTATED     7 144
  AMP PEAK 20(13Q34) WILD-TYPE  29 682
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED      7  144
  AMP PEAK 20(13Q34) WILD-TYPE   29  682
                        clus
vv                       AMP PEAK 20(13Q34) MUTATED
  HISPANIC OR LATINO                              7
  NOT HISPANIC OR LATINO                        144
                        clus
vv                       AMP PEAK 20(13Q34) WILD-TYPE
  HISPANIC OR LATINO                               29
  NOT HISPANIC OR LATINO                          682
[1] 2 2
[1] FALSE

Clustering(21) Variable = AMP PEAK 21(14Q21.1) MUTATION ANALYSIS
D21V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 21(14Q21.1) MUTATED   179  26
  AMP PEAK 21(14Q21.1) WILD-TYPE 707  93
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           205                            800 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                            26                             93 
$`AMP PEAK 21(14Q21.1) MUTATED`
TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04W TCGA-A2-A0CW TCGA-A2-A0D4 TCGA-A2-A0SW 
       39.32        28.01        64.04        64.04        25.22        44.88 
TCGA-A2-A0T3 TCGA-A2-A0YH TCGA-A2-A1FW TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A3KD 
       18.71        21.67        17.36        16.31        17.19        39.65 
TCGA-A2-A4RX TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A4SA 
       24.39        21.90        30.61        35.67        33.11        14.93 
TCGA-A7-A56D TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 
       14.73        10.42        13.02        17.98        31.00        17.03 
TCGA-A8-A076 TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08I 
       53.98         8.98         9.99        38.01        33.01        12.00 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 
       31.00        31.00        33.01        43.00        33.01        30.97 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09M 
       41.98        12.00         9.99         1.02        50.04        33.07 
TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A9 TCGA-AC-A23E 
        8.98         0.99        14.01        19.04        13.02         2.37 
TCGA-AC-A2FM TCGA-AC-A62V TCGA-AC-A62Y TCGA-AN-A04A TCGA-AN-A0AM TCGA-AN-A0FW 
       26.04         0.07         1.81         2.96         0.16         0.36 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O 
        0.33         0.33         0.33        80.28        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0JE TCGA-AO-A0JM 
       84.69        32.78        21.40        20.32        76.77        71.80 
TCGA-AO-A1KS TCGA-AQ-A0Y5 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW 
        0.53         5.65        49.32         5.26        29.75        98.93 
TCGA-AR-A0U4 TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24R 
       85.97        39.98        63.62        50.89        96.89        87.22 
TCGA-AR-A250 TCGA-AR-A2LK TCGA-AR-A5QM TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB 
       56.15        42.87        54.74       149.59        12.13       129.57 
TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY 
      162.05       100.70       131.21        79.63        17.98       113.79 
TCGA-B6-A0WZ TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0B4 
      129.57       139.17        85.35        54.28        49.94        39.16 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BL TCGA-BH-A0BT TCGA-BH-A0DG TCGA-BH-A0DL 
       37.22        32.02        44.05        45.57        23.44        48.23 
TCGA-BH-A0DS TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0HI TCGA-BH-A0HX TCGA-BH-A0W7 
        2.56        46.19        31.00        20.38        27.25        44.81 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1FM 
       90.84        26.66        69.93        12.00        31.53        45.63 
TCGA-BH-A1FU TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12W 
       72.07        11.77        12.66        11.77        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HI TCGA-C8-A273 TCGA-C8-A27A 
        3.12         1.45         3.75        11.34         9.67        12.20 
TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JD 
       20.88        20.58        14.17        21.14        14.17        18.15 
TCGA-D8-A1JF TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XF 
       12.03        20.12        20.09        18.58        23.90        15.22 
TCGA-D8-A1XL TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z6 
       19.92        12.99        15.32        10.09        12.26        18.51 
TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14P TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A152 
       46.59        40.11        40.96        34.26        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15I TCGA-E2-A15K 
       23.24        19.43        23.34        20.71        17.42         9.04 
TCGA-E2-A1IH TCGA-E2-A1IO TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A2P5 
       33.73        20.98        19.66        18.87       106.75        16.93 
TCGA-E2-A56Z TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NF 
        7.20         9.21        36.82        13.48        36.56        20.05 
TCGA-E9-A1NI TCGA-E9-A1R4 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF 
        9.86         6.12        20.81        40.24        34.65         6.58 
TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 
       21.27        34.13        12.89         0.69        27.22         1.94 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP 
        0.72        17.75         0.23        14.70         0.26        14.40 
TCGA-EW-A1IY TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1PC TCGA-EW-A1PG 
        8.48        29.85        40.41        52.96         6.15        34.55 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-LL-A5YM TCGA-LL-A5YN 
       52.73        25.91        17.49        53.13        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-MS-A51U TCGA-OL-A5RW TCGA-S3-A6ZF TCGA-S3-A6ZG 
       14.47         2.63         2.79        36.36        16.50         6.81 
TCGA-Z7-A8R6 
      105.04 

$`AMP PEAK 21(14Q21.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SP 
       47.24        20.88        13.68        31.79         7.96        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T 
       18.21       104.81        18.02        41.95        82.16        73.84 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       22.06        63.12        55.43        36.13       136.73        64.57 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       24.79       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 
       75.25         5.19        63.45        56.81        21.14        34.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       33.76        28.77       101.72        89.36        80.28       107.61 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV 
       79.76        74.40        37.05        35.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV 
       29.75        24.72        24.16        99.19        54.64        27.12 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 
       50.43        44.28        17.52        17.13         8.38        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       17.46        18.90        20.75        32.55        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       15.42        21.90        14.50        18.61        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       31.73        23.77        23.47        36.79        22.45        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D 
       19.20        19.56        16.47        52.47       107.70        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU 
       91.92        10.59        20.88        33.93        83.01        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       32.75        49.48        38.40        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30        21.30        23.21        26.96        21.14        38.30 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13E 
       35.31        34.29        35.47        37.45        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G 
       12.72        23.61        29.56        31.36        24.26        23.74 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.80        21.73        20.61        22.32        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB 
       10.29        11.28        13.41        14.70        11.97        13.74 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       14.50        21.17        17.92        12.10        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T 
       10.29         9.37         8.75        13.02         1.02        53.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       29.03        26.01         1.02         9.01        43.00        19.99 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O 
       18.97        18.97        14.01        12.00        17.03         9.99 
TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
       10.98         7.99        24.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J 
       36.95        13.02         0.99        28.96        19.96        37.05 
TCGA-A8-A08L TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A093 TCGA-A8-A099 
        9.99         0.99        93.04        40.01        17.95         9.99 
TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
       12.00        49.05        45.07        29.98         1.02        25.02 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
       19.04        15.02        12.00        13.02        21.04         0.99 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
       17.03        38.04         0.95        10.85         2.66         1.48 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
       38.53        38.20        40.57        55.43        36.99        38.79 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       50.70         1.02         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
       24.79         1.55         1.12         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        1.68         1.74         1.12         1.32         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.23         0.33         0.62         1.78         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        7.36         6.51         0.33         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        4.64         7.96         7.00         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP 
        6.02         0.33         0.33         0.33        12.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 
       47.84        68.75        47.87        59.05        29.13        52.18 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       24.16        37.48        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        72.00        21.37        26.24        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       55.33       102.58        99.25       108.72       106.78        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       90.58        77.56        64.04        57.30        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT 
       28.37        14.73        82.62        61.87        70.39        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79        26.93       130.09        15.62        32.52         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TX 
       32.91         9.99       111.32        74.79        86.66        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       55.86        76.14        65.36       101.95        83.87       114.02 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       75.55        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       43.73        43.56        43.07        17.23        37.81        76.21 
TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24N 
       61.28        62.14        20.22       109.58        73.02        78.51 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
       84.20         0.85       101.52        76.01        53.36        85.35 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        83.77        79.00        78.48        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL 
       58.92        93.83       128.65        20.25        62.86         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QN 
       40.04        38.17        39.39        40.54        20.38        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0IA TCGA-B6-A0IC 
       20.45        10.59        77.62       143.38       220.90        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
       65.72       146.50       112.37       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG 
       84.59       110.14       110.93       140.88       211.56        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP 
      189.01       234.28        81.17        78.02       172.96       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX 
      140.48        89.46       157.41        97.48       188.68        21.47 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
      129.70       186.48        28.27        68.94        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
      101.52        73.51       170.17       103.63        55.00        24.53 
TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       38.79        20.45        25.55        28.50        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BD 
       39.55        48.36        56.94        56.98        51.68        18.21 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       25.71        24.85        21.70        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       27.19        53.69        53.95        49.94        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       41.75        44.02        48.13        42.90        45.83        31.17 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       38.01        22.13        13.91        17.26        15.65         3.22 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
       38.47        45.17        47.41        16.27         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI 
       14.30         9.63        44.81        32.65        24.49        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       30.35        10.78        15.16        37.78        35.51        24.56 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO 
       23.08        41.00        52.96        26.50         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX 
       13.61        36.85        12.89        51.32        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
       23.93        24.95        42.35        23.05         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
        7.23        20.12        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO 
       37.55        66.05         7.36        51.39        51.16        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
      113.82        82.85        42.28        55.69        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        89.16        97.48        24.66       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 
       72.07       144.59         6.90         0.72        38.60        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       57.83       130.16        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12V 
      109.28         8.94        11.93        11.77         0.07        12.66 
TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66         1.78         0.69         0.62         3.85        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
       10.92        11.34         0.16        12.03        10.42         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z 
        3.25         0.30         0.23         0.36         0.43         8.28 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.03         0.03         0.03         0.99         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J9 
       11.90        13.25        13.97        13.48        19.20        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH 
       16.50        18.71        15.78        18.90        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       18.97        20.09        19.40        20.38        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA 
       13.32        14.70        17.79        16.73        25.74        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK 
       18.15         2.66        17.16        14.73        21.83        14.50 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       17.69         7.96        16.41        15.85        16.31         6.35 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.16        12.66        16.54        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.14        17.42        16.04        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
        9.44        16.41        13.48         4.80         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       12.53        14.50         7.33        43.00        34.42        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O 
       40.41        37.51        28.44        28.87        47.15        44.68 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W 
       38.24        38.60        33.17        33.30        43.33        32.02 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       31.96        28.60        25.41        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H 
       25.05        22.82        17.29        21.63        18.21        12.92 
TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
       19.40        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       14.07        14.99        60.53        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       32.35        28.50        16.47        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       32.78        33.70        28.44        22.65         3.88        22.19 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        27.42        39.62        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
       28.90       102.61         8.75        43.04         5.52        15.72 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N8 
       30.61        34.92        19.89        19.00        19.20        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ 
       13.12        39.55        12.59        35.77        21.57        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
       14.30         0.62         2.10         1.38         2.76        21.21 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 
       32.09         0.66        34.59        35.64         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       13.32        39.09        22.75        23.51        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        0.85         0.95        24.56         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
        0.62        15.72        12.33        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       39.72        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 
       28.77        25.94        22.82        29.95        41.13        39.78 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA 
       29.82        23.11        18.48        30.08         7.86        18.90 
TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR 
       19.99        13.94        10.52        14.43        19.96        55.00 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 
       22.09        21.27        10.16        10.59         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
       59.57       194.27        53.52        43.04        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 
      110.50        38.20        43.73        69.30        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U 
       13.55        18.12        11.84        11.57        21.24         6.67 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        4.08         4.60         8.75         9.53        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y 
        7.59        17.06        14.79        11.57         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 
        4.50         4.50         5.59         3.22         6.21         7.36 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.10        12.66        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       27.65        34.92        16.87        24.72        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       26.70        23.47        65.62        33.57        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX 
        7.23        14.07        28.21        19.73         0.23         0.16 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 
        0.26         3.95         8.65        10.59         7.92         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        8.52         7.17         6.87         3.91         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 
        9.14       100.01 

  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                        162.05                         234.28 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                         21.14                          22.82 
[1] "0.1 - 162.1 (21.1)" "0.0 - 234.3 (22.8)"
[1] "hr=" "1.2"
D21V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 21(14Q21.1) MUTATED        15        9        2        0        59
  AMP PEAK 21(14Q21.1) WILD-TYPE      68       71        7        5       283
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 21(14Q21.1) MUTATED          50         1         35          7
  AMP PEAK 21(14Q21.1) WILD-TYPE       184         1        107         22
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 21(14Q21.1) MUTATED           18        6         0       5
  AMP PEAK 21(14Q21.1) WILD-TYPE         45       12         1      11
D21V3, multiclass
            clus
vv           AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  STAGE I                              15                             68
  STAGE IA                              9                             71
  STAGE IB                              2                              7
  STAGE II                              0                              5
  STAGE IIA                            59                            283
  STAGE IIB                            50                            184
  STAGE III                             1                              1
  STAGE IIIA                           35                            107
  STAGE IIIB                            7                             22
  STAGE IIIC                           18                             45
  STAGE IV                              6                             12
  STAGE TIS                             0                              1
  STAGE X                               5                             11
[1] 13  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 21(14Q21.1) MUTATED    39 140  20   8
  AMP PEAK 21(14Q21.1) WILD-TYPE 226 454 104  31
D21V4, multiclass
    clus
vv   AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  T1                           39                            226
  T2                          140                            454
  T3                           20                            104
  T4                            8                             31
[1] 4 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  N3
  AMP PEAK 21(14Q21.1) MUTATED    80  70  31  21
  AMP PEAK 21(14Q21.1) WILD-TYPE 401 269  82  53
D21V5, multiclass
    clus
vv   AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  N0                           80                            401
  N1                           70                            269
  N2                           31                             82
  N3                           21                             53
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 21(14Q21.1) MUTATED          0 180   6  21
  AMP PEAK 21(14Q21.1) WILD-TYPE        5 674  13 126
D21V6, multiclass
          clus
vv         AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                180                            674
  M1                                  6                             13
  MX                                 21                            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V7, binary
                                cls
clus                               0   1
  AMP PEAK 21(14Q21.1) MUTATED   205   2
  AMP PEAK 21(14Q21.1) WILD-TYPE 809   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED    205    2
  AMP PEAK 21(14Q21.1) WILD-TYPE  809    9
        clus
vv       AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  FEMALE                          205                            809
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 21(14Q21.1) MUTATED                            0
  AMP PEAK 21(14Q21.1) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 21(14Q21.1) MUTATED                             167
  AMP PEAK 21(14Q21.1) WILD-TYPE                           587
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 21(14Q21.1) MUTATED                               21
  AMP PEAK 21(14Q21.1) WILD-TYPE                            154
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 21(14Q21.1) MUTATED                     0
  AMP PEAK 21(14Q21.1) WILD-TYPE                   6
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 21(14Q21.1) MUTATED                                  8
  AMP PEAK 21(14Q21.1) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 21(14Q21.1) MUTATED                    2              9
  AMP PEAK 21(14Q21.1) WILD-TYPE                 13             35
D21V8, multiclass
                                  clus
vv                                 AMP PEAK 21(14Q21.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             167
  INFILTRATING LOBULAR CARCINOMA                             21
  MEDULLARY CARCINOMA                                         0
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                              9
                                  clus
vv                                 AMP PEAK 21(14Q21.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               587
  INFILTRATING LOBULAR CARCINOMA                              154
  MEDULLARY CARCINOMA                                           6
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V9, binary
                                cls
clus                               0   1
  AMP PEAK 21(14Q21.1) MUTATED    61 146
  AMP PEAK 21(14Q21.1) WILD-TYPE 221 597
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED     61  146
  AMP PEAK 21(14Q21.1) WILD-TYPE  221  597
     clus
vv    AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  NO                            61                            221
  YES                          146                            597
[1] 2 2
[1] FALSE
D21V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 21(14Q21.1) MUTATED                                  0    13
  AMP PEAK 21(14Q21.1) WILD-TYPE                                1    43
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 21(14Q21.1) MUTATED                          31   134
  AMP PEAK 21(14Q21.1) WILD-TYPE                       127   583
D21V11, multiclass
                                  clus
vv                                 AMP PEAK 21(14Q21.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  31
  WHITE                                                     134
                                  clus
vv                                 AMP PEAK 21(14Q21.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                   127
  WHITE                                                       583
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V12, binary
                                cls
clus                               0   1
  AMP PEAK 21(14Q21.1) MUTATED     4 164
  AMP PEAK 21(14Q21.1) WILD-TYPE  32 662
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED      4  164
  AMP PEAK 21(14Q21.1) WILD-TYPE   32  662
                        clus
vv                       AMP PEAK 21(14Q21.1) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          164
                        clus
vv                       AMP PEAK 21(14Q21.1) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            662
[1] 2 2
[1] FALSE

Clustering(22) Variable = AMP PEAK 22(15Q26.3) MUTATION ANALYSIS
D22V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 22(15Q26.3) MUTATED   166  17
  AMP PEAK 22(15Q26.3) WILD-TYPE 720 102
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           183                            822 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                            17                            102 
$`AMP PEAK 22(15Q26.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SN TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04U 
       14.37        48.10        39.32        18.02        73.84        22.06 
TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D4 TCGA-A2-A0EV TCGA-A2-A0SU 
       63.45        21.14        33.76        25.22        31.82        54.64 
TCGA-A2-A0T2 TCGA-A2-A0YE TCGA-A2-A1FW TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A3XS 
        8.38        18.21        17.36        16.31        17.19        33.93 
TCGA-A2-A3XT TCGA-A2-A3XY TCGA-A2-A4RW TCGA-A7-A0CE TCGA-A7-A0D9 TCGA-A7-A0DA 
       83.01        34.98         7.30        35.31        37.45        35.67 
TCGA-A7-A13F TCGA-A7-A3IY TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A6VV TCGA-A7-A6VW 
       12.72        11.34        14.93        21.17        10.29         9.37 
TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A07P 
       10.42        13.02         1.02        17.98        31.00        10.98 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A085 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G 
        8.98        24.99        36.95        38.01        33.01        19.96 
TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A097 TCGA-A8-A09E TCGA-A8-A09K 
        9.99        31.00         0.99        12.00        49.05        29.98 
TCGA-A8-A09M TCGA-AN-A04A TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT 
       33.07         2.96         6.51         0.16         0.33         0.33 
TCGA-AN-A0FJ TCGA-AN-A0FW TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03P TCGA-AO-A03T 
        7.96         0.36         0.33        80.28        84.69        47.87 
TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JM TCGA-AO-A124 
       29.13        52.18        50.70        72.00        71.80       102.58 
TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KQ TCGA-AQ-A04L TCGA-AR-A0TP TCGA-AR-A0TS 
       96.10        64.04        61.87       130.09       111.32        74.79 
TCGA-AR-A0TT TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AV 
       86.66        55.86       101.95        83.87        85.97        61.28 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A254 
       62.14        50.89       101.52        79.00        78.48        72.76 
TCGA-AR-A2LH TCGA-AR-A2LR TCGA-B6-A0I5 TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IO 
       20.25        20.38       149.59       176.98       126.12       110.14 
TCGA-B6-A0RG TCGA-B6-A0WT TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AZ TCGA-BH-A0BF 
       68.45       188.68        24.53        38.79        28.50        25.71 
TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0DL TCGA-BH-A0DS 
       24.85        48.69        53.69        41.75        48.23         2.56 
TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0WA TCGA-BH-A18N TCGA-BH-A18V TCGA-BH-A1EW 
       31.00        30.35        23.05        37.74        51.16        55.69 
TCGA-BH-A1F6 TCGA-BH-A1FD TCGA-BH-A1FH TCGA-C8-A12O TCGA-C8-A130 TCGA-C8-A132 
       97.48        33.17        36.92        12.66         3.12         1.45 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34        11.34         0.16        10.42         2.30         3.25 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A1JA TCGA-D8-A1JB 
        0.36         8.28        12.20        11.90        16.50        18.71 
TCGA-D8-A1JP TCGA-D8-A1X9 TCGA-D8-A1XK TCGA-D8-A27H TCGA-D8-A27N TCGA-D8-A27R 
       21.01        23.90        14.50        13.05         4.80        10.09 
TCGA-E2-A10A TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15D 
       40.41        33.30        32.02        27.12        23.34        17.29 
TCGA-E2-A15E TCGA-E2-A15L TCGA-E2-A1IL TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LH 
       20.71        20.58         3.88        27.42        24.59       106.75 
TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A56Z TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NF 
      102.61        43.04         7.20        12.00        13.12        20.05 
TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RF 
        9.86        14.30         2.10        32.09        40.24         6.58 
TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5UO TCGA-EW-A1IY TCGA-EW-A1J6 
       17.75         0.62        12.33        13.81         8.48        28.77 
TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1PB TCGA-EW-A3U0 TCGA-GM-A2DD 
       22.82        29.82        23.11        19.99        17.49        43.04 
TCGA-GM-A2DF TCGA-GM-A2DK TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FR 
       42.71        62.33        11.44        15.32        14.79         3.88 
TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A6VO TCGA-PL-A8LV 
        6.21         7.36        34.92        36.36        28.21         0.23 
TCGA-PL-A8LX TCGA-S3-AA15 TCGA-W8-A86G 
        0.16         6.87         5.29 

$`AMP PEAK 22(15Q26.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        0.39         8.52        43.43        14.27        47.24        20.88 
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       13.68        31.79         7.96        28.01        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
      104.81        41.95        82.16        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       36.13       136.73        64.57        24.79       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW 
       88.60       107.93        75.55        75.25         5.19        64.04 
TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       56.81        34.55        28.77       101.72        89.36        80.28 
TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU 
      107.61        79.76        74.40        37.05        35.05        34.29 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       29.75        24.72        24.16        99.19        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        44.28        17.52        17.13        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
       17.46        18.90        20.75        32.55        25.28        15.42 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       21.90        21.67        14.50        18.61        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       31.73        23.77        23.47        36.79        22.45        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D 
       19.20        19.56        16.47        52.47       107.70        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY 
       49.48        38.40        31.99        38.37        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG 
       23.21        26.96        21.14        21.90        38.30        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G 
       35.47        30.61        33.11        31.73        10.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       29.56        31.36        24.26        23.74        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF 
       20.61        22.32        10.59        10.29        11.28        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D 
       14.70        11.97        13.74        14.50        17.92        14.73 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T 
       12.10        10.72        11.05         8.75        13.02        53.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       29.03        26.01         1.02        17.03        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
       43.00        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
       17.03         9.99         7.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08J 
       15.06        13.02         0.99        28.96        12.00        37.05 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 
       31.00        33.01        93.04        43.00        40.01        33.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B 
       30.97        17.95        41.98         9.99         9.99        12.00 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
        1.02        50.04        45.07         1.02        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD 
       13.02        21.04         0.99        13.02        17.03        38.04 
TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
        0.95         2.37        10.85         2.66         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM 
       38.20        40.57        55.43        36.99        38.79        26.04 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       50.70         1.02         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       24.79         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR 
        0.69         0.43         1.68         1.74         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C 
        0.33         0.33         0.23         0.33         0.62         1.78 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF 
        1.71         8.02         7.36         0.33         6.44         4.64 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        7.00         7.59         7.17         6.28         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        0.33         0.33         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW 
        0.30         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J2 
       47.84        66.77        81.63        68.75        59.05        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       21.40        24.16        37.48        20.32        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       21.53        50.86        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       62.04        55.33        99.25       108.72       106.78        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       82.62        70.39         0.53        17.79        24.79        26.93 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
        5.65        15.62        32.52         2.56        32.91         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ 
       49.32         5.26        29.75        98.93        64.83        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       65.36       114.02        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
       48.82        62.56        43.73        43.56        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H 
       17.23        37.81        76.21        63.62        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       73.02        96.89        78.51        84.20         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 
       76.01        53.36        85.35        50.96        83.77        56.15 
TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ TCGA-AR-A2LK 
       73.18        58.92        93.83       128.65        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM 
        7.36        40.04        38.17        39.39        40.54        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I9 
       16.04        20.45        10.59        77.62       143.38        12.13 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
      220.90       129.57        50.70        65.72       146.50       112.37 
TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH 
       18.77        84.59       110.93       140.88       211.56       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
      234.28        81.17        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
      140.48       100.70        89.46       131.21       157.41        97.48 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 
       79.63        17.98        21.47       113.79       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
      186.48        28.27        68.94        58.88        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
       73.51       139.17       170.17        85.35        54.28        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 
      103.63        55.00        20.45        25.55        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 
       39.55        39.16        48.36        56.94        56.98        51.68 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
       37.22        32.02        18.21        21.70        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW 
       35.67        27.19        53.95        45.57        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.05        44.02        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP 
       23.44        38.01        22.13        13.91        17.26        15.65 
TCGA-BH-A0DQ TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
        3.22        38.47        45.17        47.41        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       15.68        14.30         9.63        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.49        24.43        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       24.56        23.08        41.00        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
        5.85         2.50        13.61        36.85        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       27.25        50.79         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       44.81         8.81         2.01         7.23        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
       26.66        72.56        30.28        55.63        37.55        66.05 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
        7.36        51.39        69.93        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
       42.28        12.00        49.58        17.69        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        24.66       120.62       114.15        74.73       122.89 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU 
       63.35        55.00        45.63        72.07       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
        6.90         0.72        38.60        83.31        57.83       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V 
       10.65         6.44        20.12         0.99       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U 
       11.93        11.77        11.77        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 
       12.66        12.66        12.66         1.78         0.69         0.62 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HK TCGA-C8-A26V 
        3.85         3.75        12.33        10.92        12.03         0.30 
TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.23         0.43         9.67         0.03         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 
        0.99         0.03         0.23        20.88        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 
       13.97        14.17        13.48        21.14        19.20        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       17.49        15.78        18.15        18.90        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       14.01        18.97        20.09        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
       20.38        12.20        13.32        14.70        18.58        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       16.73        25.74        27.58        18.15         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       15.22        14.73        21.83        19.92        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
       16.41        15.85        16.31         6.35        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       12.66        16.54        15.32        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K 
       14.14        17.42        16.04        13.45        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
       16.41        13.48         0.76        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       14.50        18.51         7.33        43.00        34.42        27.52 
TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
       46.59        37.51        40.11        28.44        28.87        47.15 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U 
       44.68        40.96        38.24        38.60        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 
       34.26        31.96        28.60        17.03        25.41        23.24 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C 
       19.43        21.04        23.87        14.79        25.05        22.82 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       21.63        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T 
        7.73        13.02        19.56        17.06        14.07        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       60.53        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       16.47        17.10        38.30        37.41        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU 
       33.70        28.44        22.65        22.19        20.98        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       54.18        39.62        19.66        40.47        28.90        18.87 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 
        8.75        16.93         5.52        15.72        30.61        34.92 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
       19.89        19.00         9.21        19.20        36.82        13.48 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ 
       36.56        39.55        12.59        35.77        21.57        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB 
        0.62         6.12         1.38         2.76        21.21        20.81 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
        0.66        34.65        21.27        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E 
        0.79        12.53        13.32        39.09        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 
       23.51        24.10        17.06         0.69         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO 
        1.94         0.95        24.56         0.72         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP 
       18.41        15.72         0.23        14.70         0.26        14.40 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       15.39        12.20        39.72        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       16.57        15.68        25.94        29.95        29.85        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 
       41.13        39.78        52.96        18.48        30.08         7.86 
TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       18.90         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       19.96        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA 
       10.16        10.59         7.40       109.87        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        53.52        42.28        61.91        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL 
       77.33        53.36       110.50        38.20        43.73        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP 
       10.95         7.59        17.06        14.70        14.47        11.57 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        2.63         4.14         4.50         4.50         5.59         3.22 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       27.91         2.79         2.10        12.66        46.55        31.99 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       58.62        27.65        16.87        24.72        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       26.70        23.47        65.62        33.57        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
        7.23        14.07        19.73         0.26         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 
        6.81         8.65        10.59         7.92         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        7.17         3.91         9.60         9.14       100.01       105.04 

  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                          0.16                           0.03 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                        188.68                         234.28 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                         24.53                          22.11 
[1] "0.2 - 188.7 (24.5)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.4"
D22V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 22(15Q26.3) MUTATED        18        9        0        0        68
  AMP PEAK 22(15Q26.3) WILD-TYPE      65       71        9        5       274
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 22(15Q26.3) MUTATED          42         1         27          5
  AMP PEAK 22(15Q26.3) WILD-TYPE       192         1        115         24
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 22(15Q26.3) MUTATED           11        4         0       1
  AMP PEAK 22(15Q26.3) WILD-TYPE         52       14         1      15
D22V3, multiclass
            clus
vv           AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  STAGE I                              18                             65
  STAGE IA                              9                             71
  STAGE IB                              0                              9
  STAGE II                              0                              5
  STAGE IIA                            68                            274
  STAGE IIB                            42                            192
  STAGE III                             1                              1
  STAGE IIIA                           27                            115
  STAGE IIIB                            5                             24
  STAGE IIIC                           11                             52
  STAGE IV                              4                             14
  STAGE TIS                             0                              1
  STAGE X                               1                             15
[1] 13  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 22(15Q26.3) MUTATED    39 116  23   9
  AMP PEAK 22(15Q26.3) WILD-TYPE 226 478 101  30
D22V4, multiclass
    clus
vv   AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  T1                           39                            226
  T2                          116                            478
  T3                           23                            101
  T4                            9                             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                              N0  N1  N2  N3
  AMP PEAK 22(15Q26.3) MUTATED    89  61  22  13
  AMP PEAK 22(15Q26.3) WILD-TYPE 392 278  91  61
D22V5, multiclass
    clus
vv   AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  N0                           89                            392
  N1                           61                            278
  N2                           22                             91
  N3                           13                             61
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 22(15Q26.3) MUTATED          2 165   4  16
  AMP PEAK 22(15Q26.3) WILD-TYPE        3 689  15 131
D22V6, multiclass
          clus
vv         AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                165                            689
  M1                                  4                             15
  MX                                 16                            131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V7, binary
                                cls
clus                               0   1
  AMP PEAK 22(15Q26.3) MUTATED   183   4
  AMP PEAK 22(15Q26.3) WILD-TYPE 831   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED    183    4
  AMP PEAK 22(15Q26.3) WILD-TYPE  831    7
        clus
vv       AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  FEMALE                          183                            831
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 22(15Q26.3) MUTATED                            0
  AMP PEAK 22(15Q26.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 22(15Q26.3) MUTATED                             163
  AMP PEAK 22(15Q26.3) WILD-TYPE                           591
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 22(15Q26.3) MUTATED                                8
  AMP PEAK 22(15Q26.3) WILD-TYPE                            167
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 22(15Q26.3) MUTATED                     3
  AMP PEAK 22(15Q26.3) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 22(15Q26.3) MUTATED                                  4
  AMP PEAK 22(15Q26.3) WILD-TYPE                               25
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 22(15Q26.3) MUTATED                    3              5
  AMP PEAK 22(15Q26.3) WILD-TYPE                 12             39
D22V8, multiclass
                                  clus
vv                                 AMP PEAK 22(15Q26.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             163
  INFILTRATING LOBULAR CARCINOMA                              8
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            4
  MUCINOUS CARCINOMA                                          3
  OTHER  SPECIFY                                              5
                                  clus
vv                                 AMP PEAK 22(15Q26.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               591
  INFILTRATING LOBULAR CARCINOMA                              167
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             25
  MUCINOUS CARCINOMA                                           12
  OTHER  SPECIFY                                               39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V9, binary
                                cls
clus                               0   1
  AMP PEAK 22(15Q26.3) MUTATED    56 131
  AMP PEAK 22(15Q26.3) WILD-TYPE 226 612
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED     56  131
  AMP PEAK 22(15Q26.3) WILD-TYPE  226  612
     clus
vv    AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  NO                            56                            226
  YES                          131                            612
[1] 2 2
[1] FALSE
D22V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 22(15Q26.3) MUTATED                                  0    16
  AMP PEAK 22(15Q26.3) WILD-TYPE                                1    40
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 22(15Q26.3) MUTATED                          35   115
  AMP PEAK 22(15Q26.3) WILD-TYPE                       123   602
D22V11, multiclass
                                  clus
vv                                 AMP PEAK 22(15Q26.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      16
  BLACK OR AFRICAN AMERICAN                                  35
  WHITE                                                     115
                                  clus
vv                                 AMP PEAK 22(15Q26.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        40
  BLACK OR AFRICAN AMERICAN                                   123
  WHITE                                                       602
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V12, binary
                                cls
clus                               0   1
  AMP PEAK 22(15Q26.3) MUTATED     4 151
  AMP PEAK 22(15Q26.3) WILD-TYPE  32 675
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED      4  151
  AMP PEAK 22(15Q26.3) WILD-TYPE   32  675
                        clus
vv                       AMP PEAK 22(15Q26.3) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          151
                        clus
vv                       AMP PEAK 22(15Q26.3) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            675
[1] 2 2
[1] FALSE

Clustering(23) Variable = AMP PEAK 23(17P11.2) MUTATION ANALYSIS
D23V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 23(17P11.2) MUTATED   123  19
  AMP PEAK 23(17P11.2) WILD-TYPE 763 100
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                           142                            863 
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                            19                            100 
$`AMP PEAK 23(17P11.2) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SN TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EY 
        0.39        39.32        35.05        34.29        31.82        24.16 
TCGA-A2-A0SY TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YG TCGA-A2-A0YJ TCGA-A2-A0YM 
       44.28        20.75        32.55        21.90        18.61        31.73 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A25B TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A7-A0CD 
       23.47        36.79        16.31        29.98        38.40        38.30 
TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26J TCGA-A7-A3J0 TCGA-A7-A6VV TCGA-A8-A06Q 
       12.72        29.56        20.61        10.29        10.29         1.02 
TCGA-A8-A07P TCGA-A8-A07W TCGA-A8-A086 TCGA-A8-A08G TCGA-A8-A08S TCGA-A8-A08X 
       10.98         9.99        13.02        19.96        33.01        43.00 
TCGA-A8-A093 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09R TCGA-A8-A09X TCGA-AC-A23G 
       17.95        12.00        49.05         8.98        14.01        10.85 
TCGA-AC-A2QH TCGA-AC-A8OP TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0XT TCGA-AO-A03L 
        1.02         1.74         6.02         0.33         0.33        80.28 
TCGA-AO-A0J7 TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A12B TCGA-AO-A12E TCGA-AQ-A1H3 
       20.32        72.00        55.33        77.56        57.30        32.52 
TCGA-AR-A0TQ TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24Z 
       49.32        61.28        63.62       109.58        50.89        79.00 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0RS 
       42.87         7.36        40.04        20.38        54.74       100.70 
TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KI 
       97.48        79.63        21.47       113.79        43.59        73.51 
TCGA-B6-A401 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B6 
       85.35        24.53        20.45        40.83        39.55        56.94 
TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0DD TCGA-BH-A0DP TCGA-BH-A0H7 TCGA-BH-A0HQ 
       45.57        11.67        45.83        15.65        23.08        36.85 
TCGA-BH-A0HW TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1FC 
       51.32        37.74        66.05        49.58        31.53       114.15 
TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FN TCGA-BH-A204 TCGA-C8-A12W TCGA-C8-A132 
      122.89        63.35        72.07        83.31        12.66         1.45 
TCGA-C8-A135 TCGA-D8-A143 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JT 
        0.62        14.17        18.71        15.78        12.03        13.32 
TCGA-D8-A1XB TCGA-D8-A1XM TCGA-D8-A1XS TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y2 
       18.15        17.69        16.31        16.54        15.32        14.24 
TCGA-D8-A27G TCGA-D8-A27N TCGA-D8-A27T TCGA-E2-A107 TCGA-E2-A10C TCGA-E2-A14O 
       13.45         4.80        13.08        34.42        40.11        44.68 
TCGA-E2-A14P TCGA-E2-A14Y TCGA-E2-A15A TCGA-E2-A1LK TCGA-E2-A574 TCGA-E9-A1N9 
       40.96        28.60        23.34         8.75        19.89        13.12 
TCGA-E9-A1R6 TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A54Y TCGA-E9-A5FL 
        2.76        34.65        34.59        34.13         0.23         0.26 
TCGA-E9-A5UO TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 
       13.81        15.68        28.77        29.85        40.41        52.96 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A2FS TCGA-EW-A423 TCGA-GM-A2DC TCGA-GM-A2DK 
       19.99         6.15        52.73        10.16        53.52        62.33 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5RZ 
        5.59         3.22         7.36        27.91         2.79        22.32 
TCGA-OL-A66K TCGA-OL-A6VO TCGA-S3-A6ZG TCGA-S3-A6ZH 
       33.57        28.21         6.81         8.65 

$`AMP PEAK 23(17P11.2) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SP 
       20.88        13.68        31.79         7.96        28.01        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T 
       18.21       104.81        18.02        41.95        82.16        73.84 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       22.06        63.12        64.04        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX 
       75.55        75.25         5.19        63.45        64.04        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       21.14        34.55        33.76        28.77        25.22       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
       89.36        80.28       107.61        79.76        74.40        37.05 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       29.75        24.72        99.19        54.64        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        17.52        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YH 
       17.46        18.90        25.28        18.21        15.42        21.67 
TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FZ 
       14.50        19.33        48.46        23.77        17.36        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       20.25        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ 
       33.93        83.01        32.75        49.48        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       38.37         7.30        24.39        21.30        23.21        26.96 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       21.14        21.90        35.31        34.29        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G 
       37.45        35.67        33.11        31.73        10.72        23.61 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD 
       31.36        24.26        23.74        23.80        21.73        22.32 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       11.34        10.59        11.28        13.41        14.70        11.97 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       14.93        13.74        14.50        21.17        17.92        14.73 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       12.10        10.72        11.05         9.37        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
       13.02        13.02        17.98        53.06        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       26.01         1.02        17.03        53.98         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       19.99        18.97        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
        9.99         8.98         7.99        24.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       15.06        36.95         0.99        38.01        28.96        33.01 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       12.00        37.05         9.99        31.00        31.00         0.99 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A097 
       93.04        40.01        33.01        30.97        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K 
        9.99         9.99         1.02        50.04        45.07        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       33.07         1.02        25.02        19.04        15.02         0.99 
TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 
       12.00        19.04        13.02        21.04         0.99        13.02 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23H TCGA-AC-A2B8 
       17.03        38.04         0.95         2.37         2.66         1.48 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
       38.53        38.20        40.57        55.43        36.99        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       26.04        50.70         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       24.79         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X 
        0.69         0.43         1.68         1.12         1.32         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C 
        0.33         0.23         0.33         0.62         2.96         1.78 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        1.71         8.02         7.36         6.51         0.16         0.33 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK 
        0.33         0.33         6.44         4.64         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        7.59         7.17         6.28         0.36         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N 
        0.33         0.33         5.33         5.59        47.84        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       81.63        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       32.78        21.40        52.18        24.16        37.48        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.70        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       26.24        50.24        62.04        71.80       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F 
      108.72       106.78        96.10        90.58        64.04        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
       41.62        28.37        14.73        82.62        61.87        70.39 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
        0.53        17.79        24.79        26.93       130.09         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR 
       15.62         2.56        32.91         9.99       111.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
       74.79        86.66        29.75        98.93        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       76.14        65.36       101.95        83.87       114.02        85.97 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       75.55        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS 
       43.73        43.56        39.98        43.07        17.23        37.81 
TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       76.21        62.14        20.22        73.02        96.89        78.51 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U 
       84.20         0.85       101.52        87.22        76.01        53.36 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       85.35        50.96        83.77        56.15        78.48        73.18 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       72.76        58.92        93.83       128.65        20.25        62.86 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       38.17        39.39        40.54        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       77.62       143.38       149.59        12.13       220.90       129.57 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK 
       50.70        65.72       146.50       112.37       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      126.12        84.59       110.14       110.93       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
       68.45       189.01       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      162.05       102.77       140.48        89.46       131.21       157.41 
TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68        17.98       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 
       68.94        58.88       101.52       139.17       170.17        54.28 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ 
       49.94       103.63        55.00        38.79        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       46.95        39.16        48.36        56.98        51.68        37.22 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
       32.02        18.21        25.71        24.85        21.70        44.05 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       61.68        35.67        48.69        27.19        53.69        53.95 
TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
       49.94        49.05        41.75        44.02        48.13        42.90 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       31.17        23.44        38.01        22.13        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       16.27         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       46.19        32.65        24.49        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       10.78        15.16        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       52.96        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       12.89        27.25        50.79         5.59        23.93        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       42.35        44.81        23.05         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q 
       20.12        90.84        26.66        72.56        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO 
       37.55         7.36        51.39        51.16        69.93        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY 
      113.82        82.85        42.28        12.00        55.69        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD 
       25.81        89.16        97.48        24.66       120.62        33.17 
TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU 
       74.73        36.92        55.00        45.63       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        6.90         0.72        38.60        57.83       130.16        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L 
        6.44        20.12         0.99       109.28         8.94        11.93 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U 
       11.77        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A137 
       12.66        12.66         3.12         1.78         0.69         3.85 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        3.75        12.33        10.92        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.03        10.42         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
        0.36         0.43         8.28         9.67         0.03         0.03 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03        12.20         0.99         0.03         0.23        11.90 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 
       20.88        13.25        20.58        13.97        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE 
       19.20        14.17        17.49        16.50        18.15        18.90 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL 
       12.03        14.01        18.97        20.09        20.12        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 
       19.40        20.38        21.01        12.20        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC 
       17.79        16.73        25.74        23.90        27.58         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL 
       17.16        15.22        14.73        21.83        14.50        19.92 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
        7.96        16.41        15.85         6.35        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
       12.66        15.52         3.81        14.14        17.42        16.04 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P 
       13.05        14.43         9.44        16.41        13.48         0.76 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
       10.09        12.53        12.26        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E 
       43.00        27.52        46.59        40.41        37.51        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
       28.87        47.15        38.24        38.60        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 
       43.33        34.26        32.02        31.96        17.03        25.41 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       27.12        23.24        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G 
       25.05        22.82        17.29        20.71        21.63        18.21 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       12.92        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ 
       13.02        19.56        17.06        14.07        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       53.62        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II 
       17.10        38.30        37.41        32.78        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU 
       28.44        22.65         3.88        22.19        20.98        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       54.18        27.42        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 
       28.90        18.87       106.75       102.61        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 
        5.52        15.72         7.20        30.61        34.92        19.00 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA 
        9.21        19.20        36.82        13.48        12.00        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       39.55        12.59        35.77        20.05        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       11.90        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF 
       21.21        32.09        20.81        40.24         0.66         6.58 
TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       21.27        35.64         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
       22.75        12.89        23.51        24.10        17.06         0.69 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.85        27.22         1.94         0.95        24.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
       17.75         0.76        26.07        18.41         0.62        15.72 
TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       12.33        14.70        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1OV 
        8.48        18.21        18.90        13.25        16.57        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 
       22.82        29.95        41.13        39.78        29.82        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE 
       18.48        30.08         7.86        18.90        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW 
       14.43        34.55        19.96        55.00        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 
       21.27        17.49        10.59         7.40       109.87        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI 
      194.27        53.13        43.04        42.71        42.28        61.91 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       43.73        69.30        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 
       11.84        11.57        21.24         6.67         4.08         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.75         9.53        11.44        10.95         7.59        17.06 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ 
       15.32        14.70        14.47        14.79        11.57         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-OK-A5Q2 
        3.88         4.14         4.50         4.50         6.21         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       36.36        16.87        24.72        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ 
       65.62        31.07        26.04         7.23        14.07        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z 
        0.23         0.16         0.26         3.95        16.50        10.59 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
        7.92         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                          0.23                           0.03 
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                        122.89                         234.28 
  AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE 
                         26.22                          22.09 
[1] "0.2 - 122.9 (26.2)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.4"
D23V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 23(17P11.2) MUTATED        10        7        1        2        47
  AMP PEAK 23(17P11.2) WILD-TYPE      73       73        8        3       295
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 23(17P11.2) MUTATED          32         1         26          4
  AMP PEAK 23(17P11.2) WILD-TYPE       202         1        116         25
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 23(17P11.2) MUTATED           11        1         0       1
  AMP PEAK 23(17P11.2) WILD-TYPE         52       17         1      15
D23V3, multiclass
            clus
vv           AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  STAGE I                              10                             73
  STAGE IA                              7                             73
  STAGE IB                              1                              8
  STAGE II                              2                              3
  STAGE IIA                            47                            295
  STAGE IIB                            32                            202
  STAGE III                             1                              1
  STAGE IIIA                           26                            116
  STAGE IIIB                            4                             25
  STAGE IIIC                           11                             52
  STAGE IV                              1                             17
  STAGE TIS                             0                              1
  STAGE X                               1                             15
[1] 13  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 23(17P11.2) MUTATED    31  80  26   6
  AMP PEAK 23(17P11.2) WILD-TYPE 234 514  98  33
D23V4, multiclass
    clus
vv   AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  T1                           31                            234
  T2                           80                            514
  T3                           26                             98
  T4                            6                             33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  AMP PEAK 23(17P11.2) MUTATED    60  51  17  11
  AMP PEAK 23(17P11.2) WILD-TYPE 421 288  96  63
D23V5, multiclass
    clus
vv   AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  N0                           60                            421
  N1                           51                            288
  N2                           17                             96
  N3                           11                             63
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 23(17P11.2) MUTATED          0 118   1  24
  AMP PEAK 23(17P11.2) WILD-TYPE        5 736  18 123
D23V6, multiclass
          clus
vv         AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                118                            736
  M1                                  1                             18
  MX                                 24                            123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V7, binary
                                cls
clus                               0   1
  AMP PEAK 23(17P11.2) MUTATED   140   3
  AMP PEAK 23(17P11.2) WILD-TYPE 874   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(17P11.2) MUTATED    140    3
  AMP PEAK 23(17P11.2) WILD-TYPE  874    8
        clus
vv       AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  FEMALE                          140                            874
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 23(17P11.2) MUTATED                            0
  AMP PEAK 23(17P11.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 23(17P11.2) MUTATED                             109
  AMP PEAK 23(17P11.2) WILD-TYPE                           645
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 23(17P11.2) MUTATED                               22
  AMP PEAK 23(17P11.2) WILD-TYPE                            153
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 23(17P11.2) MUTATED                     1
  AMP PEAK 23(17P11.2) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 23(17P11.2) MUTATED                                  1
  AMP PEAK 23(17P11.2) WILD-TYPE                               28
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 23(17P11.2) MUTATED                    3              7
  AMP PEAK 23(17P11.2) WILD-TYPE                 12             37
D23V8, multiclass
                                  clus
vv                                 AMP PEAK 23(17P11.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             109
  INFILTRATING LOBULAR CARCINOMA                             22
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            1
  MUCINOUS CARCINOMA                                          3
  OTHER  SPECIFY                                              7
                                  clus
vv                                 AMP PEAK 23(17P11.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               645
  INFILTRATING LOBULAR CARCINOMA                              153
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             28
  MUCINOUS CARCINOMA                                           12
  OTHER  SPECIFY                                               37
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V9, binary
                                cls
clus                               0   1
  AMP PEAK 23(17P11.2) MUTATED    49  94
  AMP PEAK 23(17P11.2) WILD-TYPE 233 649
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(17P11.2) MUTATED     49   94
  AMP PEAK 23(17P11.2) WILD-TYPE  233  649
     clus
vv    AMP PEAK 23(17P11.2) MUTATED AMP PEAK 23(17P11.2) WILD-TYPE
  NO                            49                            233
  YES                           94                            649
[1] 2 2
[1] FALSE
D23V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 23(17P11.2) MUTATED                                  0     5
  AMP PEAK 23(17P11.2) WILD-TYPE                                1    51
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 23(17P11.2) MUTATED                          23   102
  AMP PEAK 23(17P11.2) WILD-TYPE                       135   615
D23V11, multiclass
                                  clus
vv                                 AMP PEAK 23(17P11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                       5
  BLACK OR AFRICAN AMERICAN                                  23
  WHITE                                                     102
                                  clus
vv                                 AMP PEAK 23(17P11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        51
  BLACK OR AFRICAN AMERICAN                                   135
  WHITE                                                       615
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V12, binary
                                cls
clus                               0   1
  AMP PEAK 23(17P11.2) MUTATED     5 114
  AMP PEAK 23(17P11.2) WILD-TYPE  31 712
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(17P11.2) MUTATED      5  114
  AMP PEAK 23(17P11.2) WILD-TYPE   31  712
                        clus
vv                       AMP PEAK 23(17P11.2) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                          114
                        clus
vv                       AMP PEAK 23(17P11.2) WILD-TYPE
  HISPANIC OR LATINO                                 31
  NOT HISPANIC OR LATINO                            712
[1] 2 2
[1] FALSE

Clustering(24) Variable = AMP PEAK 24(17Q12) MUTATION ANALYSIS
D24V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 24(17Q12) MUTATED   272  40
  AMP PEAK 24(17Q12) WILD-TYPE 614  79
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                         312                          693 
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                          40                           79 
$`AMP PEAK 24(17Q12) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO 
        0.39        47.24        13.68         7.96        39.32        28.01 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 
       64.04        55.43        75.25         5.19        56.81        34.55 
TCGA-A2-A0D4 TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0SY 
       25.22        35.05        34.29        31.82        24.16        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YE TCGA-A2-A0YG 
       17.13        18.71        20.75        32.55        18.21        21.90 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25E 
       18.61        31.73        36.79        20.25        19.20        91.92 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A7-A0CD TCGA-A7-A13D 
       29.98        32.75        38.40        31.99        38.30        31.73 
TCGA-A7-A13F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A4SA 
       12.72        23.80        20.61        22.32        10.29        14.93 
TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A8-A06O TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A076 
       13.74        17.92        13.02        29.03         1.02        53.98 
TCGA-A8-A07B TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R 
       43.00        18.97        14.01         9.99        10.98         8.98 
TCGA-A8-A07W TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J 
        9.99        13.02        38.01        33.01        19.96        37.05 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 
       31.00         0.99        33.01        43.00        30.97        17.95 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M 
       12.00         9.99        12.00        49.05        45.07        33.07 
TCGA-A8-A09R TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
        8.98        21.04         0.99        17.03        38.04         0.95 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2FB TCGA-AC-A2FM TCGA-AC-A2QJ TCGA-AC-A3W5 
       10.85         2.66        40.57        26.04         2.27        16.57 
TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0FT TCGA-AN-A0FV 
        1.12         0.23         0.62         1.78         6.02         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03P TCGA-AO-A0J7 
        0.33         0.33         0.33        80.28        84.69        20.32 
TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A12B TCGA-AO-A12D 
       76.77        55.33        71.80       102.58        77.56        64.04 
TCGA-AO-A12E TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       57.30        61.87         0.53        24.79         5.65        32.52 
TCGA-AR-A0TQ TCGA-AR-A0TX TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW 
       49.32        64.83        83.87        51.25        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24P TCGA-AR-A24U 
       62.14       109.58        50.89        73.02         0.85        53.36 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LJ 
       85.35        79.00        56.15        72.76        58.92        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0IG TCGA-B6-A0IN 
       42.87         7.36        77.62        12.13       146.50        84.59 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RS TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC 
       68.45       189.01       100.70       113.79       186.48        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AU 
      101.52        73.51       139.17        85.35        54.28        24.53 
TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0BT TCGA-BH-A0BW 
       20.45        28.50        39.16        56.98        45.57        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DP 
       49.05        41.75        42.90        45.83        31.17        15.65 
TCGA-BH-A0DZ TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
       16.27        31.00        23.08        36.85        12.89        51.32 
TCGA-BH-A0HY TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S 
       50.79        26.66        37.74        30.28        37.55        66.05 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 
       51.39        69.93        12.00        55.69        49.58        25.81 
TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FN TCGA-BH-A1FU 
       31.53       114.15       122.89        63.35        72.07        72.07 
TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O 
        0.72        83.31         0.99        11.93        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A135 
       11.77         0.07        12.66         3.12         1.45         0.62 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HL 
        3.85         3.75        10.92        11.34        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A275 
        2.30         3.25         0.23         0.36         8.28         0.03 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A147 
        0.03        12.20         0.23        13.25        14.17        19.20 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG 
       17.49        16.50        18.71        15.78        12.03        12.03 
TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ 
       13.32        18.58        23.90        18.15        15.22        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1Y2 
       19.92        17.69        16.31         6.35        16.54        14.24 
TCGA-D8-A27G TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A105 
       13.45         4.80        10.09        13.08        12.26        43.00 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14T 
       34.42        46.59        40.11        44.68        40.96        33.30 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A15A 
       34.26        32.02        28.60        27.12        23.24        23.34 
TCGA-E2-A15E TCGA-E2-A15H TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1IG 
       20.71        12.92        14.99        53.62        53.03        32.78 
TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LK 
       33.73        28.44        24.59        40.47        28.90         8.75 
TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R4 
        7.20        19.89        13.48        11.90         0.62         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH 
        1.38         2.76        21.21        34.65         6.58        34.59 
TCGA-E9-A1RI TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y 
       35.64        12.53        22.75         0.72        17.75         0.23 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1IW TCGA-EW-A1J2 TCGA-EW-A1J3 
        0.26        13.81        14.40        12.20        13.25        16.57 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 
       15.68        28.77        29.85        40.41        52.96        23.11 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A423 
        6.15        13.94        19.96        55.00        52.73        10.16 
TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DK TCGA-JL-A3YW TCGA-LD-A9QF TCGA-LL-A5YM 
      194.27        53.52        62.33        11.84         8.75        15.32 
TCGA-LL-A5YN TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       14.70         3.22         2.79        24.72        22.32        20.38 
TCGA-OL-A66K TCGA-OL-A6VO TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA14 
       33.57        28.21         6.81         8.65         7.92         7.17 

$`AMP PEAK 24(17Q12) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI 
        8.52        14.37        43.43        48.10        14.27        20.88 
TCGA-A1-A0SK TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
       31.79        19.20        18.21       104.81        18.02        41.95 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        73.84        22.06        63.12        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.55        63.45        64.04        21.14        33.76        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
      101.72        89.36        80.28       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV 
       37.05        29.75        24.72        99.19        54.64        27.12 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.88        50.43        17.52         8.38        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK 
       18.90        25.28        15.42        21.67        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A1G4 
       48.46        23.77        23.47        17.36        22.45        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XW 
       10.59        20.88        39.65        33.93        83.01        49.48 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       34.98        38.37         7.30        24.39        21.30        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       26.96        21.14        21.90        35.31        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G 
       30.61        37.45        35.67        33.11        10.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A3IY 
       29.56        31.36        24.26        23.74        21.73        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SD 
       10.59        11.28        13.41        14.70        11.97        14.50 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       21.17        14.73        12.10        10.72        11.05        10.29 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R 
        9.37        10.42         8.75        13.02         1.02        17.98 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07E 
       53.06        31.00        26.01        17.03         9.01        19.99 
TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z 
       18.97        12.00        17.03         7.99        24.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08I 
       18.05        15.06        36.95         0.99        28.96        12.00 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 
        9.99        31.00        93.04        40.01        33.01        41.98 
TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
        9.99         1.02        50.04        29.98         1.02        25.02 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
       13.02        13.02         2.37         1.48        38.53        38.20 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       55.43        36.99        38.79        50.70         1.02         0.92 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 
        0.99         0.69        14.83        22.19         1.12        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y 
       23.24        24.79         1.55         0.07         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR 
        1.18         0.69         0.43         1.68         1.74         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ 
        0.33         0.33         0.33         2.96         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        7.36         6.51         0.16         0.33         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN 
        6.44         4.64         7.96         7.00         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XN TCGA-AN-A0XO 
        6.28         0.36         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW 
        0.30         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       47.84        66.77        81.63        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 
       29.13        32.78        21.40        52.18        24.16        37.48 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
       22.36        53.03        21.53        50.70        50.86        72.00 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 
       21.37        26.24        50.24        62.04        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
      106.78        96.10        90.58        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L 
       14.73        82.62        70.39        17.79        26.93       130.09 
TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR 
       15.62         2.56        32.91         9.99       111.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ 
       74.79        86.66        29.75        98.93        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       65.36       101.95       114.02        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       52.77        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24M 
       43.07        17.23        37.81        76.21        20.22        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W 
       78.51        84.20       101.52        87.22        76.01        50.96 
TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       83.77        78.48        73.18        93.83       128.65        20.25 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       40.04        38.17        39.39        40.54        20.38        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA 
       16.04        20.45        10.59       143.38       149.59       220.90 
TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK 
      129.57        50.70        65.72       112.37       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RI 
      126.12       110.14       110.93       140.88       211.56       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
       89.46       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 
       17.98        21.47       129.57       129.70        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
       58.88       170.17        49.94       103.63        55.00        38.79 
TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 
       25.55        46.95        40.83        39.55        48.36        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       51.68        37.22        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       21.70        44.05        61.68        35.67        48.69        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DG 
       53.69        53.95        49.94        44.02        48.13        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DQ 
       38.01        22.13        13.91        48.23        17.26         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       14.30         9.63        44.81        46.19        32.65        24.49 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.43        30.35        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       24.56        41.00        52.96        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
        2.50        13.61        27.25         5.59        23.93        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       42.35        44.81        23.05         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V 
       20.12        90.84        72.56        55.63         7.36        51.16 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F5 
       91.99       113.82        82.85        42.28        17.69        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH 
       97.48        24.66       120.62        33.17        74.73        36.92 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A208 
       55.00        45.63       144.59         6.90        38.60        57.83 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
      130.16        10.65         6.44        20.12       109.28         8.94 
TCGA-C8-A12N TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 
       11.77        12.66        12.66        12.66         1.78         0.69 
TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A273 
       12.33        11.34         0.16         0.30         0.43         9.67 
TCGA-C8-A274 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 
        0.03         0.99         0.03        11.90        20.88        20.58 
TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JD TCGA-D8-A1JE 
       13.97        13.48        21.14        14.17        18.15        18.90 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       14.01        18.97        20.09        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 
       20.38        21.01        12.20        14.70        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XK 
       25.74        27.58         2.66        17.16        14.73        14.50 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
        7.96        16.41        15.85        12.99        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
       15.32        15.52         3.81        14.14        17.42        16.04 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P 
       13.05        14.43         9.44        16.41        13.48         0.76 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10A 
       12.53        14.50        18.51         7.33        27.52        40.41 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R 
       37.51        28.44        28.87        47.15        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 
       33.17        43.33        31.96        17.03        25.41        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        25.05        22.82        17.29 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       21.63        18.21        17.42        19.40         9.04        20.58 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ 
        7.73        13.02        19.56        17.06        14.07        60.53 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1II TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO 
       37.41        33.70        22.65         3.88        22.19        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG 
       11.08        54.18        27.42        39.62        19.66        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      106.75       102.61        43.04        16.93         5.52        15.72 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       30.61        34.92        19.00         9.21        19.20        36.82 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       12.00        13.12        36.56        39.55        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA 
       20.05        21.57         9.86        14.30         2.10        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A227 
       20.81        40.24         0.66        21.27        34.13         0.79 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       13.32        39.09        12.89        23.51        24.10        17.06 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
        0.69         0.85        27.22         1.94         0.95        24.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X 
        0.76        26.07        18.41         0.62        15.72        12.33 
TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       14.70        15.39        39.72         8.48        18.21        18.90 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 
       25.94        22.82        29.95        41.13        39.78        29.82 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PE 
       18.48        30.08         7.86        18.90        19.99        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
       14.43        34.55        25.91        22.09        21.27        17.49 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DD 
       10.59         7.40       109.87        59.57        53.13        43.04 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.71        42.28        61.91        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN 
       53.36       110.50        38.20        43.73        69.30        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U 
       72.03        13.55        18.12        11.57        21.24         6.67 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.08         4.60         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR 
       17.06        14.47        14.79        11.57         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 
        4.14         4.50         4.50         5.59         6.21         7.36 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.10        12.66        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I 
       27.65        34.92        36.36        16.87        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ 
       65.62        31.07        26.04         7.23        14.07        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z 
        0.23         0.16         0.26         3.95        16.50        10.59 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        5.56         8.52         6.87         3.91         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                      194.27                       234.28 
  AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE 
                      22.535                       22.360 
[1] "0.0 - 194.3 (22.5)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.4"
D24V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 24(17Q12) MUTATED        20       16        2        2       117
  AMP PEAK 24(17Q12) WILD-TYPE      63       64        7        3       225
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 24(17Q12) MUTATED          76         1         47         10
  AMP PEAK 24(17Q12) WILD-TYPE       158         1         95         19
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 24(17Q12) MUTATED           20        4         0       4
  AMP PEAK 24(17Q12) WILD-TYPE         43       14         1      12
D24V3, multiclass
            clus
vv           AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  STAGE I                            20                           63
  STAGE IA                           16                           64
  STAGE IB                            2                            7
  STAGE II                            2                            3
  STAGE IIA                         117                          225
  STAGE IIB                          76                          158
  STAGE III                           1                            1
  STAGE IIIA                         47                           95
  STAGE IIIB                         10                           19
  STAGE IIIC                         20                           43
  STAGE IV                            4                           14
  STAGE TIS                           0                            1
  STAGE X                             4                           12
[1] 13  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 24(17Q12) MUTATED    70 201  34  14
  AMP PEAK 24(17Q12) WILD-TYPE 195 393  90  25
D24V4, multiclass
    clus
vv   AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  T1                         70                          195
  T2                        201                          393
  T3                         34                           90
  T4                         14                           25
[1] 4 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  N3
  AMP PEAK 24(17Q12) MUTATED   134 120  34  21
  AMP PEAK 24(17Q12) WILD-TYPE 347 219  79  53
D24V5, multiclass
    clus
vv   AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  N0                        134                          347
  N1                        120                          219
  N2                         34                           79
  N3                         21                           53
[1] 4 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                           CM0 (I+)  M0  M1  MX
  AMP PEAK 24(17Q12) MUTATED          2 280   4  33
  AMP PEAK 24(17Q12) WILD-TYPE        3 574  15 114
D24V6, multiclass
          clus
vv         AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  CM0 (I+)                          2                            3
  M0                              280                          574
  M1                                4                           15
  MX                               33                          114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V7, binary
                              cls
clus                             0   1
  AMP PEAK 24(17Q12) MUTATED   311   8
  AMP PEAK 24(17Q12) WILD-TYPE 703   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 24(17Q12) MUTATED    311    8
  AMP PEAK 24(17Q12) WILD-TYPE  703    3
        clus
vv       AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  FEMALE                        311                          703
  MALE                            8                            3
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 24(17Q12) MUTATED                            0
  AMP PEAK 24(17Q12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 24(17Q12) MUTATED                             264
  AMP PEAK 24(17Q12) WILD-TYPE                           490
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 24(17Q12) MUTATED                               36
  AMP PEAK 24(17Q12) WILD-TYPE                            139
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 24(17Q12) MUTATED                     1
  AMP PEAK 24(17Q12) WILD-TYPE                   5
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 24(17Q12) MUTATED                                  3
  AMP PEAK 24(17Q12) WILD-TYPE                               26
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 24(17Q12) MUTATED                    4             11
  AMP PEAK 24(17Q12) WILD-TYPE                 11             33
D24V8, multiclass
                                  clus
vv                                 AMP PEAK 24(17Q12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           264
  INFILTRATING LOBULAR CARCINOMA                           36
  MEDULLARY CARCINOMA                                       1
  MIXED HISTOLOGY (PLEASE SPECIFY)                          3
  MUCINOUS CARCINOMA                                        4
  OTHER  SPECIFY                                           11
                                  clus
vv                                 AMP PEAK 24(17Q12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             490
  INFILTRATING LOBULAR CARCINOMA                            139
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           26
  MUCINOUS CARCINOMA                                         11
  OTHER  SPECIFY                                             33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V9, binary
                              cls
clus                             0   1
  AMP PEAK 24(17Q12) MUTATED    95 224
  AMP PEAK 24(17Q12) WILD-TYPE 187 519
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 24(17Q12) MUTATED     95  224
  AMP PEAK 24(17Q12) WILD-TYPE  187  519
     clus
vv    AMP PEAK 24(17Q12) MUTATED AMP PEAK 24(17Q12) WILD-TYPE
  NO                          95                          187
  YES                        224                          519
[1] 2 2
[1] FALSE
D24V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 24(17Q12) MUTATED                                  1    29
  AMP PEAK 24(17Q12) WILD-TYPE                                0    27
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 24(17Q12) MUTATED                          43   205
  AMP PEAK 24(17Q12) WILD-TYPE                       115   512
D24V11, multiclass
                                  clus
vv                                 AMP PEAK 24(17Q12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                    29
  BLACK OR AFRICAN AMERICAN                                43
  WHITE                                                   205
                                  clus
vv                                 AMP PEAK 24(17Q12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      27
  BLACK OR AFRICAN AMERICAN                                 115
  WHITE                                                     512
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V12, binary
                              cls
clus                             0   1
  AMP PEAK 24(17Q12) MUTATED    11 250
  AMP PEAK 24(17Q12) WILD-TYPE  25 576
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 24(17Q12) MUTATED     11  250
  AMP PEAK 24(17Q12) WILD-TYPE   25  576
                        clus
vv                       AMP PEAK 24(17Q12) MUTATED
  HISPANIC OR LATINO                             11
  NOT HISPANIC OR LATINO                        250
                        clus
vv                       AMP PEAK 24(17Q12) WILD-TYPE
  HISPANIC OR LATINO                               25
  NOT HISPANIC OR LATINO                          576
[1] 2 2
[1] FALSE

Clustering(25) Variable = AMP PEAK 25(17Q23.1) MUTATION ANALYSIS
D25V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 25(17Q23.1) MUTATED   346  52
  AMP PEAK 25(17Q23.1) WILD-TYPE 540  67
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                           398                            607 
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                            52                             67 
$`AMP PEAK 25(17Q23.1) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO 
        0.39        47.24        13.68         7.96        39.32        28.01 
TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CT TCGA-A2-A0CU 
       82.16        22.06        55.43        36.13        75.25         5.19 
TCGA-A2-A0CX TCGA-A2-A0D2 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU 
       56.81        33.76        25.22        79.76        35.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0T7 
       31.82        54.64        44.88        17.52        18.71        20.75 
TCGA-A2-A0YC TCGA-A2-A0YG TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW 
       32.55        21.90        48.46        31.73        23.77        17.36 
TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A25E 
       36.79        20.25        52.47        16.31        18.15        91.92 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A4S1 
       83.01        29.98        32.75        38.40        31.99        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26H 
       21.90        38.30        30.61        35.67        12.72        23.80 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD 
       20.61        22.32        10.29        14.93        13.74        14.50 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06U 
       17.92        14.73        12.10        13.02        17.98        29.03 
TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07G 
       31.00         1.02        53.98         9.01        43.00        18.97 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A07Z 
       14.01        17.03        10.98         8.98         9.99        28.04 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L 
       36.95        13.02        33.01        19.96        37.05         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A092 TCGA-A8-A093 
       31.00        31.00         0.99        33.01        30.97        17.95 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
       12.00         9.99        12.00        50.04        49.05        45.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W 
       29.98        33.07         1.02        25.02         8.98         0.99 
TCGA-A8-A09X TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       14.01         0.99        17.03        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A62V TCGA-AC-A6IV 
        2.66        26.04         1.02         2.27         0.07         1.18 
TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        1.74         0.23         0.62         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        8.02         0.16         6.44         6.02         0.33         0.36 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33         0.33         0.33         0.33         0.33         5.59 
TCGA-AO-A03L TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J3 
       80.28        84.69        68.75        47.87        32.78        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JG TCGA-AO-A0JJ 
       52.18        24.16        20.32        50.70        26.24        62.04 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A1KQ TCGA-AO-A1KR 
       71.80       102.58        77.56        57.30        61.87        70.39 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54O 
        0.53        24.79        26.93         5.65        32.52        32.91 
TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U2 TCGA-AR-A0U4 
       49.32        86.66        98.93        55.86        83.87        85.97 
TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
       51.25        61.28        63.62       109.58        50.89        73.02 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 
        0.85       101.52        87.22        85.35        79.00        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LJ TCGA-AR-A2LK 
       73.18        72.76        58.92        93.83        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LR TCGA-B6-A0I9 TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK 
        7.36        20.38        12.13        65.72       146.50        18.77 
TCGA-B6-A0IO TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RS TCGA-B6-A0RV 
      110.14       211.56        68.45       189.01       100.70       157.41 
TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU 
       79.63       113.79       186.48        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       85.35        54.28        24.53        20.45        25.55        28.50 
TCGA-BH-A0B4 TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BT 
       39.16        32.02        25.71        24.85        48.69        45.57 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       11.67        49.05        41.75        48.13        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DP TCGA-BH-A0DZ 
       31.17        23.44        22.13        13.91        15.65        16.27 
TCGA-BH-A0E2 TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
       14.30        23.08        26.50        36.85        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18L TCGA-BH-A18N 
       27.25        50.79        23.05         2.01        26.66        37.74 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EV 
       55.63        37.55        66.05        51.39        69.93        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FG TCGA-BH-A1FH 
       55.69        49.58        31.53       114.15       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 
       63.35        45.63        72.07         0.72        38.60        83.31 
TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P 
      130.16         0.99        11.93        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A135 TCGA-C8-A138 
        0.07        12.66        12.66         3.12         0.62         3.75 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
       10.92        11.34        11.34        12.03        10.42         2.30 
TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 
        3.25         0.36         8.28         9.67         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A143 
       12.20         0.23        11.90        13.25        13.97        14.17 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.71        15.78        12.03        12.03        20.09        20.12 
TCGA-D8-A1JT TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XM 
       13.32        16.73        23.90        18.15        15.22        17.69 
TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1Y2 TCGA-D8-A27G 
       16.41        16.31         6.35        16.54        14.24        13.45 
TCGA-D8-A27H TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A105 
       13.05         4.80        10.09        12.53        12.26        43.00 
TCGA-E2-A107 TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T 
       34.42        40.11        44.68        40.96        38.60        33.30 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A15A 
       34.26        32.02        28.60        23.24        21.04        23.34 
TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B5 
       12.92        14.07        14.99        53.62        53.03        32.35 
TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1LA TCGA-E2-A1LK 
       38.30        32.78        33.73        28.44        24.59         8.75 
TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI 
        7.20        19.89        12.00        36.56        20.05         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
       11.90         0.62         6.12         1.38         2.76        21.21 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A228 
       34.65         6.58        34.59        35.64        34.13        12.53 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       39.09        22.75        12.89        17.06         0.69        27.22 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP 
        0.72        17.75         0.23         0.26        13.81        14.40 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OX 
       18.90        13.25        15.68        28.77        22.82        29.95 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1PB 
       29.85        40.41        52.96        29.82        23.11        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV 
        6.15        13.94        34.55        19.96        52.73        25.91 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DC 
       17.49        10.16         7.40       109.87       194.27        53.52 
TCGA-GM-A2DK TCGA-GM-A2DO TCGA-GM-A3XL TCGA-LD-A7W5 TCGA-LL-A5YM TCGA-LL-A5YN 
       62.33        53.36        69.30         4.08        15.32        14.70 
TCGA-LL-A5YP TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U 
       14.79         4.14         5.59         3.22        27.91         2.79 
TCGA-OL-A5RZ TCGA-OL-A66K TCGA-OL-A66P TCGA-OL-A6VO TCGA-PL-A8LZ TCGA-S3-A6ZG 
       22.32        33.57        14.07        28.21         3.95         6.81 
TCGA-S3-A6ZH TCGA-S3-AA10 
        8.65         7.92 

$`AMP PEAK 25(17Q23.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI 
        8.52        14.37        43.43        48.10        14.27        20.88 
TCGA-A1-A0SK TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
       31.79        19.20        18.21       104.81        18.02        41.95 
TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       73.84        63.12        64.04       136.73        64.57        24.79 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CV 
      112.08        92.48        88.60       107.93        75.55        63.45 
TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN 
       64.04        21.14        34.55        28.77       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EW TCGA-A2-A0EX 
       80.28       107.61        74.40        37.05        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       24.16        99.19        27.12        50.43        44.28        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YE 
        8.38        20.52        17.46        18.90        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A1FV 
       15.42        21.67        14.50        18.61        19.33        23.47 
TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A25A TCGA-A2-A25C 
       22.45        19.20        19.56        16.47       107.70        17.19 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XW TCGA-A2-A3XY 
       10.59        20.88        39.65        33.93        49.48        34.98 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       38.37         7.30        24.39        21.30        23.21        21.14 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D 
       35.31        34.29        35.47        37.45        33.11        31.73 
TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G 
       10.72        23.61        29.56        31.36        24.26        23.74 
TCGA-A7-A26I TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       21.73        11.34        10.59        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW 
       11.97        21.17        10.72        11.05        10.29         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y 
       10.42         8.75        13.02         1.02        53.06        26.01 
TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07S 
       17.03        19.99        18.97        12.00         9.99         7.99 
TCGA-A8-A07U TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
       24.99        18.05        15.06         0.99        38.01        28.96 
TCGA-A8-A08I TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 
       12.00        93.04        43.00        40.01        33.01        41.98 
TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A2 
        9.99         1.02        19.04        15.02        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2B8 TCGA-AC-A2BK 
       13.02        21.04        13.02         2.37         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO 
       38.20        40.57        55.43        36.99        38.79        50.70 
TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
       16.57        19.79        23.24        24.79         1.55         1.12 
TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR 
        1.81         0.69         0.43         1.68         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR 
        0.33         0.33         0.33         7.36         6.51         0.33 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         0.33         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
        7.17         6.28         0.33         0.33        12.33         0.30 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O 
        0.33         0.33         5.33        47.84        66.77        81.63 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       59.05        29.13        37.48        22.36        53.03        21.53 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JL 
       50.86        72.00        76.77        21.37        50.24        55.33 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D 
       99.25       108.72       106.78        96.10        90.58        64.04 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT 
       48.36        41.62        28.37        14.73        82.62        17.79 
TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR 
      130.09        15.62         2.56         9.99       111.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       74.79        29.75        64.83        76.14        65.36       101.95 
TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM 
      114.02        75.55        61.84        52.77        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS 
       43.73        43.56        39.98        43.07        17.23        37.81 
TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       76.21        62.14        20.22        96.89        78.51        84.20 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A2LE 
       76.01        53.36        50.96        83.77        78.48       128.65 
TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM 
       20.25        40.04        38.17        39.39        40.54        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
       16.04        20.45        10.59        77.62       143.38       149.59 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM 
      220.90       129.57        50.70       112.37       176.98       126.12 
TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
       84.59       110.93       140.88       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
      172.96       162.05       102.77       140.48        89.46       131.21 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 
       97.48       188.68        17.98        21.47       129.57       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A408 
       28.27        68.94        58.88       101.52       139.17        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
      103.63        55.00        38.79        46.95        40.83        39.55 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BD 
       48.36        56.94        56.98        51.68        37.22        18.21 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       21.70        44.05        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 TCGA-BH-A0DH TCGA-BH-A0DL TCGA-BH-A0DO 
       53.95        49.94        44.02        38.01        48.23        17.26 
TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 
        3.22         2.56        38.47        45.17        47.41         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       15.68         9.63        44.81        46.19        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       31.00        24.43        30.35        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK 
       35.51        24.56        41.00        52.96        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
        2.50        13.61         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M 
       44.81         8.81         7.23        20.12        90.84        72.56 
TCGA-BH-A18P TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       30.28         7.36        51.16        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       42.28        17.69        25.81        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
      120.62        33.17        74.73        55.00       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
        6.90        57.83        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 
        8.94        11.77        12.66        12.66         1.78         1.45 
TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HJ TCGA-C8-A26V TCGA-C8-A26W 
        0.69         3.85        12.33         0.16         0.30         0.23 
TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A141 
        0.43         0.03         0.99         0.03        20.88        20.58 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.48        21.14        19.20        14.17        17.49        16.50 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JM 
       18.15        18.90        14.01        18.97        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
       20.38        21.01        12.20        14.70        18.58        17.79 
TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ 
       25.74        27.58         2.66        17.16        14.73        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XU TCGA-D8-A1XV 
       14.50        19.92         7.96        15.85        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E 
       12.66        15.32        15.52         3.81        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P 
       16.04        14.43         9.44        16.41        13.48         0.76 
TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A109 
       13.08        14.50        18.51         7.33        27.52        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q 
       40.41        37.51        28.44        28.87        47.15        38.24 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       33.17        43.33        31.96        17.03        25.41        27.12 
TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       19.43        23.87        14.79        25.05        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       20.71        21.63        18.21        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1AZ 
       20.58         7.73        13.02        19.56        17.06        60.53 
TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1II 
       29.95        28.50        16.47        17.10        37.41        33.70 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       22.65         3.88        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       27.42        39.62        19.66        40.47        28.90        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      106.75       102.61        43.04        16.93         5.52        15.72 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       30.61        34.92        19.00         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       13.48        13.12        39.55        12.59        35.77        21.57 
TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD 
       14.30         2.10        32.09        20.81        40.24         0.66 
TCGA-E9-A1RG TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A245 
       21.27         0.79        13.32        23.51        24.10         0.85 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        1.94         0.95        24.56         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IW 
        0.62        15.72        12.33        14.70        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J3 TCGA-EW-A1OV TCGA-EW-A1P0 
       39.72         8.48        18.21        16.57        25.94        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PE 
       39.78        18.48        30.08         7.86        18.90        10.52 
TCGA-EW-A1PF TCGA-EW-A2FR TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GM-A2D9 
       14.43        55.00        22.09        21.27        10.59        59.57 
TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DL 
       53.13        43.04        42.71        42.28        61.91        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN 
       76.64        77.33       110.50        38.20        43.73        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       72.03        13.55        18.12        11.84        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        6.67         4.60         8.75         9.53        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR 
        7.59        17.06        14.47        11.57         2.63         3.88 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OK-A5Q2 TCGA-OL-A5D6 
        4.50         4.50         6.21         7.36         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW 
       46.55        31.99        58.62        27.65        34.92        36.36 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       16.87        24.72        20.38        26.70        23.47        65.62 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX 
       31.07        26.04         7.23        19.73         0.23         0.16 
TCGA-PL-A8LY TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        0.26        16.50        10.59         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE 
                        23.095                         21.830 
[1] "0.0 - 211.6 (23.1)" "0.0 - 234.3 (21.8)"
[1] "hr=" "1.4"
D25V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 25(17Q23.1) MUTATED        25       23        3        2       147
  AMP PEAK 25(17Q23.1) WILD-TYPE      58       57        6        3       195
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 25(17Q23.1) MUTATED          94         1         64         16
  AMP PEAK 25(17Q23.1) WILD-TYPE       140         1         78         13
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 25(17Q23.1) MUTATED           20        9         1       2
  AMP PEAK 25(17Q23.1) WILD-TYPE         43        9         0      14
D25V3, multiclass
            clus
vv           AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  STAGE I                              25                             58
  STAGE IA                             23                             57
  STAGE IB                              3                              6
  STAGE II                              2                              3
  STAGE IIA                           147                            195
  STAGE IIB                            94                            140
  STAGE III                             1                              1
  STAGE IIIA                           64                             78
  STAGE IIIB                           16                             13
  STAGE IIIC                           20                             43
  STAGE IV                              9                              9
  STAGE TIS                             1                              0
  STAGE X                               2                             14
[1] 13  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 25(17Q23.1) MUTATED    77 263  47  18
  AMP PEAK 25(17Q23.1) WILD-TYPE 188 331  77  21
D25V4, multiclass
    clus
vv   AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  T1                           77                            188
  T2                          263                            331
  T3                           47                             77
  T4                           18                             21
[1] 4 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  N3
  AMP PEAK 25(17Q23.1) MUTATED   188 136  51  24
  AMP PEAK 25(17Q23.1) WILD-TYPE 293 203  62  50
D25V5, multiclass
    clus
vv   AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  N0                          188                            293
  N1                          136                            203
  N2                           51                             62
  N3                           24                             50
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 25(17Q23.1) MUTATED          1 360   9  37
  AMP PEAK 25(17Q23.1) WILD-TYPE        4 494  10 110
D25V6, multiclass
          clus
vv         AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                360                            494
  M1                                  9                             10
  MX                                 37                            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V7, binary
                                cls
clus                               0   1
  AMP PEAK 25(17Q23.1) MUTATED   396  11
  AMP PEAK 25(17Q23.1) WILD-TYPE 618   0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 25(17Q23.1) MUTATED    396   11
  AMP PEAK 25(17Q23.1) WILD-TYPE  618    0
        clus
vv       AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  FEMALE                          396                            618
  MALE                             11                              0
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 25(17Q23.1) MUTATED                            1
  AMP PEAK 25(17Q23.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 25(17Q23.1) MUTATED                             332
  AMP PEAK 25(17Q23.1) WILD-TYPE                           422
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 25(17Q23.1) MUTATED                               40
  AMP PEAK 25(17Q23.1) WILD-TYPE                            135
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 25(17Q23.1) MUTATED                     3
  AMP PEAK 25(17Q23.1) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 25(17Q23.1) MUTATED                                  9
  AMP PEAK 25(17Q23.1) WILD-TYPE                               20
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 25(17Q23.1) MUTATED                    5             16
  AMP PEAK 25(17Q23.1) WILD-TYPE                 10             28
D25V8, multiclass
                                  clus
vv                                 AMP PEAK 25(17Q23.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             332
  INFILTRATING LOBULAR CARCINOMA                             40
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            9
  MUCINOUS CARCINOMA                                          5
  OTHER  SPECIFY                                             16
                                  clus
vv                                 AMP PEAK 25(17Q23.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               422
  INFILTRATING LOBULAR CARCINOMA                              135
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                           10
  OTHER  SPECIFY                                               28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V9, binary
                                cls
clus                               0   1
  AMP PEAK 25(17Q23.1) MUTATED   114 293
  AMP PEAK 25(17Q23.1) WILD-TYPE 168 450
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 25(17Q23.1) MUTATED    114  293
  AMP PEAK 25(17Q23.1) WILD-TYPE  168  450
     clus
vv    AMP PEAK 25(17Q23.1) MUTATED AMP PEAK 25(17Q23.1) WILD-TYPE
  NO                           114                            168
  YES                          293                            450
[1] 2 2
[1] FALSE
D25V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 25(17Q23.1) MUTATED                                  0    28
  AMP PEAK 25(17Q23.1) WILD-TYPE                                1    28
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 25(17Q23.1) MUTATED                          63   266
  AMP PEAK 25(17Q23.1) WILD-TYPE                        95   451
D25V11, multiclass
                                  clus
vv                                 AMP PEAK 25(17Q23.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      28
  BLACK OR AFRICAN AMERICAN                                  63
  WHITE                                                     266
                                  clus
vv                                 AMP PEAK 25(17Q23.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        28
  BLACK OR AFRICAN AMERICAN                                    95
  WHITE                                                       451
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V12, binary
                                cls
clus                               0   1
  AMP PEAK 25(17Q23.1) MUTATED    15 318
  AMP PEAK 25(17Q23.1) WILD-TYPE  21 508
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 25(17Q23.1) MUTATED     15  318
  AMP PEAK 25(17Q23.1) WILD-TYPE   21  508
                        clus
vv                       AMP PEAK 25(17Q23.1) MUTATED
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          318
                        clus
vv                       AMP PEAK 25(17Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                 21
  NOT HISPANIC OR LATINO                            508
[1] 2 2
[1] FALSE

Clustering(26) Variable = AMP PEAK 26(19P13.12) MUTATION ANALYSIS
D26V1, survival
                                 sevent
clus2                               0   1
  AMP PEAK 26(19P13.12) MUTATED   193  23
  AMP PEAK 26(19P13.12) WILD-TYPE 693  96
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                            216                             789 
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                             23                              96 
$`AMP PEAK 26(19P13.12) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SK TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04U TCGA-A2-A0CT 
       48.10        31.79        18.02        41.95        22.06        75.25 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EY 
       34.55        33.76        79.76        35.05        34.29        24.16 
TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0YH TCGA-A2-A0YJ 
       50.43        17.52        18.71        18.90        21.67        18.61 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3Y0 TCGA-A2-A4S2 
       20.25        19.20        83.01        29.98        38.37        21.14 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13E 
       38.30        35.31        30.61        35.67        33.11        10.72 
TCGA-A7-A26E TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A8-A06Q 
       31.36        22.32        10.29        21.17        12.10         1.02 
TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A085 TCGA-A8-A08F TCGA-A8-A08R TCGA-A8-A08X 
       17.98        31.00        36.95        33.01         0.99        43.00 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A0A6 
       17.95        12.00        12.00        49.05        33.07        21.04 
TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2BK TCGA-AC-A2FM TCGA-AC-A2FO 
       13.02         2.37        10.85        38.53        26.04        50.70 
TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03Y 
       14.83        16.57         1.81         0.69         1.74         0.33 
TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FL 
        8.02         0.16         0.33         6.44         7.00         7.59 
TCGA-AN-A0FX TCGA-AN-A0XN TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03P 
        0.33         0.33         0.33         5.59        80.28        84.69 
TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A12A TCGA-AO-A12B 
       52.18        20.32        55.33       102.58        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP 
       64.04        70.39         0.53         2.56        32.91       111.32 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW 
       65.36       101.95        52.77        51.25        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z 
       62.14        50.89       101.52        85.35        50.96        79.00 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I2 
       58.92        93.83        40.54        20.38        54.74       143.38 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A0WY 
      112.37       176.98       140.88       131.21        21.47       113.79 
TCGA-B6-A0WZ TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AU 
      129.57        43.59        73.51        85.35        54.28        24.53 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BJ TCGA-BH-A0C0 TCGA-BH-A0C1 
       56.94        51.68        37.22        21.70        41.75        44.02 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DO TCGA-BH-A0E9 TCGA-BH-A0H0 TCGA-BH-A0HQ 
       42.90        45.83        17.26        46.19        15.16        36.85 
TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1FC 
       37.74        55.63         7.36        51.16        91.99       114.15 
TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A130 
       57.83       130.16        11.93         0.07        12.66         3.12 
TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 
        0.99        20.88        13.25        14.17        13.48        19.20 
TCGA-D8-A1J8 TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JN TCGA-D8-A1X6 TCGA-D8-A1XJ 
       14.17        12.03        14.01        20.38        17.79        21.83 
TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27W TCGA-E2-A10B TCGA-E2-A14N 
       12.99        15.32        14.24        12.26        37.51        47.15 
TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A15E 
       38.60        31.96        28.60        25.41        23.24        20.71 
TCGA-E2-A15M TCGA-E2-A1B1 TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1LE TCGA-E2-A1LG 
        7.73        53.03        33.73        33.70        28.90        18.87 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
       19.89        19.00         9.21        12.00        13.12        36.56 
TCGA-E9-A1NF TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RH TCGA-E9-A22B 
       20.05         2.76        32.09         0.66        34.59        22.75 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A249 
       12.89        23.51        17.06         0.69         1.94         0.95 
TCGA-E9-A295 TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1J6 
        0.72         0.62        14.70         0.26        14.40        28.77 
TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FR 
       29.85        29.82        19.99         6.15        13.94        55.00 
TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A5YN 
       10.16       109.87        43.04         4.60         9.53        14.70 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OL-A5RW 
        2.63         4.14         6.21         7.36         2.79        36.36 
TCGA-PL-A8LZ TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-W8-A86G TCGA-XX-A89A 
        3.95         6.81        10.59         7.92         5.29         9.14 

$`AMP PEAK 26(19P13.12) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP 
       20.88        13.68         7.96        39.32        28.01        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W 
       18.21       104.81        82.16        73.84        63.12        64.04 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO 
       55.43        36.13       136.73        64.57        24.79       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV 
       92.48        88.60       107.93        75.55         5.19        63.45 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       64.04        56.81        21.14        28.77        25.22       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV 
       89.36        80.28       107.61        74.40        37.05        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       29.75        24.72        99.19        54.64        27.12        44.88 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T7 
       44.28        17.13         8.38        20.52        17.46        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI 
       32.55        25.28        18.21        15.42        21.90        14.50 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
       19.33        48.46        31.73        23.77        23.47        17.36 
TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       36.79        22.45        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
       16.31        17.19        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       39.65        33.93        32.75        49.48        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       31.99         7.30        24.39        21.30        23.21        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13F 
       21.90        34.29        35.47        37.45        31.73        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        24.26        23.74        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       20.61        11.34        10.59        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D 
       11.97        14.93        13.74        14.50        17.92        14.73 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       10.72        11.05        10.29         9.37        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z 
       13.02        13.02        53.06        29.03        26.01         1.02 
TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
       17.03        53.98         9.01        43.00        19.99        18.97 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       18.97        14.01        12.00        17.03         9.99        10.98 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
        8.98         7.99        24.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G 
       15.06        13.02         0.99        38.01        28.96        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S 
       12.00        37.05         9.99        31.00        31.00        33.01 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 
       93.04        40.01        33.01        30.97        41.98         9.99 
TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N 
        9.99         1.02        50.04        45.07        29.98         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       25.02         8.98        19.04        15.02         0.99        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD 
       12.00        19.04        13.02         0.99        17.03        38.04 
TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        0.95         2.66         1.48        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       36.99        38.79         1.02         0.92         2.27         0.99 
TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
        0.69        22.19         1.12        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
        1.55         0.07         1.12         1.18         0.43         1.68 
TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 
        1.12         1.32         0.33         0.23         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AS 
        2.96         1.78         1.71         7.36         6.51         0.33 
TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        0.33         4.64         7.96         7.17         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO 
        0.33         0.36         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03M 
        0.30         0.33         0.33         0.33         5.33        47.84 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       66.77        81.63        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 
       32.78        21.40        24.16        37.48        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       21.53        50.70        50.86        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        50.24        62.04        71.80        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
      106.78        96.10        57.30        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       14.73        82.62        61.87        17.79        24.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ 
      130.09         5.65        15.62        32.52         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
        5.26        74.79        86.66        29.75        98.93        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       55.86        76.14        83.87       114.02        85.97        75.55 
TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       61.84        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24H 
       43.07        17.23        37.81        76.21        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       73.02        96.89        78.51        84.20         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       76.01        53.36        83.77        56.15        78.48        73.18 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL 
       72.76       128.65        20.25        62.86        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       40.04        38.17        39.39        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       77.62       149.59        12.13       220.90       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
       65.72       146.50        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       211.56        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS 
       78.02       172.96       162.05       102.77       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
       89.46       157.41        97.48       188.68        79.63        17.98 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF 
      129.70       186.48        28.27        68.94        58.88       101.52 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
      139.17       170.17        49.94       103.63        55.00        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       20.45        25.55        28.50        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       39.16        48.36        56.98        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       24.85        44.05        61.68        35.67        48.69        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       53.69        53.95        45.57        49.94        11.67        49.05 
TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       48.13        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       48.23        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 
       47.41        16.27         4.41        15.68        14.30         9.63 
TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        32.65        24.49        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 
       10.78        37.78        35.51        24.56        23.08        41.00 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       52.96        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
       24.95        42.35        44.81        23.05         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P 
        7.23        20.12        90.84        26.66        72.56        30.28 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET 
       37.55        66.05        51.39        69.93       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       42.28        12.00        55.69        49.58        17.69        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD 
       31.53        89.16        97.48        24.66       120.62        33.17 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       74.73       122.89        36.92        63.35        55.00        45.63 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       72.07       144.59        72.07         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       83.31        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U 
        8.94        11.77        11.77        12.66        11.77        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 
       12.66        12.66         1.78         1.45         0.69         0.62 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI 
        3.85         3.75        12.33        10.92        11.34        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
        0.16        12.03        10.42         2.30         3.25         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.23         0.36         0.43         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03         0.03        12.20         0.03         0.23        11.90 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       20.58        13.97        21.14        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ 
       15.78        18.15        18.90        12.03        18.97        20.09 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.12        20.09        19.40        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA 
       14.70        18.58        16.73        25.74        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK 
       18.15         2.66        17.16        15.22        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       19.92        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 
        6.35        15.16        12.66        16.54        15.52         3.81 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.14        17.42        16.04        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R 
        9.44        16.41        13.48         4.80         0.76        10.09 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       13.08        12.53        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10E 
       34.42        27.52        46.59        40.41        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T 
       28.87        44.68        40.96        38.24        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A154 
       43.33        34.26        32.02        17.03        27.12        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C 
       21.04        23.87        14.79        25.05        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       17.29        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
        9.04        20.58        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       14.99        60.53        53.62        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ 
       16.47        17.10        38.30        37.41        32.78        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       22.65         3.88        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LH 
       27.42        39.62        19.66        24.59        40.47       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      102.61         8.75        43.04        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
        7.20        30.61        34.92        19.20        36.82        13.48 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       39.55        12.59        35.77        21.57         9.86        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 
       14.30         0.62         2.10         6.12         1.38        21.21 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI 
       20.81        40.24        34.65         6.58        21.27        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22H 
       34.13         0.79        12.53        13.32        39.09        24.10 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO 
        0.85        27.22        24.56        17.75         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A6HE 
       18.41        15.72        12.33         0.23        13.81        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       12.20        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ 
       16.57        15.68        25.94        22.82        29.95        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       41.13        39.78        52.96        23.11        18.48        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
        7.86        18.90        10.52        14.43        34.55        19.96 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 
       52.73        25.91        22.09        21.27        17.49        10.59 
TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF 
        7.40        59.57       194.27        53.13        53.52        42.71 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.28        61.91        62.33        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN 
       53.36       110.50        38.20        43.73        69.30        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       72.03        13.55        18.12        11.84        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.08         8.75        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR 
       17.06        15.32        14.47        14.79        11.57         3.88 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        4.50         4.50         5.59         3.22        27.91         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       16.87        24.72        22.32        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       65.62        33.57        31.07        26.04         7.23        14.07 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-A6ZF 
       28.21        19.73         0.23         0.16         0.26        16.50 
TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
        8.65         5.56         8.52         7.17         6.87         3.91 
TCGA-XX-A899 TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.60       100.01       105.04 

  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                           0.07                            0.03 
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                         176.98                          234.28 
  AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE 
                          22.19                           22.45 
[1] "0.1 - 177.0 (22.2)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.2"
D26V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 26(19P13.12) MUTATED        16       16        1        0        85
  AMP PEAK 26(19P13.12) WILD-TYPE      67       64        8        5       257
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 26(19P13.12) MUTATED          53         0         28          5
  AMP PEAK 26(19P13.12) WILD-TYPE       181         2        114         24
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 26(19P13.12) MUTATED           12        0         0       2
  AMP PEAK 26(19P13.12) WILD-TYPE         51       18         1      14
D26V3, multiclass
            clus
vv           AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  STAGE I                               16                              67
  STAGE IA                              16                              64
  STAGE IB                               1                               8
  STAGE II                               0                               5
  STAGE IIA                             85                             257
  STAGE IIB                             53                             181
  STAGE III                              0                               2
  STAGE IIIA                            28                             114
  STAGE IIIB                             5                              24
  STAGE IIIC                            12                              51
  STAGE IV                               0                              18
  STAGE TIS                              0                               1
  STAGE X                                2                              14
[1] 13  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 26(19P13.12) MUTATED    48 136  28   6
  AMP PEAK 26(19P13.12) WILD-TYPE 217 458  96  33
D26V4, multiclass
    clus
vv   AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  T1                            48                             217
  T2                           136                             458
  T3                            28                              96
  T4                             6                              33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               N0  N1  N2  N3
  AMP PEAK 26(19P13.12) MUTATED   118  65  23  12
  AMP PEAK 26(19P13.12) WILD-TYPE 363 274  90  62
D26V5, multiclass
    clus
vv   AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  N0                           118                             363
  N1                            65                             274
  N2                            23                              90
  N3                            12                              62
[1] 4 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                              CM0 (I+)  M0  M1  MX
  AMP PEAK 26(19P13.12) MUTATED          0 185   0  33
  AMP PEAK 26(19P13.12) WILD-TYPE        5 669  19 114
D26V6, multiclass
          clus
vv         AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  CM0 (I+)                             0                               5
  M0                                 185                             669
  M1                                   0                              19
  MX                                  33                             114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V7, binary
                                 cls
clus                                0   1
  AMP PEAK 26(19P13.12) MUTATED   213   5
  AMP PEAK 26(19P13.12) WILD-TYPE 801   6
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 26(19P13.12) MUTATED    213    5
  AMP PEAK 26(19P13.12) WILD-TYPE  801    6
        clus
vv       AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  FEMALE                           213                             801
  MALE                               5                               6
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  AMP PEAK 26(19P13.12) MUTATED                            1
  AMP PEAK 26(19P13.12) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 26(19P13.12) MUTATED                             165
  AMP PEAK 26(19P13.12) WILD-TYPE                           589
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 26(19P13.12) MUTATED                               31
  AMP PEAK 26(19P13.12) WILD-TYPE                            144
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 26(19P13.12) MUTATED                     4
  AMP PEAK 26(19P13.12) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 26(19P13.12) MUTATED                                  5
  AMP PEAK 26(19P13.12) WILD-TYPE                               24
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 26(19P13.12) MUTATED                    2             10
  AMP PEAK 26(19P13.12) WILD-TYPE                 13             34
D26V8, multiclass
                                  clus
vv                                 AMP PEAK 26(19P13.12) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              165
  INFILTRATING LOBULAR CARCINOMA                              31
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             5
  MUCINOUS CARCINOMA                                           2
  OTHER  SPECIFY                                              10
                                  clus
vv                                 AMP PEAK 26(19P13.12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                589
  INFILTRATING LOBULAR CARCINOMA                               144
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              24
  MUCINOUS CARCINOMA                                            13
  OTHER  SPECIFY                                                34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V9, binary
                                 cls
clus                                0   1
  AMP PEAK 26(19P13.12) MUTATED    73 145
  AMP PEAK 26(19P13.12) WILD-TYPE 209 598
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 26(19P13.12) MUTATED     73  145
  AMP PEAK 26(19P13.12) WILD-TYPE  209  598
     clus
vv    AMP PEAK 26(19P13.12) MUTATED AMP PEAK 26(19P13.12) WILD-TYPE
  NO                             73                             209
  YES                           145                             598
[1] 2 2
[1] FALSE
D26V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 26(19P13.12) MUTATED                                  0     8
  AMP PEAK 26(19P13.12) WILD-TYPE                                1    48
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 26(19P13.12) MUTATED                          41   155
  AMP PEAK 26(19P13.12) WILD-TYPE                       117   562
D26V11, multiclass
                                  clus
vv                                 AMP PEAK 26(19P13.12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        8
  BLACK OR AFRICAN AMERICAN                                   41
  WHITE                                                      155
                                  clus
vv                                 AMP PEAK 26(19P13.12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         48
  BLACK OR AFRICAN AMERICAN                                    117
  WHITE                                                        562
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V12, binary
                                 cls
clus                                0   1
  AMP PEAK 26(19P13.12) MUTATED     8 176
  AMP PEAK 26(19P13.12) WILD-TYPE  28 650
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 26(19P13.12) MUTATED      8  176
  AMP PEAK 26(19P13.12) WILD-TYPE   28  650
                        clus
vv                       AMP PEAK 26(19P13.12) MUTATED
  HISPANIC OR LATINO                                 8
  NOT HISPANIC OR LATINO                           176
                        clus
vv                       AMP PEAK 26(19P13.12) WILD-TYPE
  HISPANIC OR LATINO                                  28
  NOT HISPANIC OR LATINO                             650
[1] 2 2
[1] FALSE

Clustering(27) Variable = AMP PEAK 27(19Q12) MUTATION ANALYSIS
D27V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 27(19Q12) MUTATED   234  35
  AMP PEAK 27(19Q12) WILD-TYPE 652  84
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                         269                          736 
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                          35                           84 
$`AMP PEAK 27(19Q12) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T 
       48.10        13.68        31.79        18.02        41.95        73.84 
TCGA-A2-A04U TCGA-A2-A0CM TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0EQ 
       22.06        24.79        75.25        64.04        33.76        79.76 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SX 
       35.05        34.29        24.72        24.16        99.19        50.43 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0YH TCGA-A2-A0YM TCGA-A2-A1G0 
        8.38        18.71        18.90        21.67        31.73        20.25 
TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 
       19.20        33.93        29.98        38.40        34.98        38.37 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E 
       21.14        38.30        35.67        33.11        31.73        10.72 
TCGA-A7-A26E TCGA-A7-A26I TCGA-A7-A3J0 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D 
       31.36        21.73        10.29        14.50        21.17        14.73 
TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A07B 
       10.29        10.42        13.02        31.00        17.03        43.00 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A08O TCGA-A8-A08R TCGA-A8-A08X 
        9.99         8.98        24.99        31.00         0.99        43.00 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09M 
       30.97        17.95        12.00        12.00        49.05        33.07 
TCGA-A8-A09Q TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2FM TCGA-AC-A2FO 
       25.02        13.02         2.37        10.85        26.04        50.70 
TCGA-AC-A3W5 TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A03Y TCGA-AN-A0AK 
       16.57         1.81         0.69         1.12         0.33         7.36 
TCGA-AN-A0AM TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX 
        0.16         7.96         7.00         6.02         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03O TCGA-AO-A0J2 TCGA-AO-A0J4 
        0.33         0.33         5.59        81.63        32.78        52.18 
TCGA-AO-A0J7 TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12A 
       20.32        76.77        55.33       102.58        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A54N 
       77.56        64.04        48.36        70.39         0.53         2.56 
TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A1AI TCGA-AR-A1AJ 
       32.91        49.32        98.93        65.36        61.84        52.77 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A24V 
       61.28        63.62        62.14        50.89        53.36        85.35 
TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 
       50.96        79.00        56.15        78.48        58.92        93.83 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0IH 
       40.54        20.38        54.74        77.62       143.38       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WX 
      176.98       110.14       140.88       100.70       131.21        21.47 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 
      113.79       129.57       186.48        43.59        73.51        85.35 
TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BA 
       54.28        24.53        20.45        39.55        56.94        37.22 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0C0 
       24.85        21.70        44.05        53.69        11.67        41.75 
TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DO TCGA-BH-A0E9 TCGA-BH-A0GY TCGA-BH-A0H0 
       44.02        45.83        17.26        46.19        30.35        15.16 
TCGA-BH-A0H7 TCGA-BH-A0HQ TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q 
       23.08        36.85        90.84        26.66        37.74        55.63 
TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EW 
        7.36        51.16        69.93        91.99        12.00        55.69 
TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L 
       97.48       114.15        38.60        57.83       130.16        11.93 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN 
       12.66        12.66         3.12        12.03         2.30         3.25 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A142 
        0.43         8.28         0.03         0.99        20.88        13.97 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JF TCGA-D8-A1JG 
       14.17        13.48        19.20        14.17        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1XJ 
       14.01        20.09        20.38        14.70        17.79        21.83 
TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27V TCGA-D8-A27W 
       12.99        12.66        13.48         4.80        12.53        12.26 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Y 
       37.51        40.11        47.15        38.60        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A15E TCGA-E2-A15F 
       17.03        25.41        27.12        23.24        20.71        21.63 
TCGA-E2-A15M TCGA-E2-A1AZ TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1LG TCGA-E2-A574 
        7.73        60.53        33.70        22.19        18.87        19.89 
TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1R6 
       19.00         9.21        12.00        13.12        36.56         2.76 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RI TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
       32.09         0.66        35.64        22.75        12.89        23.51 
TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A3QA 
       17.06         0.69         1.94         0.95         0.72         0.62 
TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OY 
       15.72        14.70         0.26        14.40        28.77        29.85 
TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PH 
       29.82         7.86        19.99         6.15        13.94        19.96 
TCGA-EW-A423 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-JL-A3YW TCGA-LL-A5YN 
       10.16        53.52        43.04        42.71        11.84        14.70 
TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A8F5 TCGA-LL-A9Q3 
       14.79         2.63         3.88         4.14         6.21         7.36 
TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66I TCGA-PL-A8LV TCGA-PL-A8LZ 
       46.55        36.36        20.38        23.47         0.23         3.95 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA12 TCGA-W8-A86G 
        6.81         8.65         7.92         8.52         5.29 

$`AMP PEAK 27(19Q12) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88         7.96        39.32        28.01        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
      104.81        82.16        63.12        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      136.73        64.57       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 
       75.55         5.19        63.45        56.81        21.14        34.55 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       28.77        25.22       101.72        89.36        80.28       107.61 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0SU TCGA-A2-A0SV 
       74.40        37.05        31.82        29.75        54.64        27.12 
TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.88        44.28        17.52        17.13        20.52        17.46 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG 
       20.75        32.55        25.28        18.21        15.42        21.90 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV 
       14.50        18.61        19.33        48.46        23.77        23.47 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       17.36        36.79        22.45        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
      107.70        16.31        17.19        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ 
       20.88        39.65        83.01        32.75        49.48        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 
        7.30        24.39        21.30        23.21        26.96        21.90 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13F 
       35.31        34.29        35.47        30.61        37.45        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J 
       23.61        29.56        24.26        23.74        23.80        20.61 
TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       22.32        11.34        10.59        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW 
       11.97        14.93        13.74        17.92        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R 
       11.05         9.37         8.75        13.02         1.02        17.98 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 
       53.06        29.03        26.01         1.02        53.98         9.01 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       19.99        18.97        18.97        14.01        12.00        17.03 
TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
       10.98         7.99         9.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       36.95        13.02         0.99        38.01        28.96        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08S 
       19.96        12.00        37.05         9.99        31.00        33.01 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A 
       93.04        40.01        33.01        41.98         9.99         9.99 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R 
        1.02        50.04        45.07        29.98         1.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       13.02        21.04         0.99        17.03        38.04         0.95 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        2.66         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       36.99        38.79         1.02         0.92         2.27         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.69        14.83        22.19         1.12        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX 
       24.79         1.55         0.07         1.12         1.18         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.68         1.74         1.32         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.62         2.96         1.78         1.71         8.02         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL 
        0.33         0.33         0.33         6.44         4.64         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        7.17         6.28         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV 
       12.33         0.30         0.33         0.33         0.33         5.33 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
       80.28        47.84        66.77        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       59.05        29.13        21.40        24.16        37.48        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF 
       53.03        21.53        50.70        50.86        72.00        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        50.24        62.04        71.80        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
      106.78        57.30        41.62        28.37        14.73        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       61.87        17.79        24.79        26.93       130.09         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS 
       15.62        32.52         9.99       111.32         5.26        74.79 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
       86.66        29.75        64.83        55.86        76.14       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL 
       83.87       114.02        85.97        75.55        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       62.56        43.73        43.56        39.98        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M 
       37.81        76.21        20.22       109.58        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T 
       78.51        84.20         0.85       101.52        87.22        76.01 
TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       83.77        73.18        72.76       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QN 
       42.87         7.36        40.04        38.17        39.39        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       20.45        10.59       149.59        12.13       220.90       129.57 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
       50.70        65.72       146.50        18.77       126.12        84.59 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       211.56        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       78.02       172.96       162.05       102.77       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0X0 
      157.41        97.48       188.68        79.63        17.98       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU 
       28.27        68.94        58.88       101.52       139.17       170.17 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ 
       49.94       103.63        55.00        38.79        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 
       46.95        40.83        39.16        48.36        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       32.02        18.21        25.71        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C3 
       27.19        53.95        45.57        49.94        49.05        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       42.90        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       48.23        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 
       47.41        16.27         4.41        15.68        14.30         9.63 
TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ 
       44.81        32.65        24.49        31.00        24.43        10.78 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB 
       37.78        35.51        24.56        41.00        52.96        26.50 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW 
       20.38         5.85         2.50        13.61        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       27.25        50.79         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       44.81        23.05         8.81         2.01         7.23        20.12 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1ES 
       72.56        30.28        37.55        66.05        51.39       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
       82.85        42.28        49.58        17.69        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        24.66       120.62        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR 
       36.92        63.35        55.00        45.63        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q 
       72.07         6.90         0.72        83.31        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N 
       20.12         0.99       109.28         8.94        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12X TCGA-C8-A131 
       12.66        11.77         0.07        12.66        12.66         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        1.45         0.69         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26V 
       10.92        11.34        11.34         0.16        10.42         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A 
        0.23         0.36         9.67         0.03         0.03        12.20 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A146 
        0.03         0.23        11.90        13.25        20.58        21.14 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       17.49        16.50        18.71        15.78        18.15        18.90 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JS 
       18.97        20.09        20.12        19.40        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA 
       13.32        18.58        16.73        25.74        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK 
       18.15         2.66        17.16        15.22        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       19.92        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
        6.35        15.16        16.54        15.32        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       14.24        14.14        17.42        16.04        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T 
       14.43         9.44        16.41         0.76        10.09        13.08 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       14.50        18.51         7.33        43.00        34.42        27.52 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P 
       46.59        40.41        28.44        28.87        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.24        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A 
       19.43        21.04        23.87        14.79        25.05        23.34 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       22.82        17.29        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
        9.04        20.58        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       14.99        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       16.47        17.10        38.30        37.41        32.78        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       28.44        22.65         3.88        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       27.42        39.62        19.66        24.59        40.47        28.90 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 
      106.75       102.61         8.75        43.04        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 
       15.72         7.20        30.61        34.92        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       13.48        39.55        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
        9.86        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF 
        1.38        21.21        20.81        40.24        34.65         6.58 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       21.27        34.59        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A2JS 
       39.09        24.10         0.85        27.22        24.56        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5UO 
        0.76        26.07        18.41        12.33         0.23        13.81 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       15.39        12.20        39.72         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX 
       13.25        16.57        15.68        25.94        22.82        29.95 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       40.41        41.13        39.78        52.96        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR 
       30.08        18.90        10.52        14.43        34.55        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 
       52.73        25.91        22.09        21.27        17.49        10.59 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH 
        7.40       109.87        59.57       194.27        53.13        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 
      110.50        38.20        43.73        69.30        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       13.55        18.12        11.57        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.60         8.75         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Z TCGA-LL-A740 
       17.06        15.32        14.47        11.57         4.50         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        5.59         3.22        27.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
       31.99        58.62        27.65        34.92        16.87        24.72 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       22.32        26.70        65.62        33.57        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY 
        7.23        14.07        28.21        19.73         0.16         0.26 
TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       16.50        10.59         5.56         7.17         6.87         3.91 
TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.60         9.14       100.01       105.04 

  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                      186.48                       234.28 
  AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE 
                       23.08                        22.32 
[1] "0.0 - 186.5 (23.1)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.2"
D27V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 27(19Q12) MUTATED        23       16        2        0       116
  AMP PEAK 27(19Q12) WILD-TYPE      60       64        7        5       226
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 27(19Q12) MUTATED          53         0         34          8
  AMP PEAK 27(19Q12) WILD-TYPE       181         2        108         21
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 27(19Q12) MUTATED           12        4         0       2
  AMP PEAK 27(19Q12) WILD-TYPE         51       14         1      14
D27V3, multiclass
            clus
vv           AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  STAGE I                            23                           60
  STAGE IA                           16                           64
  STAGE IB                            2                            7
  STAGE II                            0                            5
  STAGE IIA                         116                          226
  STAGE IIB                          53                          181
  STAGE III                           0                            2
  STAGE IIIA                         34                          108
  STAGE IIIB                          8                           21
  STAGE IIIC                         12                           51
  STAGE IV                            4                           14
  STAGE TIS                           0                            1
  STAGE X                             2                           14
[1] 13  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 27(19Q12) MUTATED    63 166  32  10
  AMP PEAK 27(19Q12) WILD-TYPE 202 428  92  29
D27V4, multiclass
    clus
vv   AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  T1                         63                          202
  T2                        166                          428
  T3                         32                           92
  T4                         10                           29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            N0  N1  N2  N3
  AMP PEAK 27(19Q12) MUTATED   147  82  27  14
  AMP PEAK 27(19Q12) WILD-TYPE 334 257  86  60
D27V5, multiclass
    clus
vv   AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  N0                        147                          334
  N1                         82                          257
  N2                         27                           86
  N3                         14                           60
[1] 4 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                           CM0 (I+)  M0  M1  MX
  AMP PEAK 27(19Q12) MUTATED          0 236   4  31
  AMP PEAK 27(19Q12) WILD-TYPE        5 618  15 116
D27V6, multiclass
          clus
vv         AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  CM0 (I+)                          0                            5
  M0                              236                          618
  M1                                4                           15
  MX                               31                          116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V7, binary
                              cls
clus                             0   1
  AMP PEAK 27(19Q12) MUTATED   267   4
  AMP PEAK 27(19Q12) WILD-TYPE 747   7
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 27(19Q12) MUTATED    267    4
  AMP PEAK 27(19Q12) WILD-TYPE  747    7
        clus
vv       AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  FEMALE                        267                          747
  MALE                            4                            7
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 27(19Q12) MUTATED                            0
  AMP PEAK 27(19Q12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 27(19Q12) MUTATED                             221
  AMP PEAK 27(19Q12) WILD-TYPE                           533
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 27(19Q12) MUTATED                               27
  AMP PEAK 27(19Q12) WILD-TYPE                            148
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 27(19Q12) MUTATED                     6
  AMP PEAK 27(19Q12) WILD-TYPE                   0
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 27(19Q12) MUTATED                                  5
  AMP PEAK 27(19Q12) WILD-TYPE                               24
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 27(19Q12) MUTATED                    2             10
  AMP PEAK 27(19Q12) WILD-TYPE                 13             34
D27V8, multiclass
                                  clus
vv                                 AMP PEAK 27(19Q12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           221
  INFILTRATING LOBULAR CARCINOMA                           27
  MEDULLARY CARCINOMA                                       6
  MIXED HISTOLOGY (PLEASE SPECIFY)                          5
  MUCINOUS CARCINOMA                                        2
  OTHER  SPECIFY                                           10
                                  clus
vv                                 AMP PEAK 27(19Q12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             533
  INFILTRATING LOBULAR CARCINOMA                            148
  MEDULLARY CARCINOMA                                         0
  MIXED HISTOLOGY (PLEASE SPECIFY)                           24
  MUCINOUS CARCINOMA                                         13
  OTHER  SPECIFY                                             34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V9, binary
                              cls
clus                             0   1
  AMP PEAK 27(19Q12) MUTATED    79 192
  AMP PEAK 27(19Q12) WILD-TYPE 203 551
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 27(19Q12) MUTATED     79  192
  AMP PEAK 27(19Q12) WILD-TYPE  203  551
     clus
vv    AMP PEAK 27(19Q12) MUTATED AMP PEAK 27(19Q12) WILD-TYPE
  NO                          79                          203
  YES                        192                          551
[1] 2 2
[1] FALSE
D27V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 27(19Q12) MUTATED                                  0    13
  AMP PEAK 27(19Q12) WILD-TYPE                                1    43
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 27(19Q12) MUTATED                          56   183
  AMP PEAK 27(19Q12) WILD-TYPE                       102   534
D27V11, multiclass
                                  clus
vv                                 AMP PEAK 27(19Q12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    13
  BLACK OR AFRICAN AMERICAN                                56
  WHITE                                                   183
                                  clus
vv                                 AMP PEAK 27(19Q12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      43
  BLACK OR AFRICAN AMERICAN                                 102
  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"
D27V12, binary
                              cls
clus                             0   1
  AMP PEAK 27(19Q12) MUTATED    10 219
  AMP PEAK 27(19Q12) WILD-TYPE  26 607
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 27(19Q12) MUTATED     10  219
  AMP PEAK 27(19Q12) WILD-TYPE   26  607
                        clus
vv                       AMP PEAK 27(19Q12) MUTATED
  HISPANIC OR LATINO                             10
  NOT HISPANIC OR LATINO                        219
                        clus
vv                       AMP PEAK 27(19Q12) WILD-TYPE
  HISPANIC OR LATINO                               26
  NOT HISPANIC OR LATINO                          607
[1] 2 2
[1] FALSE

Clustering(28) Variable = AMP PEAK 28(19Q13.42) MUTATION ANALYSIS
D28V1, survival
                                 sevent
clus2                               0   1
  AMP PEAK 28(19Q13.42) MUTATED   228  32
  AMP PEAK 28(19Q13.42) WILD-TYPE 658  87
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                            260                             745 
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                             32                              87 
$`AMP PEAK 28(19Q13.42) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04P 
       48.10        13.68        31.79        28.01        18.21        18.02 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A0CT TCGA-A2-A0D0 
       41.95        73.84        22.06        64.04        75.25        21.14 
TCGA-A2-A0D2 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EX 
       33.76        25.22        79.76        35.05        34.29        24.72 
TCGA-A2-A0EY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0YG 
       24.16        17.52         8.38        18.71        18.90        21.90 
TCGA-A2-A0YH TCGA-A2-A1G0 TCGA-A2-A25D TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3Y0 
       21.67        20.25        18.15        33.93        29.98        38.37 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A26E 
       21.14        38.30        35.67        33.11        31.73        31.36 
TCGA-A7-A26I TCGA-A7-A3J0 TCGA-A7-A4SD TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV 
       21.73        10.29        14.50        14.73        12.10        10.29 
TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A075 TCGA-A8-A07B TCGA-A8-A07R 
       10.42        13.02        17.98        17.03        43.00         8.98 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08O 
       24.99         9.99        28.04        33.01        12.00        31.00 
TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B 
       43.00        30.97        17.95        12.00         9.99        12.00 
TCGA-A8-A09E TCGA-A8-A09Q TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E 
       49.05        25.02        21.04         0.99        13.02         2.37 
TCGA-AC-A23G TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AN-A03Y 
       10.85        26.04        50.70         1.81         0.69         0.33 
TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FX 
        1.78         7.36         0.16         7.00         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P 
        0.33         5.59        80.28        47.84        81.63        84.69 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0JE TCGA-AO-A124 TCGA-AO-A128 
       29.13        32.78        20.32        76.77       102.58       106.78 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KQ 
       90.58        77.56        64.04        48.36        41.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0TT 
       70.39         0.53         2.56        32.91        49.32        86.66 
TCGA-AR-A0TW TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L 
       98.93        61.28        63.62        62.14        50.89        73.02 
TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 
      101.52        85.35        50.96        79.00        56.15        58.92 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I2 TCGA-B6-A0IH TCGA-B6-A0IJ 
       40.54        20.38        54.74       143.38       112.37       176.98 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WZ 
       84.59       110.14       140.88       100.70       131.21       129.57 
TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B3 
       43.59        73.51        85.35        24.53        20.45        39.55 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
       56.94        51.68        37.22        24.85        21.70        44.05 
TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DO 
       48.69        45.57        41.75        44.02        45.83        17.26 
TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H7 
        4.41         9.63        46.19        30.35        15.16        23.08 
TCGA-BH-A0HQ TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18U 
       36.85        90.84        26.66        37.74        55.63        51.39 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1FD 
       69.93        91.99       113.82        12.00        55.69        33.17 
TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A208 TCGA-C8-A12L TCGA-C8-A12V 
       45.63        72.07        38.60        57.83        11.93        12.66 
TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26W 
       12.66         3.12        12.03         2.30         3.25         0.23 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-D8-A142 TCGA-D8-A143 
        8.28         9.67         0.03         0.03        13.97        14.17 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JL TCGA-D8-A1JN 
       13.48        14.17        12.03        14.01        20.09        20.38 
TCGA-D8-A1JP TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1XD TCGA-D8-A1XJ 
       21.01        14.70        18.58        17.79        17.16        21.83 
TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A27N 
       14.50        16.41        12.99        12.66        15.32         4.80 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A14Q 
       10.09        12.53        12.26        37.51        40.11        38.24 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A159 TCGA-E2-A15F 
       31.96        28.60        27.12        23.24        25.05        21.63 
TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IO 
        7.73        14.07        60.53        33.70        22.19        20.98 
TCGA-E2-A1LG TCGA-E2-A576 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NG TCGA-E9-A1R6 
       18.87        19.00        12.00        13.12        21.57         2.76 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A22B 
       32.09         0.66         6.58        34.59        35.64        22.75 
TCGA-E9-A22E TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3X8 TCGA-E9-A5FK 
       12.89         0.95         0.72        17.75        15.72        14.70 
TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1P4 TCGA-EW-A1P8 
        0.26        14.40        28.77        25.94        29.82         7.86 
TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A423 TCGA-GM-A2D9 TCGA-GM-A2DC 
       18.90        13.94        14.43        10.16        59.57        53.52 
TCGA-GM-A2DD TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-LL-A9Q3 
       43.04        14.79         2.63         4.14         5.59         7.36 
TCGA-MS-A51U TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH 
        2.79         0.23         3.95        16.50         6.81         8.65 
TCGA-S3-AA10 TCGA-W8-A86G 
        7.92         5.29 

$`AMP PEAK 28(19Q13.42) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04R 
       20.88         7.96        39.32        19.20       104.81        82.16 
TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       63.12        55.43        36.13       136.73        64.57        24.79 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU 
      112.08        92.48        88.60       107.93        75.55         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM 
       63.45        64.04        56.81        34.55        28.77       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV 
       89.36        80.28       107.61        74.40        37.05        31.82 
TCGA-A2-A0EW TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       29.75        99.19        54.64        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T7 TCGA-A2-A0YC 
       44.28        17.13        20.52        17.46        20.75        32.55 
TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       25.28        18.21        15.42        14.50        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       48.46        31.73        23.77        23.47        17.36        36.79 
TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       22.45        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       16.31        17.19        91.92        10.59        20.88        39.65 
TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       83.01        32.75        49.48        38.40        34.98        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 
        7.30        24.39        21.30        23.21        26.96        21.90 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13E 
       35.31        34.29        35.47        30.61        37.45        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       12.72        23.61        29.56        24.26        23.74        23.80 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A3RF 
       20.61        22.32        11.34        10.59        11.28        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF 
       14.70        11.97        14.93        13.74        21.17        17.92 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q 
       10.72        11.05         9.37         8.75        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 
       53.06        29.03        31.00        26.01         1.02        53.98 
TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
        9.01        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A082 TCGA-A8-A084 
       17.03         9.99        10.98         7.99        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G 
       36.95        13.02         0.99        38.01        28.96        19.96 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
       37.05         9.99        31.00         0.99        33.01        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D 
       40.01        33.01        41.98         9.99         1.02        50.04 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       45.07        29.98        33.07         1.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 
       15.02         0.99        14.01        12.00        19.04        13.02 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
       17.03        38.04         0.95         2.66         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH 
       38.20        40.57        55.43        36.99        38.79         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83        22.19 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12        16.57        19.79        23.24        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP 
        0.07         1.12         1.18         0.43         1.68         1.74 
TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 
        1.12         1.32         0.33         0.23         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS 
        2.96         1.71         8.02         6.51         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN 
        0.33         6.44         4.64         7.96         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        6.28         6.02         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
       12.33         0.30         0.33         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J3 
        5.33        66.77        68.75        47.87        59.05        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       52.18        24.16        37.48        22.36        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.70        50.86        72.00        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 
       62.04        55.33        71.80        99.25       108.72        96.10 
TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04H 
       57.30        28.37        14.73        82.62        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 
       26.93       130.09         5.65        15.62        32.52         9.99 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY 
      111.32         5.26        74.79        29.75        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       76.14        65.36       101.95        83.87       114.02        85.97 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       75.55        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS 
       43.73        43.56        39.98        43.07        17.23        37.81 
TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       76.21        20.22       109.58        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A251 
        0.85        87.22        76.01        53.36        83.77        78.48 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       73.18        72.76        93.83       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QN 
       42.87         7.36        40.04        38.17        39.39        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       20.45        10.59        77.62       149.59        12.13       220.90 
TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM 
      129.57        50.70        65.72       146.50        18.77       126.12 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       211.56        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       78.02       172.96       162.05       102.77       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX 
      157.41        97.48       188.68        79.63        17.98        21.47 
TCGA-B6-A0WY TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
      113.79       129.70       186.48        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B 
      101.52       139.17       170.17        54.28        49.94       103.63 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       55.00        38.79        25.55        28.50        46.95        40.83 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       39.16        48.36        56.98        32.02        18.21        25.71 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV 
       61.68        35.67        27.19        53.69        53.95        49.94 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG 
       11.67        49.05        48.13        42.90        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ 
       38.01        22.13        13.91        48.23        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI 
       14.30        44.81        32.65        24.49        31.00        24.43 
TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA 
       10.78        37.78        35.51        24.56        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU 
       26.50        20.38         5.85         2.50        13.61        12.89 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       51.32        27.25        50.79         5.59        23.93        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       42.35        44.81        23.05         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
       20.12        72.56        30.28        37.55        66.05         7.36 
TCGA-BH-A18V TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       51.16        82.85        42.28        49.58        17.69        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC 
       31.53        89.16        97.48        24.66       120.62       114.15 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR 
       74.73       122.89        36.92        63.35        55.00       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O 
       72.07         6.90         0.72        83.31       130.16        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M 
        6.44        20.12         0.99       109.28         8.94        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12X 
       11.77        12.66        11.77         0.07        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
        1.78         1.45         0.69         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL 
       12.33        10.92        11.34        11.34         0.16        10.42 
TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B 
        0.30         0.36         0.43         0.03        12.20         0.99 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.23        11.90        20.88        13.25        20.58 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC 
       21.14        19.20        17.49        16.50        18.71        15.78 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.15        18.90        12.03        18.97        20.09        20.12 
TCGA-D8-A1JM TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       19.40        12.20        13.32        16.73        25.74        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL 
       27.58        18.15         2.66        15.22        14.73        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV 
       17.69         7.96        15.85        16.31         6.35        15.16 
TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       16.54        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       16.04        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
       13.48         0.76        13.08        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10E 
       43.00        34.42        27.52        46.59        40.41        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S 
       28.87        47.15        44.68        40.96        38.60        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A150 
       33.30        43.33        34.26        32.02        17.03        25.41 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C 
       19.43        21.04        23.87        14.79        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       17.29        20.71        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T 
        9.04        20.58        13.02        19.56        17.06        14.99 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       53.62        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ 
       17.10        38.30        37.41        32.78        33.73        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 
       22.65         3.88        11.08        54.18        27.42        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI 
       19.66        24.59        40.47        28.90       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
        8.75        43.04        16.93         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       30.61        34.92        19.89         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF 
       13.48        36.56        39.55        12.59        35.77        20.05 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
        9.86        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RG 
        1.38        21.21        20.81        40.24        34.65        21.27 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22G 
       34.13         0.79        12.53        13.32        39.09        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       24.10        17.06         0.69         0.85        27.22         1.94 
TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A54X 
       24.56         0.76        26.07        18.41         0.62        12.33 
TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.23        13.81        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OW 
       18.21        18.90        13.25        16.57        15.68        22.82 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       29.95        29.85        40.41        41.13        39.78        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE 
       23.11        18.48        30.08        19.99         6.15        10.52 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       34.55        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA 
       21.27        17.49        10.59         7.40       109.87       194.27 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
       53.13        42.71        42.28        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        66.38        72.03        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF 
       11.57        21.24         6.67         4.08         4.60         8.75 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        9.53        11.44        10.95         7.59        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 
       14.70        14.47        11.57         3.88         4.50         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        3.22         6.21        27.91         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       31.99        58.62        27.65        34.92        36.36        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       24.72        22.32        20.38        26.70        23.47        65.62 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO 
       33.57        31.07        26.04         7.23        14.07        28.21 
TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 
       19.73         0.16         0.26        10.59         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        7.17         6.87         3.91         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                           0.03                            0.03 
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                         176.98                          234.28 
  AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE 
                          21.98                           22.65 
[1] "0.0 - 177.0 (22.0)" "0.0 - 234.3 (22.6)"
[1] "hr=" "1.2"
D28V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 28(19Q13.42) MUTATED        22       19        2        0        98
  AMP PEAK 28(19Q13.42) WILD-TYPE      61       61        7        5       244
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 28(19Q13.42) MUTATED          58         0         35          9
  AMP PEAK 28(19Q13.42) WILD-TYPE       176         2        107         20
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 28(19Q13.42) MUTATED           16        3         0       2
  AMP PEAK 28(19Q13.42) WILD-TYPE         47       15         1      14
D28V3, multiclass
            clus
vv           AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  STAGE I                               22                              61
  STAGE IA                              19                              61
  STAGE IB                               2                               7
  STAGE II                               0                               5
  STAGE IIA                             98                             244
  STAGE IIB                             58                             176
  STAGE III                              0                               2
  STAGE IIIA                            35                             107
  STAGE IIIB                             9                              20
  STAGE IIIC                            16                              47
  STAGE IV                               3                              15
  STAGE TIS                              0                               1
  STAGE X                                2                              14
[1] 13  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 28(19Q13.42) MUTATED    62 165  27  10
  AMP PEAK 28(19Q13.42) WILD-TYPE 203 429  97  29
D28V4, multiclass
    clus
vv   AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  T1                            62                             203
  T2                           165                             429
  T3                            27                              97
  T4                            10                              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               N0  N1  N2  N3
  AMP PEAK 28(19Q13.42) MUTATED   132  82  28  18
  AMP PEAK 28(19Q13.42) WILD-TYPE 349 257  85  56
D28V5, multiclass
    clus
vv   AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  N0                           132                             349
  N1                            82                             257
  N2                            28                              85
  N3                            18                              56
[1] 4 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                              CM0 (I+)  M0  M1  MX
  AMP PEAK 28(19Q13.42) MUTATED          0 238   3  23
  AMP PEAK 28(19Q13.42) WILD-TYPE        5 616  16 124
D28V6, multiclass
          clus
vv         AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  CM0 (I+)                             0                               5
  M0                                 238                             616
  M1                                   3                              16
  MX                                  23                             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V7, binary
                                 cls
clus                                0   1
  AMP PEAK 28(19Q13.42) MUTATED   259   5
  AMP PEAK 28(19Q13.42) WILD-TYPE 755   6
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 28(19Q13.42) MUTATED    259    5
  AMP PEAK 28(19Q13.42) WILD-TYPE  755    6
        clus
vv       AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  FEMALE                           259                             755
  MALE                               5                               6
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  AMP PEAK 28(19Q13.42) MUTATED                            1
  AMP PEAK 28(19Q13.42) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 28(19Q13.42) MUTATED                             213
  AMP PEAK 28(19Q13.42) WILD-TYPE                           541
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 28(19Q13.42) MUTATED                               30
  AMP PEAK 28(19Q13.42) WILD-TYPE                            145
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 28(19Q13.42) MUTATED                     2
  AMP PEAK 28(19Q13.42) WILD-TYPE                   4
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 28(19Q13.42) MUTATED                                  4
  AMP PEAK 28(19Q13.42) WILD-TYPE                               25
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 28(19Q13.42) MUTATED                    2             12
  AMP PEAK 28(19Q13.42) WILD-TYPE                 13             32
D28V8, multiclass
                                  clus
vv                                 AMP PEAK 28(19Q13.42) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              213
  INFILTRATING LOBULAR CARCINOMA                              30
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             4
  MUCINOUS CARCINOMA                                           2
  OTHER  SPECIFY                                              12
                                  clus
vv                                 AMP PEAK 28(19Q13.42) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                541
  INFILTRATING LOBULAR CARCINOMA                               145
  MEDULLARY CARCINOMA                                            4
  MIXED HISTOLOGY (PLEASE SPECIFY)                              25
  MUCINOUS CARCINOMA                                            13
  OTHER  SPECIFY                                                32
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V9, binary
                                 cls
clus                                0   1
  AMP PEAK 28(19Q13.42) MUTATED    81 183
  AMP PEAK 28(19Q13.42) WILD-TYPE 201 560
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 28(19Q13.42) MUTATED     81  183
  AMP PEAK 28(19Q13.42) WILD-TYPE  201  560
     clus
vv    AMP PEAK 28(19Q13.42) MUTATED AMP PEAK 28(19Q13.42) WILD-TYPE
  NO                             81                             201
  YES                           183                             560
[1] 2 2
[1] FALSE
D28V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 28(19Q13.42) MUTATED                                  0    16
  AMP PEAK 28(19Q13.42) WILD-TYPE                                1    40
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 28(19Q13.42) MUTATED                          37   189
  AMP PEAK 28(19Q13.42) WILD-TYPE                       121   528
D28V11, multiclass
                                  clus
vv                                 AMP PEAK 28(19Q13.42) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       16
  BLACK OR AFRICAN AMERICAN                                   37
  WHITE                                                      189
                                  clus
vv                                 AMP PEAK 28(19Q13.42) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         40
  BLACK OR AFRICAN AMERICAN                                    121
  WHITE                                                        528
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V12, binary
                                 cls
clus                                0   1
  AMP PEAK 28(19Q13.42) MUTATED    11 207
  AMP PEAK 28(19Q13.42) WILD-TYPE  25 619
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 28(19Q13.42) MUTATED     11  207
  AMP PEAK 28(19Q13.42) WILD-TYPE   25  619
                        clus
vv                       AMP PEAK 28(19Q13.42) MUTATED
  HISPANIC OR LATINO                                11
  NOT HISPANIC OR LATINO                           207
                        clus
vv                       AMP PEAK 28(19Q13.42) WILD-TYPE
  HISPANIC OR LATINO                                  25
  NOT HISPANIC OR LATINO                             619
[1] 2 2
[1] FALSE

Clustering(29) Variable = AMP PEAK 29(20Q13.2) MUTATION ANALYSIS
D29V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 29(20Q13.2) MUTATED   452  61
  AMP PEAK 29(20Q13.2) WILD-TYPE 434  58
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                           513                            492 
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                            61                             58 
$`AMP PEAK 29(20Q13.2) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SJ 
        0.39        14.37        48.10        14.27        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ 
       31.79         7.96        39.32        28.01        19.20        18.21 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CL 
       82.16        73.84        64.04        55.43        36.13        64.57 
TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
       24.79        75.55        75.25         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET 
       56.81        21.14        33.76        25.22        79.76        35.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       34.29        31.82        24.16        27.12        44.88        50.43 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YG 
        8.38        18.71        20.75        25.28        18.21        21.90 
TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G0 
       21.67        18.61        23.77        17.36        36.79        20.25 
TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XT 
       19.20        16.31        91.92        20.88        33.93        83.01 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A4RX TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CJ 
       38.40        34.98        24.39        21.14        38.30        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       37.45        35.67        33.11        31.73        10.72        12.72 
TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SD 
       23.74        20.61        22.32        14.70        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A8-A06O 
       21.17        17.92        14.73        12.10        10.29        13.02 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
        1.02        17.98        29.03        26.01         1.02        17.03 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R 
       53.98         9.01        18.97        17.03        10.98         8.98 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B 
       24.99         9.99        28.04        36.95        13.02        38.01 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P 
       33.01        19.96        12.00        37.05         9.99        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
        0.99        33.01        43.00        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E 
       41.98        12.00         9.99         1.02        50.04        49.05 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A0A1 
       45.07        29.98        33.07         1.02         8.98        12.00 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2BM 
        0.99        13.02         0.95        10.85         2.66        38.20 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AC-A5XS 
       26.04        50.70         1.02         2.27        16.57         1.55 
TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ 
        0.07         1.81         0.69         1.68         1.74         1.12 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.33         0.33         0.23         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FT TCGA-AN-A0FW 
        8.02         0.16         0.33         6.44         6.02         0.36 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
        0.33         0.33         0.33         0.33        12.33         0.30 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03T 
       80.28        47.84        66.77        81.63        84.69        47.87 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JD 
       29.13        32.78        20.32        53.03        50.70        72.00 
TCGA-AO-A0JE TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A128 TCGA-AO-A129 
       76.77        50.24        55.33        71.80       106.78        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A1KP TCGA-AO-A1KQ 
       90.58        77.56        57.30        48.36        82.62        61.87 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
        0.53        17.79        24.79       130.09         5.65        15.62 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
       32.91         9.99        49.32        86.66        29.75        98.93 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AI 
       64.83        55.86        76.14       101.95        83.87        61.84 
TCGA-AR-A1AK TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       51.25        43.73        39.98        76.21        61.28        63.62 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24V 
       20.22       109.58        73.02       101.52        87.22        85.35 
TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        79.00        56.15        78.48        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR 
       58.92        93.83        42.87         7.36        39.39        20.38 
TCGA-AR-A5QM TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB 
       54.74        77.62       143.38       149.59        12.13       129.57 
TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE 
       65.72       112.37       176.98       110.14       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RU TCGA-B6-A0WV 
       68.45       189.01        81.17       162.05       131.21        79.63 
TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A401 
      113.79        43.59       101.52        73.51       139.17        85.35 
TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY 
       54.28        49.94       103.63        24.53        20.45        25.55 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BL 
       39.55        39.16        56.94        37.22        25.71        44.05 
TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
       48.69        45.57        49.94        49.05        41.75        44.02 
TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E2 
       45.83        23.44        48.23         3.22         4.41        14.30 
TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0H9 
       46.19        31.00        24.43        30.35        23.08        41.00 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY 
       26.50        20.38        36.85        12.89        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N 
        5.59        42.35        44.81        90.84        26.66        37.74 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       55.63        37.55         7.36        51.39        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F2 
       91.99        42.28        12.00        55.69        49.58        31.53 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 
       97.48        24.66        74.73        45.63        72.07         0.72 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28Q TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O 
       83.31        57.83         6.44        11.93        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 
       11.77         0.07        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM 
        1.45         0.69         3.75        11.34        11.34         2.30 
TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A278 
        3.25         0.43         8.28         9.67         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 
       12.20         0.23        11.90        20.88        13.25        13.97 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JB 
       14.17        13.48        21.14        19.20        14.17        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       15.78        18.15        18.90        12.03        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X9 
       18.97        20.12        21.01        13.32        18.58        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK 
       27.58        18.15        17.16        15.22        21.83        14.50 
TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY 
       19.92        16.41        16.31        12.99        12.66        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27L 
       15.32        15.52         3.81        13.05        14.43        16.41 
TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C 
       10.09        12.26        43.00        46.59        37.51        40.11 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V 
       44.68        40.96        38.60        33.17        33.30        34.26 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       31.96        28.60        25.41        27.12        23.24        19.43 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H 
       25.05        23.34        22.82        20.71        21.63        12.92 
TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ 
        9.04         7.73        13.02        17.06        14.07        60.53 
TCGA-E2-A1B0 TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN 
       53.62        17.10        38.30        33.73        33.70        22.19 
TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       20.98        27.42        19.66       106.75       102.61         8.75 
TCGA-E2-A1LL TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 
       43.04         7.20        30.61        34.92        19.89        19.00 
TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
        9.21        36.82        13.48        12.00        13.12        36.56 
TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R3 
       35.77        20.05         9.86        11.90         0.62         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        6.12         1.38         2.76        21.21        32.09        20.81 
TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 
       40.24        34.65         6.58        21.27        34.59        34.13 
TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 
       13.32        22.75        12.89         0.69        27.22         1.94 
TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
        0.95         0.72        17.75         0.23        14.70         0.26 
TCGA-E9-A5UP TCGA-EW-A1IY TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OY 
       14.40         8.48        16.57        15.68        28.77        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1PA TCGA-EW-A1PB 
       40.41        41.13        23.11        18.48        18.90        19.99 
TCGA-EW-A1PC TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV 
        6.15        14.43        19.96        55.00        52.73        25.91 
TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GM-A2DC TCGA-GM-A2DD 
       22.09        17.49        10.16         7.40        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LD-A66U 
       42.71        61.91        62.33        69.30        11.84        21.24 
TCGA-LD-A7W5 TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP 
        4.08        11.44        15.32        14.70        14.79        11.57 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        2.63         3.88         4.14         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5RZ TCGA-OL-A66I TCGA-OL-A66N 
        3.22        27.91         2.79        22.32        23.47        26.04 
TCGA-OL-A66P TCGA-PL-A8LX TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA10 
       14.07         0.16         3.95        16.50         6.81         7.92 
TCGA-S3-AA17 TCGA-W8-A86G TCGA-Z7-A8R6 
        3.91         5.29       105.04 

$`AMP PEAK 29(20Q13.2) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
        8.52        43.43        47.24       104.81        18.02        41.95 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       22.06        63.12       136.73       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
      107.93        34.55        28.77       101.72        89.36        80.28 
TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST 
      107.61        74.40        37.05        29.75        24.72        99.19 
TCGA-A2-A0SU TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T5 
       54.64        44.28        17.52        17.13        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       18.90        32.55        15.42        14.50        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       31.73        23.47        22.45        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KD TCGA-A2-A3XU 
      107.70        17.19        18.15        10.59        39.65        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY 
       32.75        49.48        31.99        38.37         7.30        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       23.21        26.96        21.90        35.31        34.29        35.47 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        31.36        24.26        23.80        21.73 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 
       11.34        10.59        10.29        11.28        13.41        11.97 
TCGA-A7-A4SB TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       13.74        10.72        11.05         9.37        10.42         8.75 
TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
       13.02        53.06        31.00        43.00        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A082 TCGA-A8-A084 
       14.01        12.00         9.99         7.99        18.05        15.06 
TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A099 
        0.99        28.96        31.00        93.04        40.01         9.99 
TCGA-A8-A09B TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       12.00        25.02        19.04        15.02         0.99        14.01 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E 
       19.04        13.02        21.04        17.03        38.04         2.37 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        1.48        38.53        40.57        55.43        36.99        38.79 
TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX 
       19.79        23.24        24.79         1.12         1.18         0.43 
TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR 
        1.32         0.33         0.62         7.36         6.51         0.33 
TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN 
        0.33         4.64         7.96         7.00         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        6.28         0.33         0.33         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J3 
        0.33         5.33         5.59        68.75        59.05        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JC 
       52.18        24.16        37.48        22.36        21.53        50.86 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       21.37        26.24        62.04       102.58        99.25       108.72 
TCGA-AO-A12D TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AQ-A04J 
       64.04        41.62        28.37        14.73        70.39        26.93 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0U0 
       32.52         2.56       111.32         5.26        74.79        65.36 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM 
      114.02        85.97        75.55        52.77        48.82        62.56 
TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AX TCGA-AR-A24K 
       43.56        43.07        17.23        37.81        62.14        50.89 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24U 
       96.89        78.51        84.20         0.85        76.01        53.36 
TCGA-AR-A24X TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM TCGA-AR-A2LN 
       83.77       128.65        20.25        62.86        40.04        38.17 
TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0IA TCGA-B6-A0IC 
       40.54        16.04        20.45        10.59       220.90        50.70 
TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RI 
      146.50        18.77       126.12        84.59       110.93       234.28 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT 
       78.02       172.96       102.77       140.48       100.70        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ 
      157.41        97.48       188.68        17.98        21.47       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A2IU 
      129.70       186.48        28.27        68.94        58.88       170.17 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B5 
       55.00        38.79        28.50        46.95        40.83        48.36 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ 
       56.98        51.68        32.02        18.21        24.85        21.70 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW 
       61.68        35.67        27.19        53.69        53.95        11.67 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       48.13        42.90        31.17        38.01        22.13        13.91 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26        15.65         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB 
       16.27        15.68         9.63        44.81        32.65        24.49 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA 
       10.78        15.16        37.78        35.51        24.56        52.96 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A0W4 
        5.85         2.50        13.61        51.32        23.93        24.95 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M 
       23.05         8.81         2.01         7.23        20.12        72.56 
TCGA-BH-A18P TCGA-BH-A18S TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EY TCGA-BH-A1F0 
       30.28        66.05       113.82        82.85        17.69        25.81 
TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH 
       89.16       120.62       114.15        33.17       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 
       63.35        55.00       144.59        72.07         6.90        38.60 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V 
      130.16        10.65        20.12         0.99       109.28         8.94 
TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE 
       11.77        12.66        12.66         0.62         3.85        12.33 
TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W 
       10.92         0.16        12.03        10.42         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A275 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A141 TCGA-D8-A1J9 
        0.36         0.03         0.99         0.03        20.58        17.49 
TCGA-D8-A1JA TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS 
       16.50        20.09        20.09        19.40        20.38        12.20 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XC TCGA-D8-A1XG 
       14.70        17.79        16.73        25.74         2.66        14.73 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1Y2 
       17.69         7.96        15.85         6.35        15.16        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27M 
       14.14        17.42        16.04        13.45         9.44        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        4.80         0.76        13.08        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A10F 
        7.33        34.42        27.52        40.41        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A155 
       47.15        38.24        43.33        32.02        17.03        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J 
       23.87        14.79        17.29        18.21        17.42        19.40 
TCGA-E2-A15L TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       20.58        19.56        14.99        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK 
       28.50        16.47        37.41        32.78        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB 
        3.88        11.08        54.18        39.62        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E9-A1N4 
       28.90        18.87        16.93         5.52        15.72        19.20 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1RD TCGA-E9-A1RI 
       39.55        12.59        21.57        14.30         0.66        35.64 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22A TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
        0.79        12.53        39.09        23.51        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
        0.85        24.56         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       15.72        12.33        13.81        15.39        12.20        39.72 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX 
       18.21        18.90        13.25        25.94        22.82        29.95 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PD 
       39.78        52.96        29.82        30.08         7.86        13.94 
TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2D9 
       10.52        34.55        21.27        10.59       109.87        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
      194.27        53.13        42.28        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       53.36       110.50        38.20        43.73        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF 
       13.55        18.12        11.57         6.67         4.60         8.75 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A8F5 
        9.53        10.95         7.59        17.06        14.47         6.21 
TCGA-LL-A9Q3 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
        7.36         2.10        12.66        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 
       27.65        34.92        36.36        16.87        24.72        20.38 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VO 
       26.70        65.62        33.57        31.07         7.23        28.21 
TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 
       19.73         0.23         0.26         8.65        10.59         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        8.52         7.17         6.87         9.60         9.14       100.01 

  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE 
                        22.320                         22.405 
[1] "0.0 - 211.6 (22.3)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.1"
D29V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 29(20Q13.2) MUTATED        38       33        4        2       179
  AMP PEAK 29(20Q13.2) WILD-TYPE      45       47        5        3       163
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 29(20Q13.2) MUTATED         122         1         85         15
  AMP PEAK 29(20Q13.2) WILD-TYPE       112         1         57         14
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 29(20Q13.2) MUTATED           26       11         1       5
  AMP PEAK 29(20Q13.2) WILD-TYPE         37        7         0      11
D29V3, multiclass
            clus
vv           AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  STAGE I                              38                             45
  STAGE IA                             33                             47
  STAGE IB                              4                              5
  STAGE II                              2                              3
  STAGE IIA                           179                            163
  STAGE IIB                           122                            112
  STAGE III                             1                              1
  STAGE IIIA                           85                             57
  STAGE IIIB                           15                             14
  STAGE IIIC                           26                             37
  STAGE IV                             11                              7
  STAGE TIS                             1                              0
  STAGE X                               5                             11
[1] 13  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 29(20Q13.2) MUTATED   116 329  54  22
  AMP PEAK 29(20Q13.2) WILD-TYPE 149 265  70  17
D29V4, multiclass
    clus
vv   AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  T1                          116                            149
  T2                          329                            265
  T3                           54                             70
  T4                           22                             17
[1] 4 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  N3
  AMP PEAK 29(20Q13.2) MUTATED   235 173  74  31
  AMP PEAK 29(20Q13.2) WILD-TYPE 246 166  39  43
D29V5, multiclass
    clus
vv   AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  N0                          235                            246
  N1                          173                            166
  N2                           74                             39
  N3                           31                             43
[1] 4 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                             CM0 (I+)  M0  M1  MX
  AMP PEAK 29(20Q13.2) MUTATED          1 447  12  63
  AMP PEAK 29(20Q13.2) WILD-TYPE        4 407   7  84
D29V6, multiclass
          clus
vv         AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                447                            407
  M1                                 12                              7
  MX                                 63                             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"
D29V7, binary
                                cls
clus                               0   1
  AMP PEAK 29(20Q13.2) MUTATED   514   9
  AMP PEAK 29(20Q13.2) WILD-TYPE 500   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 29(20Q13.2) MUTATED    514    9
  AMP PEAK 29(20Q13.2) WILD-TYPE  500    2
        clus
vv       AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  FEMALE                          514                            500
  MALE                              9                              2
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 29(20Q13.2) MUTATED                            1
  AMP PEAK 29(20Q13.2) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 29(20Q13.2) MUTATED                             442
  AMP PEAK 29(20Q13.2) WILD-TYPE                           312
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 29(20Q13.2) MUTATED                               48
  AMP PEAK 29(20Q13.2) WILD-TYPE                            127
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 29(20Q13.2) MUTATED                     1
  AMP PEAK 29(20Q13.2) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 29(20Q13.2) MUTATED                                 11
  AMP PEAK 29(20Q13.2) WILD-TYPE                               18
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 29(20Q13.2) MUTATED                    1             19
  AMP PEAK 29(20Q13.2) WILD-TYPE                 14             25
D29V8, multiclass
                                  clus
vv                                 AMP PEAK 29(20Q13.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             442
  INFILTRATING LOBULAR CARCINOMA                             48
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             19
                                  clus
vv                                 AMP PEAK 29(20Q13.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               312
  INFILTRATING LOBULAR CARCINOMA                              127
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             18
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               25
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V9, binary
                                cls
clus                               0   1
  AMP PEAK 29(20Q13.2) MUTATED   168 355
  AMP PEAK 29(20Q13.2) WILD-TYPE 114 388
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 29(20Q13.2) MUTATED    168  355
  AMP PEAK 29(20Q13.2) WILD-TYPE  114  388
     clus
vv    AMP PEAK 29(20Q13.2) MUTATED AMP PEAK 29(20Q13.2) WILD-TYPE
  NO                           168                            114
  YES                          355                            388
[1] 2 2
[1] FALSE
D29V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 29(20Q13.2) MUTATED                                  0    30
  AMP PEAK 29(20Q13.2) WILD-TYPE                                1    26
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 29(20Q13.2) MUTATED                          87   351
  AMP PEAK 29(20Q13.2) WILD-TYPE                        71   366
D29V11, multiclass
                                  clus
vv                                 AMP PEAK 29(20Q13.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      30
  BLACK OR AFRICAN AMERICAN                                  87
  WHITE                                                     351
                                  clus
vv                                 AMP PEAK 29(20Q13.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        26
  BLACK OR AFRICAN AMERICAN                                    71
  WHITE                                                       366
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V12, binary
                                cls
clus                               0   1
  AMP PEAK 29(20Q13.2) MUTATED    16 421
  AMP PEAK 29(20Q13.2) WILD-TYPE  20 405
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 29(20Q13.2) MUTATED     16  421
  AMP PEAK 29(20Q13.2) WILD-TYPE   20  405
                        clus
vv                       AMP PEAK 29(20Q13.2) MUTATED
  HISPANIC OR LATINO                               16
  NOT HISPANIC OR LATINO                          421
                        clus
vv                       AMP PEAK 29(20Q13.2) WILD-TYPE
  HISPANIC OR LATINO                                 20
  NOT HISPANIC OR LATINO                            405
[1] 2 2
[1] FALSE

Clustering(30) Variable = DEL PEAK  1(1P36.13) MUTATION ANALYSIS
D30V1, survival
                                sevent
clus2                              0   1
  DEL PEAK  1(1P36.13) MUTATED   367  53
  DEL PEAK  1(1P36.13) WILD-TYPE 519  66
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           420                            585 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                            53                             66 
$`DEL PEAK  1(1P36.13) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SH TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO 
        0.39        14.37        47.24         7.96        39.32        28.01 
TCGA-A2-A04P TCGA-A2-A04R TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CS TCGA-A2-A0CT 
       18.02        82.16        64.04        55.43        75.55        75.25 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EO 
       64.04        56.81        21.14        25.22        89.36        80.28 
TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T4 TCGA-A2-A0T7 
       35.05        24.16        27.12        17.52        20.52        20.75 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ 
       18.21        15.42        21.90        21.67        14.50        18.61 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       17.36        36.79        19.20        16.31        17.19        18.15 
TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW 
       20.88        33.93        29.98        31.99        38.37         7.30 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26F 
       21.90        38.30        35.67        12.72        31.36        24.26 
TCGA-A7-A2KD TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       22.32        14.93        21.17        17.92        14.73        12.10 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06T 
        9.37        10.42         8.75        13.02        17.98        53.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       29.03        26.01        17.03        53.98         9.01        43.00 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A084 
       18.97        18.97        17.03        10.98         8.98        15.06 
TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       38.01        33.01        37.05        31.00        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A 
       33.01        43.00        30.97        12.00         9.99         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M 
       12.00         1.02        50.04        49.05        45.07        33.07 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A6 
        1.02        25.02         8.98         0.99        19.04        21.04 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM 
       13.02        17.03         2.37        38.53        38.20        26.04 
TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV 
        0.99        14.83         1.55         0.07         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y 
        0.69         0.43         1.74         1.12         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.23         0.33         0.62         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        8.02         7.36         6.51         0.33         0.33         6.44 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FV 
        7.96         7.00         7.59         7.17         6.02         0.33 
TCGA-AN-A0FW TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03L 
        0.36         0.30         0.33         0.33         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       66.77        84.69        21.40        24.16        37.48        20.32 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JI 
       53.03        21.53        72.00        76.77        26.24        50.24 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12F 
       55.33        71.80       102.58        96.10        90.58        48.36 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 
       82.62        61.87         0.53        17.79        26.93         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY 
       15.62        32.91        49.32        86.66        98.93        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AP 
       76.14       101.95        83.87       114.02        75.55        39.98 
TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R 
       63.62        20.22       109.58        73.02       101.52        87.22 
TCGA-AR-A24T TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       76.01        56.15        73.18        72.76        58.92        93.83 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 
       42.87         7.36        39.39        16.04        20.45        77.62 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0IQ 
       12.13       129.57       146.50       112.37       110.14       140.88 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU 
      211.56        68.45        81.17       102.77       100.70       131.21 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KF 
       79.63        17.98        21.47       113.79        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0B2 TCGA-BH-A0B3 
       73.51       139.17       103.63        38.79        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BP 
       39.16        48.36        51.68        37.22        25.71        48.69 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD 
       45.57        49.94        41.75        44.02        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0E2 TCGA-BH-A0E6 
       31.17        23.44        38.01        13.91        14.30         9.63 
TCGA-BH-A0E9 TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 
       46.19        24.49        30.35        10.78        23.08        41.00 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K 
       12.89        51.32        23.93         8.81        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U 
       26.66        30.28        55.63        37.55         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F8 
       51.16        69.93        42.28        12.00        31.53        24.66 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A42T 
       33.17        74.73        45.63        83.31       130.16         0.99 
TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12W TCGA-C8-A134 TCGA-C8-A135 
       11.93        12.66        11.77        12.66         0.69         0.62 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
        3.75        12.33         0.16        12.03        10.42         2.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B 
        0.23         0.36         0.03         0.03        12.20         0.99 
TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA 
        0.03        11.90        13.97        21.14        14.17        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JI 
       18.71        15.78        18.15        18.90        12.03        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X8 TCGA-D8-A1XF 
       20.09        19.40        21.01        18.58        25.74        15.22 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ 
       14.73        21.83        14.50        19.92         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY 
       15.85        16.31         6.35        12.99        15.16        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27T TCGA-D8-A27W 
       15.32         3.81        14.14        16.04        13.08        12.26 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14N 
       34.42        46.59        40.41        40.11        28.44        47.15 
TCGA-E2-A14O TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A15A 
       44.68        34.26        17.03        19.43        14.79        23.34 
TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1IH 
       21.63        12.92        13.02        17.06        14.07        33.73 
TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A2P5 
       33.70        27.42        39.62        24.59        18.87        16.93 
TCGA-E2-A2P6 TCGA-E2-A576 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND 
        5.52        19.00        13.48        36.56        39.55        12.59 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 
       20.05         9.86        11.90         2.10         1.38        21.21 
TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 
       40.24        34.65         6.58        21.27        34.59        34.13 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       12.53        13.32        39.09        17.06         0.69        27.22 
TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y 
        0.95         0.72        17.75        26.07        15.72         0.23 
TCGA-E9-A5UP TCGA-EW-A1IW TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
       14.40        12.20        18.90        28.77        25.94        22.82 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC 
       29.85        40.41        52.96        23.11         7.86         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV 
       13.94        10.52        14.43        19.96        55.00        25.91 
TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A3NW 
       22.09        17.49        10.16        10.59         7.40       110.50 
TCGA-GM-A3XL TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YL TCGA-LL-A5YM 
       69.30        72.03        11.57        11.44        17.06        15.32 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 
       14.79        11.57         3.22         6.21         7.36        27.91 
TCGA-OK-A5Q2 TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N TCGA-PL-A8LX 
        2.10        20.38        65.62        33.57        26.04         0.16 
TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA17 TCGA-XX-A89A TCGA-Z7-A8R5 
       16.50         6.81         8.65         3.91         9.14       100.01 

$`DEL PEAK  1(1P36.13) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        43.43        48.10        14.27        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04T 
       31.79        19.20        18.21       104.81        41.95        73.84 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       22.06        63.12        36.13       136.73        64.57        24.79 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU TCGA-A2-A0CV 
      112.08        92.48        88.60       107.93         5.19        63.45 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0EQ 
       34.55        33.76        28.77       101.72       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       74.40        37.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       99.19        54.64        44.88        50.43        44.28        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD 
        8.38        18.71        17.46        18.90        32.55        25.28 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FZ 
       19.33        48.46        31.73        23.77        23.47        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25E 
       20.25        19.56        16.47        52.47       107.70        91.92 
TCGA-A2-A25F TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       10.59        39.65        83.01        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       34.98        24.39        21.30        23.21        26.96        21.14 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB 
       35.31        34.29        35.47        30.61        37.45        33.11 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26G TCGA-A7-A26H 
       31.73        10.72        23.61        29.56        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       21.73        20.61        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A5ZW 
       13.41        14.70        11.97        13.74        14.50        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06X TCGA-A8-A06Z 
       11.05        10.29        13.02         1.02        31.00         1.02 
TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07U 
       19.99        14.01        12.00         9.99         7.99        24.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.99        28.04        18.05        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08T TCGA-A8-A08Z 
       28.96        19.96        12.00         9.99        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A09K TCGA-A8-A09T TCGA-A8-A09V 
       33.01        17.95        41.98        29.98        19.04        15.02 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C 
       14.01        12.00        13.02         0.99        38.04         0.95 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
       10.85         2.66         1.48        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3HN 
       38.79        50.70         1.02         0.92         2.27         0.69 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A62Y TCGA-AC-A6NO TCGA-AC-A8OR TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF 
        1.81         1.68         1.32         0.16         0.33         4.64 
TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        6.28         0.33         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03O 
       12.33         0.33         5.33         5.59        47.84        81.63 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 
       68.75        47.87        59.05        29.13        32.78        52.18 
TCGA-AO-A0J8 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JJ TCGA-AO-A125 
       22.36        50.70        50.86        21.37        62.04        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
      108.72       106.78        77.56        64.04        57.30        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H3 
       28.37        14.73        70.39        24.79       130.09        32.52 
TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
        2.56         9.99       111.32         5.26        74.79        29.75 
TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       64.83        65.36        85.97        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR 
       48.82        62.56        43.73        43.56        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24M 
       37.81        76.21        61.28        62.14        50.89        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
       78.51        84.20         0.85        53.36        85.35        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       83.77        79.00        78.48       128.65        20.25        62.86 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QQ 
       40.04        38.17        40.54        20.38        54.74        10.59 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ 
      143.38       149.59       220.90        50.70        65.72       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI 
       18.77       126.12        84.59       110.93       189.01       234.28 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV 
       78.02       172.96       162.05       140.48        89.46       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       97.48       188.68       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
       68.94        58.88       170.17        85.35        54.28        49.94 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       55.00        24.53        20.45        25.55        28.50        46.95 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ 
       56.94        56.98        32.02        18.21        24.85        21.70 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       44.05        61.68        35.67        27.19        53.69        53.95 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO 
       11.67        49.05        48.13        22.13        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       15.65         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE 
       16.27         4.41        15.68        44.81        32.65        31.00 
TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA 
       24.43        15.16        37.78        35.51        24.56        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       27.25        50.79         5.59        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18S 
       23.05         2.01         7.23        72.56        37.74        66.05 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       91.99       113.82        82.85        55.69        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FG 
       25.81        89.16        97.48       120.62       114.15       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU 
       36.92        63.35        55.00        72.07       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q 
        6.90         0.72        38.60        57.83        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q 
       20.12       109.28         8.94        11.77        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 
       12.66        12.66        12.66         3.12         1.78         1.45 
TCGA-C8-A137 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HN TCGA-C8-A26V 
        3.85        10.92        11.34        11.34         3.25         0.30 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A3M8 TCGA-D8-A13Z 
        0.43         8.28         9.67         0.03         0.23        20.88 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J9 
       13.25        20.58        14.17        13.48        19.20        17.49 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS 
       12.03        14.01        20.12        20.09        20.38        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA 
       13.32        14.70        17.79        16.73        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XM TCGA-D8-A1XW TCGA-D8-A1Y0 
       18.15         2.66        17.16        17.69        12.66        15.52 
TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
       14.24        17.42        13.45        13.05        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V 
       16.41        13.48         4.80         0.76        10.09        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10B 
       14.50        18.51         7.33        43.00        27.52        37.51 
TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
       28.87        40.96        38.24        38.60        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 
       43.33        32.02        31.96        28.60        25.41        27.12 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       23.24        21.04        23.87        25.05        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       20.71        18.21        17.42        19.40         9.04        20.58 
TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
        7.73        19.56        14.99        60.53        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       37.41        32.78        28.44        22.65         3.88        22.19 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE 
       20.98        11.08        54.18        19.66        40.47        28.90 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A3DX TCGA-E2-A56Z 
      106.75       102.61         8.75        43.04        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       30.61        34.92        19.89         9.21        19.20        36.82 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R2 
       12.00        13.12        35.77        21.57        14.30         0.62 
TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RI 
        6.12         2.76        32.09        20.81         0.66        35.64 
TCGA-E9-A227 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A245 
        0.79        22.75        12.89        23.51        24.10         0.85 
TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A54X 
        1.94        24.56         0.76        18.41         0.62        12.33 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY 
       14.70         0.26        13.81        15.39        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX TCGA-EW-A1P0 
       18.21        13.25        16.57        15.68        29.95        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB 
       39.78        29.82        18.48        30.08        18.90        19.99 
TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA 
       34.55        52.73        21.27       109.87        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI 
       53.13        53.52        43.04        42.71        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY 
       62.33        90.84        76.64        77.33        53.36        38.20 
TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       43.73        66.38        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 
        6.67         4.08         4.60         8.75         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        7.59        14.70        14.47         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5D7 
        4.50         4.50         5.59         2.79        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       31.99        58.62        27.65        34.92        36.36        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66L TCGA-OL-A66O 
       24.72        22.32        26.70        23.47        31.07         7.23 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-PL-A8LZ 
       14.07        28.21        19.73         0.23         0.26         3.95 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
       10.59         7.92         5.56         8.52         7.17         6.87 
TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R6 
        5.29         9.60       105.04 

  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                        20.485                         24.430 
[1] "0.0 - 211.6 (20.5)" "0.0 - 234.3 (24.4)"
[1] "hr=" "1.4"
D30V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  1(1P36.13) MUTATED        25       22        2        2       135
  DEL PEAK  1(1P36.13) WILD-TYPE      58       58        7        3       207
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  1(1P36.13) MUTATED         106         1         68         18
  DEL PEAK  1(1P36.13) WILD-TYPE       128         1         74         11
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  1(1P36.13) MUTATED           31       11         0       6
  DEL PEAK  1(1P36.13) WILD-TYPE         32        7         1      10
D30V3, multiclass
            clus
vv           DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  STAGE I                              25                             58
  STAGE IA                             22                             58
  STAGE IB                              2                              7
  STAGE II                              2                              3
  STAGE IIA                           135                            207
  STAGE IIB                           106                            128
  STAGE III                             1                              1
  STAGE IIIA                           68                             74
  STAGE IIIB                           18                             11
  STAGE IIIC                           31                             32
  STAGE IV                             11                              7
  STAGE TIS                             0                              1
  STAGE X                               6                             10
[1] 13  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(1P36.13) MUTATED    78 275  48  25
  DEL PEAK  1(1P36.13) WILD-TYPE 187 319  76  14
D30V4, multiclass
    clus
vv   DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  T1                           78                            187
  T2                          275                            319
  T3                           48                             76
  T4                           25                             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  N3
  DEL PEAK  1(1P36.13) MUTATED   169 158  54  38
  DEL PEAK  1(1P36.13) WILD-TYPE 312 181  59  36
D30V5, multiclass
    clus
vv   DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  N0                          169                            312
  N1                          158                            181
  N2                           54                             59
  N3                           38                             36
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK  1(1P36.13) MUTATED          1 356  12  58
  DEL PEAK  1(1P36.13) WILD-TYPE        4 498   7  89
D30V6, multiclass
          clus
vv         DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                356                            498
  M1                                 12                              7
  MX                                 58                             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"
D30V7, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.13) MUTATED   419   8
  DEL PEAK  1(1P36.13) WILD-TYPE 595   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED    419    8
  DEL PEAK  1(1P36.13) WILD-TYPE  595    3
        clus
vv       DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  FEMALE                          419                            595
  MALE                              8                              3
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK  1(1P36.13) MUTATED                            1
  DEL PEAK  1(1P36.13) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  1(1P36.13) MUTATED                             337
  DEL PEAK  1(1P36.13) WILD-TYPE                           417
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  1(1P36.13) MUTATED                               64
  DEL PEAK  1(1P36.13) WILD-TYPE                            111
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK  1(1P36.13) MUTATED                     1
  DEL PEAK  1(1P36.13) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  1(1P36.13) MUTATED                                  7
  DEL PEAK  1(1P36.13) WILD-TYPE                               22
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  1(1P36.13) MUTATED                    2             15
  DEL PEAK  1(1P36.13) WILD-TYPE                 13             29
D30V8, multiclass
                                  clus
vv                                 DEL PEAK  1(1P36.13) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             337
  INFILTRATING LOBULAR CARCINOMA                             64
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            7
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             15
                                  clus
vv                                 DEL PEAK  1(1P36.13) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               417
  INFILTRATING LOBULAR CARCINOMA                              111
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             22
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               29
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V9, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.13) MUTATED   128 299
  DEL PEAK  1(1P36.13) WILD-TYPE 154 444
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED    128  299
  DEL PEAK  1(1P36.13) WILD-TYPE  154  444
     clus
vv    DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  NO                           128                            154
  YES                          299                            444
[1] 2 2
[1] FALSE
D30V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  1(1P36.13) MUTATED                                  0    23
  DEL PEAK  1(1P36.13) WILD-TYPE                                1    33
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  1(1P36.13) MUTATED                          66   289
  DEL PEAK  1(1P36.13) WILD-TYPE                        92   428
D30V11, multiclass
                                  clus
vv                                 DEL PEAK  1(1P36.13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      23
  BLACK OR AFRICAN AMERICAN                                  66
  WHITE                                                     289
                                  clus
vv                                 DEL PEAK  1(1P36.13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        33
  BLACK OR AFRICAN AMERICAN                                    92
  WHITE                                                       428
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V12, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.13) MUTATED    16 335
  DEL PEAK  1(1P36.13) WILD-TYPE  20 491
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED     16  335
  DEL PEAK  1(1P36.13) WILD-TYPE   20  491
                        clus
vv                       DEL PEAK  1(1P36.13) MUTATED
  HISPANIC OR LATINO                               16
  NOT HISPANIC OR LATINO                          335
                        clus
vv                       DEL PEAK  1(1P36.13) WILD-TYPE
  HISPANIC OR LATINO                                 20
  NOT HISPANIC OR LATINO                            491
[1] 2 2
[1] FALSE

Clustering(31) Variable = DEL PEAK  2(1P22.1) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  2(1P22.1) MUTATED   288  50
  DEL PEAK  2(1P22.1) WILD-TYPE 598  69
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                          338                           667 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           50                            69 
$`DEL PEAK  2(1P22.1) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO 
        0.39        14.37        48.10        31.79        39.32        28.01 
TCGA-A2-A04R TCGA-A2-A04Y TCGA-A2-A0CO TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CW 
       82.16        36.13       112.08        75.55        75.25        64.04 
TCGA-A2-A0CX TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET 
       56.81        25.22        89.36        80.28        79.76        35.05 
TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T4 TCGA-A2-A0YE TCGA-A2-A0YG 
       24.16        27.12        17.52        20.52        18.21        21.90 
TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A25C TCGA-A2-A3KC 
       21.67        18.61        23.77        17.36        17.19        20.88 
TCGA-A2-A3XU TCGA-A2-A3XZ TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A13E 
       29.98        31.99        21.14        21.90        30.61        10.72 
TCGA-A7-A26E TCGA-A7-A2KD TCGA-A7-A3J1 TCGA-A7-A4SA TCGA-A7-A4SF TCGA-A7-A56D 
       31.36        22.32        11.28        14.93        17.92        14.73 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A07B 
        8.75        13.02        53.06        29.03        26.01        43.00 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07R TCGA-A8-A084 
       18.97        18.97        14.01        17.03         8.98        15.06 
TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L 
       38.01        33.01        19.96        12.00        37.05         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A099 
       31.00         0.99        33.01        43.00        30.97         9.99 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
        9.99        12.00         1.02        50.04        49.05        45.07 
TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 
        1.02         8.98        14.01        12.00        19.04        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BM TCGA-AC-A2FM 
       21.04        13.02        17.03         2.37        38.20        26.04 
TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A62V TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y 
        0.99        14.83         0.07         1.74         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.23         0.33         2.96         1.78         8.02         7.36 
TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FT 
        0.16         0.33         6.44         7.00         7.17         6.02 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L 
       12.33         0.30         0.33         0.33         5.59        80.28 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0JA 
       66.77        84.69        21.40        24.16        20.32        21.53 
TCGA-AO-A0JD TCGA-AO-A0JI TCGA-AO-A124 TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A1KP 
       72.00        50.24       102.58        90.58        48.36        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A7U7 
       61.87        70.39         0.53        24.79         5.65         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0U2 TCGA-AR-A1AP 
      111.32        49.32        86.66        98.93        83.87        39.98 
TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24Z 
       76.21        63.62        87.22        76.01        50.96        79.00 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A2LL 
       56.15        73.18        72.76        58.92        42.87         7.36 
TCGA-AR-A2LO TCGA-AR-A5QN TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IG TCGA-B6-A0IH 
       39.39        16.04        12.13       129.57       146.50       112.37 
TCGA-B6-A0IO TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0WV 
      110.14        81.17       162.05       102.77       100.70        79.63 
TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN 
       17.98       113.79        58.88       101.52        73.51       139.17 
TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B5 
       54.28       103.63        24.53        28.50        40.83        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ 
       56.94        56.98        37.22        18.21        25.71        21.70 
TCGA-BH-A0BL TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD 
       44.05        49.94        41.75        44.02        42.90        45.83 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EB TCGA-BH-A0GZ 
       47.41        16.27        14.30        46.19        24.49        10.78 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A0W4 
       23.08        41.00        12.89        51.32        23.93        24.95 
TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18T 
        8.81        20.12        90.84        26.66        30.28         7.36 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       51.39        51.16        69.93        42.28        12.00        55.69 
TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FE TCGA-BH-A1FL TCGA-BH-A1FM 
       17.69        97.48        24.66        74.73        55.00        45.63 
TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12W TCGA-C8-A12X 
       72.07        38.60         0.99        11.93        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26X TCGA-C8-A26Z 
        1.78         0.62        12.03        10.42         0.36         8.28 
TCGA-C8-A274 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A146 
        0.03        12.20         0.03        20.88        13.97        21.14 
TCGA-D8-A1J8 TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ 
       14.17        15.78        18.90        12.03        18.97        20.09 
TCGA-D8-A1JP TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XR 
       21.01        15.22        14.73        17.69        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y3 
       16.31        12.99        15.16        16.54         3.81        14.14 
TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W 
       13.45        14.43        13.48        10.09        13.08        12.26 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14O TCGA-E2-A14Q 
       34.42        46.59        40.11        28.44        44.68        38.24 
TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A15A 
       33.30        34.26        28.60        27.12        19.43        23.34 
TCGA-E2-A15E TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1IH TCGA-E2-A1L8 
       20.71        19.56        14.07        60.53        33.73        39.62 
TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A576 
       24.59        18.87        43.04        16.93         7.20        19.00 
TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NI TCGA-E9-A1R2 
       19.20        13.48        13.12        36.56         9.86         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC 
        2.10         6.12         1.38        21.21        20.81        40.24 
TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
       21.27        34.13        39.09        22.75        12.89        23.51 
TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO 
        0.69        27.22         0.95         0.72        17.75        26.07 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UP TCGA-EW-A1IW TCGA-EW-A1J6 
       15.72         0.23        14.70        14.40        12.20        28.77 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1PC TCGA-EW-A1PD 
       29.85        40.41        52.96        23.11         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-GI-A2C8 
       10.52        19.96        55.00        25.91        17.49         7.40 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-JL-A3YX TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP 
      110.50        38.20        11.57        17.06        15.32        14.79 
TCGA-LL-A6FP TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A66K 
       11.57         6.21         7.36        46.55        36.36        33.57 
TCGA-OL-A66N TCGA-PL-A8LV TCGA-PL-A8LX TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH 
       26.04         0.23         0.16        16.50         6.81         8.65 
TCGA-XX-A89A TCGA-Z7-A8R5 
        9.14       100.01 

$`DEL PEAK  2(1P22.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        43.43        14.27        47.24        20.88        13.68 
TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
        7.96        19.20        18.21       104.81        18.02        41.95 
TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CK 
       73.84        22.06        63.12        64.04        55.43       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU 
       64.57        24.79        92.48        88.60       107.93         5.19 
TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM 
       63.45        21.14        34.55        33.76        28.77       101.72 
TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
      107.61        74.40        37.05        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.72        99.19        54.64        44.88        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
       17.13         8.38        18.71        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       32.55        25.28        15.42        14.50        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       31.73        23.47        36.79        22.45        20.25        19.20 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25D 
       19.56        16.47        52.47       107.70        16.31        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XV 
       91.92        10.59        39.65        33.93        83.01        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX 
       49.48        38.40        34.98        38.37         7.30        24.39 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       21.30        23.21        26.96        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F 
       35.47        37.45        35.67        33.11        31.73        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        24.26        23.74        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 
       20.61        11.34        10.59        10.29        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A5ZW 
       11.97        13.74        14.50        21.17        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06P TCGA-A8-A06Q 
       11.05        10.29         9.37        10.42        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       17.98        31.00         1.02        17.03        53.98         9.01 
TCGA-A8-A07E TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U 
       19.99        12.00         9.99        10.98         7.99        24.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.99        28.04        18.05        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 
       28.96        31.00        93.04        40.01        33.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09T 
       41.98        12.00        29.98        33.07        25.02        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       15.02         0.99         0.99        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        2.66         1.48        38.53        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3HN 
       38.79        50.70         1.02         0.92         2.27         0.69 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        1.55         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AL 
        1.68         1.12         1.32         0.62         1.71         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FS 
        0.33         0.33         4.64         7.96         7.59         6.28 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL 
        0.33         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03O 
        0.33         0.33         0.33         5.33        47.84        81.63 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 
       68.75        47.87        59.05        29.13        32.78        52.18 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE 
       37.48        22.36        53.03        50.70        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 
       21.37        26.24        62.04        55.33        71.80        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
      108.72       106.78        96.10        77.56        64.04        57.30 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L 
       41.62        28.37        14.73        17.79        26.93       130.09 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TR TCGA-AR-A0TS 
       15.62        32.52         2.56        32.91         5.26        74.79 
TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       29.75        64.83        55.86        76.14        65.36       101.95 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
      114.02        85.97        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR 
       48.82        62.56        43.73        43.56        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       37.81        61.28        62.14        20.22       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LE 
       53.36        85.35        83.77        78.48        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR 
       20.25        62.86        40.04        38.17        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
       54.74        20.45        10.59        77.62       143.38       149.59 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
      220.90        50.70        65.72       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH 
       84.59       110.93       140.88       211.56        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
      234.28        78.02       172.96       140.48        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 
      157.41        97.48       188.68        21.47       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A2IU TCGA-B6-A401 
      186.48        28.27        68.94        43.59       170.17        85.35 
TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 
       49.94        55.00        38.79        20.45        25.55        46.95 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BG TCGA-BH-A0BM 
       39.55        39.16        51.68        32.02        24.85        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT 
       35.67        48.69        27.19        53.69        53.95        45.57 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       11.67        49.05        48.13        31.17        23.44        38.01 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       22.13        13.91        48.23        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 
        2.56        38.47        45.17         4.41        15.68         9.63 
TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 
       44.81        32.65        31.00        24.43        30.35        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       37.78        35.51        24.56        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0HY 
        5.85         2.50        13.61        36.85        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I 
        5.59        42.35        44.81        23.05         2.01         7.23 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO 
       72.56        37.74        55.63        37.55        66.05        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
      113.82        82.85        49.58        25.81        31.53        89.16 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      120.62       114.15        33.17       122.89        36.92        63.35 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 
      144.59        72.07         6.90         0.72        83.31        57.83 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
      130.16        10.65         6.44        20.12       109.28         8.94 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U 
       11.77        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A138 
       12.66         3.12         1.45         0.69         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HM 
       12.33        10.92        11.34        11.34         0.16         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A275 
        3.25         0.30         0.23         0.43         9.67         0.03 
TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.99         0.23        11.90        13.25        20.58 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       14.17        13.48        19.20        17.49        16.50        18.71 
TCGA-D8-A1JD TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       18.15        12.03        14.01        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 
       20.38        12.20        13.32        14.70        18.58        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       16.73        25.74        23.90        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XT 
       17.16        21.83        14.50        19.92         7.96         6.35 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F 
       12.66        15.32        15.52        14.24        17.42        16.04 
TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27V 
       13.05         9.44        16.41         4.80         0.76        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A 
       14.50        18.51         7.33        43.00        27.52        40.41 
TCGA-E2-A10B TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S 
       37.51        28.87        47.15        40.96        38.60        33.17 
TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 
       43.33        32.02        31.96        17.03        25.41        23.24 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        25.05        22.82        17.29 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       21.63        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 
       20.58         7.73        13.02        17.06        14.99        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       53.03        29.95        32.35        28.50        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       38.30        37.41        32.78        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
        3.88        22.19        20.98        11.08        54.18        27.42 
TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       19.66        40.47        28.90       106.75       102.61         8.75 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU 
        5.52        15.72        30.61        34.92        19.89         9.21 
TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF 
       36.82        12.00        39.55        12.59        35.77        20.05 
TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD 
       21.57        11.90        14.30         2.76        32.09         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 
       34.65         6.58        34.59        35.64         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A 
       13.32        24.10        17.06         0.85         1.94        24.56 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5FL TCGA-E9-A5UO 
        0.76        18.41         0.62        12.33         0.26        13.81 
TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       15.39        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 
       16.57        15.68        25.94        22.82        29.95        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA 
       39.78        29.82        18.48        30.08         7.86        18.90 
TCGA-EW-A1PB TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 
       19.99        14.43        34.55        52.73        22.09        21.27 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       10.16        10.59       109.87        59.57       194.27        53.13 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       53.52        43.04        42.71        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3XG TCGA-GM-A3XL 
       90.84        76.64        77.33        53.36        43.73        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
        6.67         4.08         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR 
       10.95         7.59        14.70        14.47         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 
        4.14         4.50         4.50         5.59         3.22        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       34.92        16.87        24.72        22.32        20.38        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO 
       23.47        65.62        31.07         7.23        14.07        28.21 
TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 
       19.73         0.26         3.95        10.59         7.92         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        8.52         7.17         6.87         3.91         5.29         9.60 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                       162.05                        234.28 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                        21.24                         23.24 
[1] "0.0 - 162.1 (21.2)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.7"
D31V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  2(1P22.1) MUTATED        19       18        2        1       113
  DEL PEAK  2(1P22.1) WILD-TYPE      64       62        7        4       229
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  2(1P22.1) MUTATED          74         1         59         16
  DEL PEAK  2(1P22.1) WILD-TYPE       160         1         83         13
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  2(1P22.1) MUTATED           26        9         0       6
  DEL PEAK  2(1P22.1) WILD-TYPE         37        9         1      10
D31V3, multiclass
            clus
vv           DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  STAGE I                             19                            64
  STAGE IA                            18                            62
  STAGE IB                             2                             7
  STAGE II                             1                             4
  STAGE IIA                          113                           229
  STAGE IIB                           74                           160
  STAGE III                            1                             1
  STAGE IIIA                          59                            83
  STAGE IIIB                          16                            13
  STAGE IIIC                          26                            37
  STAGE IV                             9                             9
  STAGE TIS                            0                             1
  STAGE X                              6                            10
[1] 13  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(1P22.1) MUTATED    64 216  41  24
  DEL PEAK  2(1P22.1) WILD-TYPE 201 378  83  15
D31V4, multiclass
    clus
vv   DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  T1                          64                           201
  T2                         216                           378
  T3                          41                            83
  T4                          24                            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  N3
  DEL PEAK  2(1P22.1) MUTATED   138 120  50  30
  DEL PEAK  2(1P22.1) WILD-TYPE 343 219  63  44
D31V5, multiclass
    clus
vv   DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  N0                         138                           343
  N1                         120                           219
  N2                          50                            63
  N3                          30                            44
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  2(1P22.1) MUTATED          1 291   9  44
  DEL PEAK  2(1P22.1) WILD-TYPE        4 563  10 103
D31V6, multiclass
          clus
vv         DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  CM0 (I+)                           1                             4
  M0                               291                           563
  M1                                 9                            10
  MX                                44                           103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V7, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P22.1) MUTATED   340   5
  DEL PEAK  2(1P22.1) WILD-TYPE 674   6
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED    340    5
  DEL PEAK  2(1P22.1) WILD-TYPE  674    6
        clus
vv       DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  FEMALE                         340                           674
  MALE                             5                             6
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  2(1P22.1) MUTATED                            0
  DEL PEAK  2(1P22.1) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  2(1P22.1) MUTATED                             266
  DEL PEAK  2(1P22.1) WILD-TYPE                           488
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  2(1P22.1) MUTATED                               57
  DEL PEAK  2(1P22.1) WILD-TYPE                            118
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  2(1P22.1) MUTATED                     1
  DEL PEAK  2(1P22.1) WILD-TYPE                   5
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  2(1P22.1) MUTATED                                  9
  DEL PEAK  2(1P22.1) WILD-TYPE                               20
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  2(1P22.1) MUTATED                    3              9
  DEL PEAK  2(1P22.1) WILD-TYPE                 12             35
D31V8, multiclass
                                  clus
vv                                 DEL PEAK  2(1P22.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            266
  INFILTRATING LOBULAR CARCINOMA                            57
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           9
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK  2(1P22.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              488
  INFILTRATING LOBULAR CARCINOMA                             118
  MEDULLARY CARCINOMA                                          5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            20
  MUCINOUS CARCINOMA                                          12
  OTHER  SPECIFY                                              35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V9, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P22.1) MUTATED    93 252
  DEL PEAK  2(1P22.1) WILD-TYPE 189 491
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED     93  252
  DEL PEAK  2(1P22.1) WILD-TYPE  189  491
     clus
vv    DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  NO                           93                           189
  YES                         252                           491
[1] 2 2
[1] FALSE
D31V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  2(1P22.1) MUTATED                                  0    17
  DEL PEAK  2(1P22.1) WILD-TYPE                                1    39
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1P22.1) MUTATED                          44   241
  DEL PEAK  2(1P22.1) WILD-TYPE                       114   476
D31V11, multiclass
                                  clus
vv                                 DEL PEAK  2(1P22.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     17
  BLACK OR AFRICAN AMERICAN                                 44
  WHITE                                                    241
                                  clus
vv                                 DEL PEAK  2(1P22.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       39
  BLACK OR AFRICAN AMERICAN                                  114
  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"
D31V12, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P22.1) MUTATED     8 272
  DEL PEAK  2(1P22.1) WILD-TYPE  28 554
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED      8  272
  DEL PEAK  2(1P22.1) WILD-TYPE   28  554
                        clus
vv                       DEL PEAK  2(1P22.1) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         272
                        clus
vv                       DEL PEAK  2(1P22.1) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           554
[1] 2 2
[1] FALSE

Clustering(32) Variable = DEL PEAK  3(2Q37.3) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  3(2Q37.3) MUTATED   265  34
  DEL PEAK  3(2Q37.3) WILD-TYPE 621  85
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                          299                           706 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           34                            85 
$`DEL PEAK  3(2Q37.3) MUTATED`
TCGA-A1-A0SH TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04U 
       47.24        31.79        39.32        28.01        73.84        22.06 
TCGA-A2-A04Y TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
       36.13        75.55        75.25         5.19        63.45        64.04 
TCGA-A2-A0D0 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0SV 
       21.14        80.28        79.76        35.05        34.29        27.12 
TCGA-A2-A0SW TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       44.88        21.67        18.61        23.77        17.36        36.79 
TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A7-A0CE 
       19.20        33.93        83.01        31.99        24.39        35.31 
TCGA-A7-A0DA TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A2KD TCGA-A7-A3J1 
       35.67        10.72        12.72        24.26        22.32        11.28 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06Q 
       21.17        14.73         9.37        10.42         8.75         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A079 
       53.06        29.03        31.00        26.01         1.02         9.01 
TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07U TCGA-A8-A07W 
       43.00        18.97        17.03        10.98        24.99         9.99 
TCGA-A8-A08B TCGA-A8-A08I TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 
       38.01        12.00         0.99        33.01        43.00        30.97 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
       12.00         9.99        12.00         1.02        49.05        45.07 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 
       33.07         1.02        25.02        19.04        19.04        21.04 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BM TCGA-AC-A2FF TCGA-AC-A2FM 
       13.02        17.03         2.37        38.20        55.43        26.04 
TCGA-AC-A2QH TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A6IW TCGA-AN-A03Y TCGA-AN-A049 
        1.02        16.57         0.07         0.69         0.33         0.62 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        1.71         8.02         6.51         0.33         0.33         0.33 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FZ TCGA-AN-A0XP TCGA-AN-A0XT 
        7.00         7.59         6.02         0.33         0.30         0.33 
TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J6 
       47.84        84.69        47.87        29.13        21.40        37.48 
TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A12A 
       50.70        72.00        76.77        50.24        55.33        90.58 
TCGA-AO-A12F TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 
       48.36        61.87         0.53        17.79        26.93         5.65 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TY 
        2.56        32.91       111.32        74.79        29.75        55.86 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AS 
      101.95       114.02        85.97        62.56        43.73        37.81 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W 
       20.22       109.58        50.89        87.22        85.35        50.96 
TCGA-AR-A251 TCGA-AR-A2LK TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0RE TCGA-B6-A0RH 
       78.48        42.87        77.62        12.13       211.56       189.01 
TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI 
       81.17       100.70       131.21       186.48        43.59        73.51 
TCGA-B6-A1KN TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0B2 TCGA-BH-A0B3 
      139.17        49.94        38.79        20.45        40.83        39.55 
TCGA-BH-A0BA TCGA-BH-A0BL TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C7 TCGA-BH-A0DH 
       37.22        44.05        45.57        49.94        42.90        38.01 
TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H9 
        4.41        14.30         9.63        24.49        31.00        41.00 
TCGA-BH-A0HA TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0WA TCGA-BH-A18I 
       52.96        12.89        51.32        27.25        23.05         7.23 
TCGA-BH-A18K TCGA-BH-A18Q TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EV 
       90.84        55.63        51.16        69.93       113.82        12.00 
TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-C8-A12L 
       97.48       114.15        45.63        72.07         0.72        11.93 
TCGA-C8-A12P TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A137 
       11.77        12.66        12.66         3.12         0.69         3.85 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM 
        3.75        10.92        11.34         0.16        12.03         2.30 
TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A13Z 
        0.23         8.28        12.20         0.03        11.90        20.88 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JI 
       13.97        14.17        21.14        16.50        18.71        18.97 
TCGA-D8-A1JL TCGA-D8-A1JP TCGA-D8-A1X6 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ 
       20.09        21.01        17.79        27.58        18.15        21.83 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y3 
       16.41        15.85        15.16        16.54         3.81        14.14 
TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A14N TCGA-E2-A14O 
       10.09        13.08        12.26        46.59        47.15        44.68 
TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A159 
       38.60        31.96        28.60        17.03        27.12        25.05 
TCGA-E2-A15E TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1BD TCGA-E2-A1IH 
       20.71        12.92        14.07        60.53        17.10        33.73 
TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       33.70        22.19        27.42       106.75       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA 
       16.93        34.92        19.20        13.48        13.12        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1RA TCGA-E9-A1RB 
       39.55        12.59        20.05         9.86        32.09        20.81 
TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A228 TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A249 
       34.65        35.64        12.53        12.89        23.51         0.95 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UP 
       26.07         0.62        15.72         0.23         0.26        14.40 
TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P5 TCGA-EW-A1P8 
       18.90        28.77        22.82        29.85        23.11         7.86 
TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV 
        6.15        10.52        14.43        19.96        55.00        25.91 
TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DF 
       22.09        17.49        10.16       109.87        43.04        42.71 
TCGA-GM-A2DH TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 
       42.28        72.03        11.57         3.88         3.22         6.21 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A6VO 
       46.55        31.99        22.32        20.38        23.47        28.21 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-S3-A6ZH TCGA-S3-AA14 TCGA-XX-A89A 
        0.23         0.16         8.65         7.17         9.14 

$`DEL PEAK  3(2Q37.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88        13.68         7.96        19.20        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       18.02        41.95        82.16        63.12        64.04        55.43 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
      136.73        64.57        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
      107.93        56.81        34.55        33.76        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV 
      101.72        89.36       107.61        74.40        37.05        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX 
       29.75        24.72        24.16        99.19        54.64        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       44.28        17.52        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       17.46        18.90        20.75        32.55        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       15.42        21.90        14.50        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       23.47        22.45        20.25        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
      107.70        16.31        17.19        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       20.88        39.65        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       34.98        38.37         7.30        21.30        23.21        26.96 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       21.14        21.90        38.30        34.29        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       37.45        33.11        31.73        23.61        29.56        31.36 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.74        23.80        21.73        20.61        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       10.29        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       14.50        17.92        12.10        10.72        11.05        10.29 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07E 
       13.02        13.02        17.98        17.03        53.98        19.99 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S 
       18.97        14.01        12.00         9.99         8.98         7.99 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
       28.04        18.05        15.06        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       28.96        33.01        19.96        37.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 
       31.00        93.04        40.01        33.01        17.95        41.98 
TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W 
        9.99        50.04        29.98         8.98        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C 
       14.01        12.00        13.02         0.99        38.04         0.95 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FG 
       10.85         2.66         1.48        38.53        40.57        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        50.70         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       14.83        22.19         1.12        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
        1.55         1.12         1.81         1.18         0.43         1.68 
TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.74         1.12         1.32         0.33         0.23         0.33 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FF 
        2.96         1.78         7.36         0.16         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        7.96         7.17         6.28         0.33         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33         0.33        12.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O 
        0.33         5.33         5.59        80.28        66.77        81.63 
TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 
       68.75        59.05        32.78        52.18        24.16        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG 
       22.36        53.03        21.53        50.86        21.37        26.24 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       62.04        71.80       102.58        99.25       108.72       106.78 
TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H 
       96.10        77.56        64.04        57.30        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H2 
       14.73        82.62        70.39        24.79       130.09        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TW 
       32.52         9.99        49.32         5.26        86.66        98.93 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AI 
       64.83        76.14        65.36        83.87        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
       52.77        51.25        48.82        43.56        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L 
       17.23        76.21        61.28        63.62        62.14        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T 
       96.89        78.51        84.20         0.85       101.52        76.01 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 
       53.36        83.77        79.00        56.15        73.18        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL 
       58.92        93.83       128.65        20.25        62.86         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       40.04        38.17        39.39        40.54        20.38        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA 
       16.04        20.45        10.59       143.38       149.59       220.90 
TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ 
      129.57        50.70        65.72       146.50       112.37       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ 
       18.77       126.12        84.59       110.14       110.93       140.88 
TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
       68.45       234.28        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      140.48        89.46       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
       17.98        21.47       113.79       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 
       68.94        58.88       101.52       170.17        85.35        54.28 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
      103.63        55.00        24.53        25.55        28.50        46.95 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        51.68        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        24.85        21.70        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ 
       48.69        27.19        53.69        53.95        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       41.75        44.02        48.13        45.83        31.17        23.44 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       22.13        13.91        48.23        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       44.81        46.19        32.65        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HB 
       15.16        37.78        35.51        24.56        23.08        26.50 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HY 
       20.38         5.85         2.50        13.61        36.85        50.79 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F 
        5.59        23.93        24.95        42.35        44.81         8.81 
TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        2.01        20.12        26.66        72.56        37.74        30.28 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EO TCGA-BH-A1ET 
       37.55        66.05         7.36        51.39        91.99        82.85 
TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
       42.28        55.69        49.58        17.69        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        24.66       120.62        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       36.92        63.35        55.00       144.59        72.07         6.90 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q 
       38.60        83.31        57.83       130.16        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N 
       20.12         0.99       109.28         8.94        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A131 TCGA-C8-A132 
       12.66         0.07        12.66        12.66         1.78         1.45 
TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V 
        0.62        12.33        11.34        10.42         3.25         0.30 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.36         0.43         9.67         0.03         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A147 
        0.99         0.23        13.25        20.58        13.48        19.20 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF 
       14.17        17.49        15.78        18.15        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN 
       12.03        14.01        20.09        20.12        19.40        20.38 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        18.58        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK 
       23.90         2.66        17.16        15.22        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU 
       19.92        17.69         7.96        16.31         6.35        12.99 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F 
       12.66        15.32        15.52        14.24        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        4.80         0.76        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
       43.00        34.42        27.52        40.41        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T 
       28.44        28.87        40.96        38.24        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 
       43.33        34.26        32.02        25.41        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        23.34        22.82        17.29 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       21.63        18.21        17.42        19.40         9.04        20.58 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 
        7.73        13.02        19.56        17.06        14.99        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       53.03        29.95        32.35        28.50        16.47        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       37.41        32.78        28.44        22.65         3.88        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
       28.90        18.87        43.04         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N8 
       30.61        19.89        19.00         9.21        36.82        12.00 
TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 
       35.77        21.57        11.90        14.30         0.62         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD 
        6.12         1.38         2.76        21.21        40.24         0.66 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 
        6.58        21.27        34.59        34.13         0.79        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 
       39.09        22.75        24.10        17.06         0.69         0.85 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT 
       27.22         1.94        24.56         0.72        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       18.41        12.33        14.70        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       39.72         8.48        18.21        13.25        16.57        15.68 
TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       25.94        29.95        40.41        41.13        39.78        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD 
       29.82        18.48        30.08        18.90        19.99        13.94 
TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 
       34.55        52.73        21.27        10.59         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
      194.27        53.13        53.52        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       69.30        66.38        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
        6.67         4.08         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
       10.95         7.59        17.06        15.32        14.70        14.47 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
       14.79        11.57         2.63         4.14         4.50         4.50 
TCGA-LL-A7SZ TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        5.59         7.36        27.91         2.79         2.10        12.66 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       58.62        27.65        34.92        36.36        16.87        24.72 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       26.70        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG 
       14.07        19.73         0.26         3.95        16.50         6.81 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         7.92         5.56         8.52         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60       100.01       105.04 

  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                        22.32                         22.55 
[1] "0.0 - 211.6 (22.3)" "0.0 - 234.3 (22.5)"
[1] "hr=" "1.1"
D32V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  3(2Q37.3) MUTATED        19       20        0        2       106
  DEL PEAK  3(2Q37.3) WILD-TYPE      64       60        9        3       236
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  3(2Q37.3) MUTATED          69         1         42         13
  DEL PEAK  3(2Q37.3) WILD-TYPE       165         1        100         16
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  3(2Q37.3) MUTATED           17        8         0       6
  DEL PEAK  3(2Q37.3) WILD-TYPE         46       10         1      10
D32V3, multiclass
            clus
vv           DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  STAGE I                             19                            64
  STAGE IA                            20                            60
  STAGE IB                             0                             9
  STAGE II                             2                             3
  STAGE IIA                          106                           236
  STAGE IIB                           69                           165
  STAGE III                            1                             1
  STAGE IIIA                          42                           100
  STAGE IIIB                          13                            16
  STAGE IIIC                          17                            46
  STAGE IV                             8                            10
  STAGE TIS                            0                             1
  STAGE X                              6                            10
[1] 13  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(2Q37.3) MUTATED    60 189  35  19
  DEL PEAK  3(2Q37.3) WILD-TYPE 205 405  89  20
D32V4, multiclass
    clus
vv   DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  T1                          60                           205
  T2                         189                           405
  T3                          35                            89
  T4                          19                            20
[1] 4 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  N3
  DEL PEAK  3(2Q37.3) MUTATED   147  93  40  19
  DEL PEAK  3(2Q37.3) WILD-TYPE 334 246  73  55
D32V5, multiclass
    clus
vv   DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  N0                         147                           334
  N1                          93                           246
  N2                          40                            73
  N3                          19                            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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  3(2Q37.3) MUTATED          2 255   8  39
  DEL PEAK  3(2Q37.3) WILD-TYPE        3 599  11 108
D32V6, multiclass
          clus
vv         DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  CM0 (I+)                           2                             3
  M0                               255                           599
  M1                                 8                            11
  MX                                39                           108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V7, binary
                               cls
clus                              0   1
  DEL PEAK  3(2Q37.3) MUTATED   301   3
  DEL PEAK  3(2Q37.3) WILD-TYPE 713   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED    301    3
  DEL PEAK  3(2Q37.3) WILD-TYPE  713    8
        clus
vv       DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  FEMALE                         301                           713
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  3(2Q37.3) MUTATED                            0
  DEL PEAK  3(2Q37.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  3(2Q37.3) MUTATED                             254
  DEL PEAK  3(2Q37.3) WILD-TYPE                           500
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  3(2Q37.3) MUTATED                               22
  DEL PEAK  3(2Q37.3) WILD-TYPE                            153
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  3(2Q37.3) MUTATED                     3
  DEL PEAK  3(2Q37.3) WILD-TYPE                   3
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  3(2Q37.3) MUTATED                                 10
  DEL PEAK  3(2Q37.3) WILD-TYPE                               19
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  3(2Q37.3) MUTATED                    3             11
  DEL PEAK  3(2Q37.3) WILD-TYPE                 12             33
D32V8, multiclass
                                  clus
vv                                 DEL PEAK  3(2Q37.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            254
  INFILTRATING LOBULAR CARCINOMA                            22
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          10
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                            11
                                  clus
vv                                 DEL PEAK  3(2Q37.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              500
  INFILTRATING LOBULAR CARCINOMA                             153
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            19
  MUCINOUS CARCINOMA                                          12
  OTHER  SPECIFY                                              33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V9, binary
                               cls
clus                              0   1
  DEL PEAK  3(2Q37.3) MUTATED    95 209
  DEL PEAK  3(2Q37.3) WILD-TYPE 187 534
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED     95  209
  DEL PEAK  3(2Q37.3) WILD-TYPE  187  534
     clus
vv    DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  NO                           95                           187
  YES                         209                           534
[1] 2 2
[1] FALSE
D32V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  3(2Q37.3) MUTATED                                  0    25
  DEL PEAK  3(2Q37.3) WILD-TYPE                                1    31
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(2Q37.3) MUTATED                          51   192
  DEL PEAK  3(2Q37.3) WILD-TYPE                       107   525
D32V11, multiclass
                                  clus
vv                                 DEL PEAK  3(2Q37.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     25
  BLACK OR AFRICAN AMERICAN                                 51
  WHITE                                                    192
                                  clus
vv                                 DEL PEAK  3(2Q37.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       31
  BLACK OR AFRICAN AMERICAN                                  107
  WHITE                                                      525
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V12, binary
                               cls
clus                              0   1
  DEL PEAK  3(2Q37.3) MUTATED    13 231
  DEL PEAK  3(2Q37.3) WILD-TYPE  23 595
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED     13  231
  DEL PEAK  3(2Q37.3) WILD-TYPE   23  595
                        clus
vv                       DEL PEAK  3(2Q37.3) MUTATED
  HISPANIC OR LATINO                              13
  NOT HISPANIC OR LATINO                         231
                        clus
vv                       DEL PEAK  3(2Q37.3) WILD-TYPE
  HISPANIC OR LATINO                                23
  NOT HISPANIC OR LATINO                           595
[1] 2 2
[1] FALSE

Clustering(33) Variable = DEL PEAK  4(3P21.31) MUTATION ANALYSIS
D33V1, survival
                                sevent
clus2                              0   1
  DEL PEAK  4(3P21.31) MUTATED   278  50
  DEL PEAK  4(3P21.31) WILD-TYPE 608  69
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                           328                            677 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                            50                             69 
$`DEL PEAK  4(3P21.31) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04T 
       48.10        47.24        31.79        28.01        18.02        73.84 
TCGA-A2-A04U TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0CX 
       22.06        64.57        24.79        75.25        64.04        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0SW 
       21.14        34.55        25.22        80.28        79.76        44.88 
TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FZ 
       50.43        17.52        18.71        48.46        23.77        22.45 
TCGA-A2-A1G1 TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XX TCGA-A2-A4RW TCGA-A2-A4S1 
       19.20        91.92        33.93        38.40         7.30        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A26F 
       21.90        35.31        30.61        35.67        31.73        24.26 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SE 
       23.80        21.73        22.32        14.93        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       17.92        14.73        12.10        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A07F 
        8.75         1.02        29.03        31.00         1.02        18.97 
TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A08B TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P 
       18.97        12.00        38.01         9.99        31.00        31.00 
TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09V TCGA-A8-A09X 
        9.99        50.04        45.07        33.07        15.02        14.01 
TCGA-A8-A0A4 TCGA-AC-A23C TCGA-AC-A2BK TCGA-AC-A2FO TCGA-AC-A3OD TCGA-AC-A3W5 
       13.02         0.95        38.53        50.70        14.83        16.57 
TCGA-AC-A5XS TCGA-AC-A6IX TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C 
        1.55         0.43         1.12         0.23         0.62         1.78 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT 
        1.71         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XT 
        7.96         7.59         0.33         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A0J3 TCGA-AO-A0J4 
        0.33        80.28        47.84        47.87        21.40        52.18 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JG 
       24.16        37.48        21.53        50.70        76.77        26.24 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12G TCGA-AO-A1KQ 
       71.80       102.58       108.72        96.10        41.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TP 
       70.39         0.53        26.93       130.09         2.56       111.32 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
       74.79        86.66        64.83        55.86        76.14       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AQ TCGA-AR-A24H TCGA-AR-A24L 
       83.87        85.97        75.55        43.07       109.58        73.02 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 
      101.52        76.01        79.00        78.48        58.92        93.83 
TCGA-AR-A2LO TCGA-AR-A5QP TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG 
       39.39        20.45        12.13       129.57        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IQ TCGA-B6-A0RO TCGA-B6-A0RS 
      112.37       176.98        18.77       140.88       162.05       100.70 
TCGA-B6-A0WS TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KI TCGA-BH-A0AU 
       97.48        17.98        21.47       113.79        73.51        24.53 
TCGA-BH-A0AZ TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BF 
       28.50        39.16        56.94        51.68        32.02        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0BZ 
       24.85        21.70        44.05        53.69        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       41.75        44.02        42.90        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E9 TCGA-BH-A0H7 
       13.91        48.23        16.27         4.41        46.19        23.08 
TCGA-BH-A0HA TCGA-BH-A0HU TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A18F TCGA-BH-A18G 
       52.96        12.89        50.79         5.59         8.81         2.01 
TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T 
       20.12        26.66        30.28        55.63        37.55         7.36 
TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F8 TCGA-BH-A1FM 
       69.93        12.00        55.69        17.69        24.66        45.63 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A208 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12P 
       72.07        72.07        57.83         0.99        11.93        11.77 
TCGA-C8-A12Q TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HF 
        0.07         3.12         0.69         0.62         3.85        10.92 
TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W 
       11.34         0.16        12.03         2.30         0.30         0.23 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A145 
        9.67         0.03         0.99         0.23        20.88        13.48 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       19.20        14.17        17.49        18.71        15.78        18.15 
TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 
       12.03        20.09        20.12        19.40        21.01        18.58 
TCGA-D8-A1XB TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XT TCGA-D8-A1XU 
       18.15        21.83        14.50        19.92         6.35        12.99 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H 
       16.54        15.32         3.81        14.14        16.04        13.05 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-E2-A10C TCGA-E2-A14R TCGA-E2-A14V 
       13.48         4.80        10.09        40.11        38.60        34.26 
TCGA-E2-A14W TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 
       32.02        25.41        27.12        21.04        14.79        25.05 
TCGA-E2-A15A TCGA-E2-A1AZ TCGA-E2-A1IE TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L7 
       23.34        60.53        38.30        33.70        20.98        27.42 
TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
       28.90       106.75        43.04        19.89        19.00         9.21 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1R2 
       12.00        13.12        36.56        39.55        20.05         0.62 
TCGA-E9-A1R4 TCGA-E9-A1R7 TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 
        6.12        21.21        21.27        34.13        12.53        13.32 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A295 TCGA-E9-A2JS TCGA-EW-A1IZ 
       12.89        23.51         0.69         0.72        17.75        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P5 
       18.90        28.77        25.94        22.82        29.82        23.11 
TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A3E8 
        7.86         6.15        13.94        55.00        52.73        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF 
       17.49        10.16         7.40       109.87        53.13        42.71 
TCGA-GM-A2DH TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LD-A7W5 
       42.28       110.50        38.20        69.30        11.57         4.08 
TCGA-LL-A5YL TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 
       17.06        14.79         3.88         3.22         6.21         7.36 
TCGA-OK-A5Q2 TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66K 
        2.10        36.36        24.72        22.32        20.38        33.57 
TCGA-OL-A66N TCGA-OL-A6VO TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 
       26.04        28.21        16.50         6.81         8.65         7.92 
TCGA-S3-AA11 TCGA-S3-AA17 TCGA-XX-A89A TCGA-Z7-A8R5 
        5.56         3.91         9.14       100.01 

$`DEL PEAK  4(3P21.31) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SI 
        0.39         8.52        14.37        43.43        14.27        20.88 
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       13.68         7.96        39.32        19.20        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        82.16        63.12        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
      136.73       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN 
        5.19        63.45        33.76        28.77       101.72        89.36 
TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV 
      107.61        74.40        37.05        35.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV 
       29.75        24.72        24.16        99.19        54.64        27.12 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       44.28        17.13         8.38        20.52        17.46        18.90 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG 
       20.75        32.55        25.28        18.21        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YM TCGA-A2-A1FV 
       21.67        14.50        18.61        19.33        31.73        23.47 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       17.36        36.79        20.25        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC 
      107.70        16.31        17.19        18.15        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY 
       39.65        83.01        29.98        32.75        49.48        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       31.99        38.37        24.39        21.30        23.21        21.14 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E 
       38.30        34.29        35.47        37.45        33.11        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26J 
       12.72        23.61        29.56        31.36        23.74        20.61 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       11.34        10.59        10.29        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P 
       11.97        13.74        10.72        11.05        13.02        13.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       17.98        53.06        26.01        17.03        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       43.00        19.99        14.01        17.03         9.99        10.98 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
        8.98         7.99        24.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08F 
       15.06        36.95        13.02         0.99        28.96        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
       19.96        12.00        37.05         0.99        33.01        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       43.00        40.01        33.01        30.97        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09K 
       12.00         9.99        12.00         1.02        49.05        29.98 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A0A1 
        1.02        25.02         8.98        19.04         0.99        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD 
       19.04        21.04         0.99        13.02        17.03        38.04 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB 
        2.37        10.85         2.66         1.48        38.20        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QI 
       55.43        36.99        38.79        26.04         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 
        2.27         0.99         0.69        22.19         1.12        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       23.24        24.79         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        0.69         1.68         1.74         1.32         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF 
        0.33         2.96         8.02         0.33         6.44         4.64 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        7.00         7.17         6.28         6.02         0.33         0.36 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        5.33         5.59        66.77        81.63        84.69        68.75 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       59.05        29.13        32.78        20.32        22.36        53.03 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       50.86        72.00        21.37        50.24        62.04        55.33 
TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       99.25       106.78        90.58        77.56        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04H 
       48.36        28.37        14.73        82.62        17.79        24.79 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ 
        5.65        15.62        32.52        32.91         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AI 
        5.26        29.75        98.93        65.36       114.02        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       52.77        51.25        48.82        62.56        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       39.98        17.23        37.81        76.21        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       62.14        20.22        50.89        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
        0.85        87.22        53.36        85.35        50.96        83.77 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       56.15        73.18        72.76       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR 
       42.87         7.36        40.04        38.17        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
       54.74        16.04        10.59        77.62       143.38       149.59 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
      220.90        50.70       126.12        84.59       110.14       110.93 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      211.56        68.45       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      172.96       102.77       140.48        89.46       131.21       157.41 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68        79.63       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU 
       68.94        58.88        43.59       101.52       139.17       170.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
       85.35        54.28        49.94       103.63        55.00        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 
       20.45        25.55        46.95        40.83        39.55        48.36 
TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       56.98        37.22        18.21        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DD 
       27.19        53.95        45.57        49.94        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       31.17        17.26        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       45.17        47.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       32.65        24.49        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HB 
       15.16        37.78        35.51        24.56        41.00        26.50 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW 
       20.38         5.85         2.50        13.61        36.85        51.32 
TCGA-BH-A0HX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       27.25        23.93        24.95        42.35        44.81        23.05 
TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A18U 
        7.23        90.84        72.56        37.74        66.05        51.39 
TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX 
       51.16        91.99       113.82        82.85        42.28        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        31.53        89.16        97.48       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 
      144.59         6.90         0.72        38.60        83.31       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M 
       10.65         6.44        20.12       109.28         8.94        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77        12.66        12.66        12.66        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HL 
        1.78         1.45         3.75        12.33        11.34        10.42 
TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A275 TCGA-C8-A278 
        3.25         0.36         0.43         8.28         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
       12.20         0.03        11.90        13.25        20.58        13.97 
TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1JA TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH 
       14.17        21.14        16.50        18.90        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       18.97        20.09        20.38        12.20        13.32        14.70 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC 
       17.79        16.73        25.74        23.90        27.58         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       17.16        15.22        14.73        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y2 
       15.85        16.31        15.16        12.66        15.52        14.24 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P 
       17.42        13.45        14.43         9.44        16.41         0.76 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
       13.08        12.53        12.26        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B 
       43.00        34.42        27.52        46.59        40.41        37.51 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q 
       28.44        28.87        47.15        44.68        40.96        38.24 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       33.17        33.30        43.33        31.96        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E 
       23.24        19.43        23.87        22.82        17.29        20.71 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       21.63        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
       20.58         7.73        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       14.99        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ 
       16.47        17.10        37.41        32.78        33.73        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 
       22.65         3.88        22.19        11.08        54.18        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK 
       19.66        24.59        40.47        18.87       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 
       16.93         5.52        15.72         7.20        30.61        34.92 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       19.20        36.82        13.48        12.59        35.77        21.57 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R6 
        9.86        11.90        14.30         2.10         1.38         2.76 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF 
       32.09        20.81        40.24         0.66        34.65         6.58 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H 
       34.59        35.64         0.79        39.09        22.75        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
       17.06         0.85        27.22         1.94         0.95        24.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X 
        0.76        26.07        18.41         0.62        15.72        12.33 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE 
        0.23        14.70         0.26        13.81        14.40        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       12.20        39.72         8.48        13.25        16.57        15.68 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       29.95        29.85        40.41        41.13        39.78        52.96 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PE TCGA-EW-A1PF 
       18.48        30.08        18.90        19.99        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A424 TCGA-GM-A2D9 
       34.55        19.96        25.91        22.09        10.59        59.57 
TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
      194.27        53.52        43.04        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       76.64        77.33        53.36        43.73        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       13.55        18.12        11.84        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YM 
        8.75         9.53        11.44        10.95         7.59        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z 
       14.70        14.47        11.57         2.63         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5D7 
        4.50         5.59        27.91         2.79        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H 
       31.99        58.62        27.65        34.92        16.87        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ 
       23.47        65.62        31.07         7.23        14.07        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-AA0Z TCGA-S3-AA12 
        0.23         0.16         0.26         3.95        10.59         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R6 
        7.17         6.87         5.29         9.60       105.04 

  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                        176.98                         234.28 
  DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE 
                        21.865                         23.210 
[1] "0.0 - 177.0 (21.9)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.7"
D33V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  4(3P21.31) MUTATED        17       19        1        1       122
  DEL PEAK  4(3P21.31) WILD-TYPE      66       61        8        4       220
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  4(3P21.31) MUTATED          83         0         49          8
  DEL PEAK  4(3P21.31) WILD-TYPE       151         2         93         21
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  4(3P21.31) MUTATED           21        7         1       5
  DEL PEAK  4(3P21.31) WILD-TYPE         42       11         0      11
D33V3, multiclass
            clus
vv           DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  STAGE I                              17                             66
  STAGE IA                             19                             61
  STAGE IB                              1                              8
  STAGE II                              1                              4
  STAGE IIA                           122                            220
  STAGE IIB                            83                            151
  STAGE III                             0                              2
  STAGE IIIA                           49                             93
  STAGE IIIB                            8                             21
  STAGE IIIC                           21                             42
  STAGE IV                              7                             11
  STAGE TIS                             1                              0
  STAGE X                               5                             11
[1] 13  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(3P21.31) MUTATED    55 229  39  10
  DEL PEAK  4(3P21.31) WILD-TYPE 210 365  85  29
D33V4, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  T1                           55                            210
  T2                          229                            365
  T3                           39                             85
  T4                           10                             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK  4(3P21.31) MUTATED   158 107  42  23
  DEL PEAK  4(3P21.31) WILD-TYPE 323 232  71  51
D33V5, multiclass
    clus
vv   DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  N0                          158                            323
  N1                          107                            232
  N2                           42                             71
  N3                           23                             51
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK  4(3P21.31) MUTATED          2 275   8  49
  DEL PEAK  4(3P21.31) WILD-TYPE        3 579  11  98
D33V6, multiclass
          clus
vv         DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                275                            579
  M1                                  8                             11
  MX                                 49                             98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V7, binary
                                cls
clus                               0   1
  DEL PEAK  4(3P21.31) MUTATED   330   4
  DEL PEAK  4(3P21.31) WILD-TYPE 684   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED    330    4
  DEL PEAK  4(3P21.31) WILD-TYPE  684    7
        clus
vv       DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  FEMALE                          330                            684
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK  4(3P21.31) MUTATED                            1
  DEL PEAK  4(3P21.31) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  4(3P21.31) MUTATED                             279
  DEL PEAK  4(3P21.31) WILD-TYPE                           475
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  4(3P21.31) MUTATED                               37
  DEL PEAK  4(3P21.31) WILD-TYPE                            138
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK  4(3P21.31) MUTATED                     1
  DEL PEAK  4(3P21.31) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  4(3P21.31) MUTATED                                  5
  DEL PEAK  4(3P21.31) WILD-TYPE                               24
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  4(3P21.31) MUTATED                    0             11
  DEL PEAK  4(3P21.31) WILD-TYPE                 15             33
D33V8, multiclass
                                  clus
vv                                 DEL PEAK  4(3P21.31) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             279
  INFILTRATING LOBULAR CARCINOMA                             37
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            5
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                             11
                                  clus
vv                                 DEL PEAK  4(3P21.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               475
  INFILTRATING LOBULAR CARCINOMA                              138
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  MUCINOUS CARCINOMA                                           15
  OTHER  SPECIFY                                               33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V9, binary
                                cls
clus                               0   1
  DEL PEAK  4(3P21.31) MUTATED   100 234
  DEL PEAK  4(3P21.31) WILD-TYPE 182 509
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED    100  234
  DEL PEAK  4(3P21.31) WILD-TYPE  182  509
     clus
vv    DEL PEAK  4(3P21.31) MUTATED DEL PEAK  4(3P21.31) WILD-TYPE
  NO                           100                            182
  YES                          234                            509
[1] 2 2
[1] FALSE
D33V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  4(3P21.31) MUTATED                                  0    24
  DEL PEAK  4(3P21.31) WILD-TYPE                                1    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(3P21.31) MUTATED                          65   221
  DEL PEAK  4(3P21.31) WILD-TYPE                        93   496
D33V11, multiclass
                                  clus
vv                                 DEL PEAK  4(3P21.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  65
  WHITE                                                     221
                                  clus
vv                                 DEL PEAK  4(3P21.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    93
  WHITE                                                       496
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V12, binary
                                cls
clus                               0   1
  DEL PEAK  4(3P21.31) MUTATED    10 275
  DEL PEAK  4(3P21.31) WILD-TYPE  26 551
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  4(3P21.31) MUTATED     10  275
  DEL PEAK  4(3P21.31) WILD-TYPE   26  551
                        clus
vv                       DEL PEAK  4(3P21.31) MUTATED
  HISPANIC OR LATINO                               10
  NOT HISPANIC OR LATINO                          275
                        clus
vv                       DEL PEAK  4(3P21.31) WILD-TYPE
  HISPANIC OR LATINO                                 26
  NOT HISPANIC OR LATINO                            551
[1] 2 2
[1] FALSE

Clustering(34) Variable = DEL PEAK  5(4P16.3) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  5(4P16.3) MUTATED   278  40
  DEL PEAK  5(4P16.3) WILD-TYPE 608  79
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                          318                           687 
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                           40                            79 
$`DEL PEAK  5(4P16.3) MUTATED`
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04U 
       20.88        31.79        39.32        28.01        73.84        22.06 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D0 
       64.57        24.79        75.55        63.45        64.04        21.14 
TCGA-A2-A0EQ TCGA-A2-A0SV TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE 
       79.76        27.12        17.13        18.71        20.75        18.21 
TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A1FW TCGA-A2-A1G1 TCGA-A2-A25C TCGA-A2-A3XS 
       21.67        18.61        17.36        19.20        17.19        33.93 
TCGA-A2-A3XT TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S3 TCGA-A7-A0CD 
       83.01        38.37         7.30        24.39        21.90        38.30 
TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26G 
       35.31        30.61        31.73        10.72        12.72        23.74 
TCGA-A7-A2KD TCGA-A7-A4SD TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW 
       22.32        14.50        14.73        12.10        10.29         9.37 
TCGA-A7-A6VX TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A07B TCGA-A8-A07O 
       10.42        53.06        31.00        26.01        43.00         9.99 
TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08I 
        8.98        15.06        36.95        38.01        33.01        12.00 
TCGA-A8-A08L TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
        9.99        43.00        30.97         1.02        49.05        45.07 
TCGA-A8-A09M TCGA-A8-A09X TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2QI 
       33.07        14.01         0.95         2.37        38.53         0.92 
TCGA-AC-A3BB TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP 
        0.99         1.55         0.07         1.81         0.69         1.74 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AK 
        0.23         0.33         2.96         1.78         1.71         7.36 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ 
        0.16         0.33         0.33         0.33         6.44         7.96 
TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XN TCGA-AN-A0XO 
        7.00         6.02         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03N TCGA-AO-A0J3 
        0.30         0.33         0.33         0.33        66.77        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JM TCGA-AO-A124 
       52.18        37.48        20.32        50.70        71.80       102.58 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KS 
       96.10        90.58        64.04        48.36        41.62         0.53 
TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AR-A0TP TCGA-AR-A0TR 
       17.79        26.93       130.09         5.65       111.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 
       74.79        55.86        65.36       101.95       114.02        85.97 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR 
       75.55        61.84        62.56        43.73        43.07        17.23 
TCGA-AR-A24K TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A251 
       50.89        84.20       101.52        85.35        50.96        78.48 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 
       58.92        93.83        39.39        16.04        10.59        77.62 
TCGA-B6-A0IB TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ 
      129.57       146.50       112.37       176.98       110.14       140.88 
TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WV 
      211.56       189.01        81.17       100.70       131.21        79.63 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 
       21.47       113.79       186.48        43.59        73.51        85.35 
TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 
       54.28        49.94        20.45        28.50        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL 
       39.16        48.36        37.22        25.71        21.70        44.05 
TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 
       53.69        45.57        49.94        41.75        44.02        42.90 
TCGA-BH-A0DI TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EB 
       22.13        47.41         4.41         9.63        46.19        24.49 
TCGA-BH-A0HI TCGA-BH-A0HU TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18Q 
       20.38        12.89         5.59        23.93         8.81        55.63 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1F0 
        7.36        51.39        51.16        42.28        12.00        25.81 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FU TCGA-BH-A203 TCGA-BH-A209 TCGA-C8-A12P 
       97.48        24.66        72.07        38.60       130.16        11.77 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
        0.62         3.75        10.92         0.16        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z 
        2.30         0.03         0.03         0.99        11.90        20.88 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JE TCGA-D8-A1JF 
       13.97        14.17        19.20        16.50        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1X9 TCGA-D8-A1XA 
       12.03        20.09        20.12        19.40        23.90        27.58 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XO TCGA-D8-A1XR 
       15.22        14.73        21.83        14.50         7.96        15.85 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y2 TCGA-D8-A1Y3 
        6.35        12.99        12.66        16.54        14.24        14.14 
TCGA-D8-A27F TCGA-D8-A27T TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R 
       16.04        13.08        47.15        44.68        40.96        38.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15H 
       17.03        25.41        19.43        25.05        20.71        12.92 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1L8 
       60.53        53.62        17.10        33.73        33.70        39.62 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 
       18.87       106.75        34.92        19.20        13.48        12.00 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RB 
       39.55        12.59         9.86         2.10        32.09        20.81 
TCGA-E9-A228 TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A248 
       12.53        12.89        23.51        17.06         0.69         1.94 
TCGA-E9-A249 TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
        0.95        26.07        15.72         0.23        14.70         0.26 
TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ 
       39.72        18.90        25.94        22.82        29.85        40.41 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A2FR 
       29.82        23.11         7.86         6.15        10.52        55.00 
TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH 
       17.49         7.40       109.87        53.13        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A3XL TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LL-A441 
       61.91        90.84        69.30        11.84        11.57        11.44 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A8F5 
       15.32        14.70        14.79         3.88         4.50         6.21 
TCGA-OL-A5D7 TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A6VO TCGA-PL-A8LV 
       46.55        20.38        23.47        33.57        28.21         0.23 
TCGA-PL-A8LX TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA17 
        0.16         3.95        16.50         8.65         7.92         3.91 

$`DEL PEAK  5(4P16.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       47.24        13.68         7.96        19.20        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       18.02        41.95        82.16        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       36.13       136.73       112.08        92.48        88.60       107.93 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25         5.19        56.81        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER 
       25.22       101.72        89.36        80.28       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       37.05        35.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.16        99.19        54.64        44.88        50.43        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
       17.52         8.38        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       25.28        15.42        21.90        14.50        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       31.73        23.77        23.47        36.79        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25D 
       19.56        16.47        52.47       107.70        16.31        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RY TCGA-A2-A4S0 
       49.48        38.40        34.98        31.99        21.30        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA 
       26.96        21.14        34.29        35.47        37.45        35.67 
TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H 
       33.11        23.61        29.56        31.36        24.26        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       21.73        20.61        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE 
       13.41        14.70        11.97        14.93        13.74        21.17 
TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P 
       17.92        10.72        11.05         8.75        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
        1.02        17.98        29.03         1.02        17.03        53.98 
TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
        9.01        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z 
       17.03        10.98         7.99        24.99         9.99        28.04 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J 
       18.05        13.02         0.99        28.96        19.96        37.05 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z 
       31.00        31.00         0.99        33.01        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A 
       33.01        17.95        41.98        12.00         9.99         9.99 
TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
       12.00        50.04        29.98         1.02        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 
       19.04        15.02         0.99        12.00        19.04        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23G 
       21.04         0.99        13.02        17.03        38.04        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        2.66         1.48        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3HN 
       38.79        26.04        50.70         1.02         2.27         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ 
       24.79         1.12         1.18         0.43         1.68         1.12 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A0AJ TCGA-AN-A0AL 
        1.32         0.33         0.33         0.62         8.02         6.51 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FY 
        4.64         7.59         7.17         6.28         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XR TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         5.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       47.84        81.63        84.69        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       29.13        32.78        24.16        22.36        53.03        21.53 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12B 
       62.04        55.33        99.25       108.72       106.78        77.56 
TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
       57.30        28.37        14.73        82.62        61.87        70.39 
TCGA-AQ-A04H TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
       24.79        15.62        32.52         2.56        32.91         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ 
       49.32        86.66        29.75        98.93        64.83        76.14 
TCGA-AR-A0U2 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AP 
       83.87        52.77        51.25        48.82        43.56        39.98 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       37.81        76.21        61.28        63.62        62.14        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24P TCGA-AR-A24R 
      109.58        73.02        96.89        78.51         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 
       76.01        53.36        83.77        79.00        56.15        73.18 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL 
       72.76       128.65        20.25        62.86        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP 
       40.04        38.17        40.54        20.38        54.74        20.45 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59        12.13       220.90        50.70        65.72 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RI 
       18.77       126.12        84.59       110.93        68.45       234.28 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       78.02       172.96       162.05       102.77       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 
      157.41        97.48       188.68        17.98       129.57       129.70 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU 
       28.27        68.94        58.88       101.52       139.17       170.17 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B2 
      103.63        55.00        24.53        38.79        25.55        40.83 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG 
       56.94        56.98        51.68        32.02        18.21        24.85 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BW 
       61.68        35.67        48.69        27.19        53.95        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       49.05        48.13        45.83        31.17        23.44        38.01 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       13.91        48.23        17.26        15.65         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
       38.47        45.17        16.27        15.68        14.30        44.81 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       32.65        31.00        24.43        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       37.78        35.51        24.56        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW 
       26.50         5.85         2.50        13.61        36.85        51.32 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       27.25        50.79        24.95        42.35        44.81        23.05 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
        2.01         7.23        20.12        90.84        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO 
       37.74        30.28        37.55        66.05        69.93        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F2 
      113.82        82.85        55.69        49.58        17.69        31.53 
TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16       120.62       114.15        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR 
       36.92        63.35        55.00        45.63        72.07       144.59 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q 
        6.90         0.72        83.31        57.83        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M 
       20.12         0.99       109.28         8.94        11.93        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W 
       11.77        12.66         0.07        12.66        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 
       12.66         3.12         1.78         1.45         0.69         3.85 
TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.33        11.34        11.34         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A27A 
        0.36         0.43         8.28         9.67         0.03        12.20 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 
        0.03         0.23        13.25        20.58        13.48        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JH 
       14.17        17.49        18.71        15.78        18.15        14.01 
TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       18.97        20.09        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB 
       14.70        18.58        17.79        16.73        25.74        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XS 
        2.66        17.16        19.92        17.69        16.41        16.31 
TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A27E TCGA-D8-A27G 
       15.16        15.32        15.52         3.81        17.42        13.45 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N 
       13.05        14.43         9.44        16.41        13.48         4.80 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        0.76        10.09        12.53        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
        7.33        43.00        34.42        27.52        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A14S 
       37.51        40.11        28.44        28.87        38.24        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       33.30        43.33        34.26        32.02        31.96        28.60 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A 
       27.12        23.24        21.04        23.87        14.79        23.34 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J 
       22.82        17.29        21.63        18.21        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       14.07        14.99        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK 
       16.47        38.30        37.41        32.78        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
        3.88        22.19        20.98        11.08        54.18        27.42 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A1LK 
       19.66        24.59        40.47        28.90       102.61         8.75 
TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
       43.04        16.93         5.52        15.72         7.20        30.61 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1NA 
       19.89        19.00         9.21        36.82        13.12        36.56 
TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       35.77        20.05        21.57        11.90        14.30         0.62 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD 
        6.12         1.38         2.76        21.21        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       34.65         6.58        21.27        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A245 
        0.79        13.32        39.09        22.75        24.10         0.85 
TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
       27.22        24.56         0.72        17.75         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW 
        0.62        12.33        13.81        14.40        15.39        12.20 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
        8.48        18.21        13.25        16.57        15.68        28.77 
TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 
       29.95        41.13        39.78        52.96        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
       18.90        19.99        13.94        14.43        34.55        19.96 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 
       52.73        25.91        22.09        21.27        10.16        10.59 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A2DM 
       59.57       194.27        53.52        43.04        62.33        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN 
       77.33        53.36       110.50        38.20        43.73        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       72.03        13.55        18.12        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         8.75         9.53        10.95         7.59        17.06 
TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ 
       14.47        11.57         2.63         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        3.22         7.36        27.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       31.99        58.62        27.65        34.92        36.36        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N 
       24.72        22.32        26.70        65.62        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-AA0Z 
        7.23        14.07        19.73         0.26         6.81        10.59 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 
        5.56         8.52         7.17         6.87         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE 
                       21.685                        23.080 
[1] "0.0 - 211.6 (21.7)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.1"
D34V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  5(4P16.3) MUTATED        18       15        1        1       121
  DEL PEAK  5(4P16.3) WILD-TYPE      65       65        8        4       221
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  5(4P16.3) MUTATED          78         0         48          8
  DEL PEAK  5(4P16.3) WILD-TYPE       156         2         94         21
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  5(4P16.3) MUTATED           19        8         0       5
  DEL PEAK  5(4P16.3) WILD-TYPE         44       10         1      11
D34V3, multiclass
            clus
vv           DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  STAGE I                             18                            65
  STAGE IA                            15                            65
  STAGE IB                             1                             8
  STAGE II                             1                             4
  STAGE IIA                          121                           221
  STAGE IIB                           78                           156
  STAGE III                            0                             2
  STAGE IIIA                          48                            94
  STAGE IIIB                           8                            21
  STAGE IIIC                          19                            44
  STAGE IV                             8                            10
  STAGE TIS                            0                             1
  STAGE X                              5                            11
[1] 13  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(4P16.3) MUTATED    58 215  36  13
  DEL PEAK  5(4P16.3) WILD-TYPE 207 379  88  26
D34V4, multiclass
    clus
vv   DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  T1                          58                           207
  T2                         215                           379
  T3                          36                            88
  T4                          13                            26
[1] 4 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  N3
  DEL PEAK  5(4P16.3) MUTATED   148 111  40  21
  DEL PEAK  5(4P16.3) WILD-TYPE 333 228  73  53
D34V5, multiclass
    clus
vv   DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  N0                         148                           333
  N1                         111                           228
  N2                          40                            73
  N3                          21                            53
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  5(4P16.3) MUTATED          2 275   8  38
  DEL PEAK  5(4P16.3) WILD-TYPE        3 579  11 109
D34V6, multiclass
          clus
vv         DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  CM0 (I+)                           2                             3
  M0                               275                           579
  M1                                 8                            11
  MX                                38                           109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V7, binary
                               cls
clus                              0   1
  DEL PEAK  5(4P16.3) MUTATED   320   3
  DEL PEAK  5(4P16.3) WILD-TYPE 694   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4P16.3) MUTATED    320    3
  DEL PEAK  5(4P16.3) WILD-TYPE  694    8
        clus
vv       DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  FEMALE                         320                           694
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  5(4P16.3) MUTATED                            1
  DEL PEAK  5(4P16.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  5(4P16.3) MUTATED                             272
  DEL PEAK  5(4P16.3) WILD-TYPE                           482
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  5(4P16.3) MUTATED                               25
  DEL PEAK  5(4P16.3) WILD-TYPE                            150
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  5(4P16.3) MUTATED                     4
  DEL PEAK  5(4P16.3) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  5(4P16.3) MUTATED                                  7
  DEL PEAK  5(4P16.3) WILD-TYPE                               22
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  5(4P16.3) MUTATED                    0             14
  DEL PEAK  5(4P16.3) WILD-TYPE                 15             30
D34V8, multiclass
                                  clus
vv                                 DEL PEAK  5(4P16.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            272
  INFILTRATING LOBULAR CARCINOMA                            25
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           7
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                            14
                                  clus
vv                                 DEL PEAK  5(4P16.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              482
  INFILTRATING LOBULAR CARCINOMA                             150
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            22
  MUCINOUS CARCINOMA                                          15
  OTHER  SPECIFY                                              30
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V9, binary
                               cls
clus                              0   1
  DEL PEAK  5(4P16.3) MUTATED    96 227
  DEL PEAK  5(4P16.3) WILD-TYPE 186 516
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4P16.3) MUTATED     96  227
  DEL PEAK  5(4P16.3) WILD-TYPE  186  516
     clus
vv    DEL PEAK  5(4P16.3) MUTATED DEL PEAK  5(4P16.3) WILD-TYPE
  NO                           96                           186
  YES                         227                           516
[1] 2 2
[1] FALSE
D34V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  5(4P16.3) MUTATED                                  1    17
  DEL PEAK  5(4P16.3) WILD-TYPE                                0    39
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(4P16.3) MUTATED                          64   218
  DEL PEAK  5(4P16.3) WILD-TYPE                        94   499
D34V11, multiclass
                                  clus
vv                                 DEL PEAK  5(4P16.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     17
  BLACK OR AFRICAN AMERICAN                                 64
  WHITE                                                    218
                                  clus
vv                                 DEL PEAK  5(4P16.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       39
  BLACK OR AFRICAN AMERICAN                                   94
  WHITE                                                      499
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V12, binary
                               cls
clus                              0   1
  DEL PEAK  5(4P16.3) MUTATED    10 266
  DEL PEAK  5(4P16.3) WILD-TYPE  26 560
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4P16.3) MUTATED     10  266
  DEL PEAK  5(4P16.3) WILD-TYPE   26  560
                        clus
vv                       DEL PEAK  5(4P16.3) MUTATED
  HISPANIC OR LATINO                              10
  NOT HISPANIC OR LATINO                         266
                        clus
vv                       DEL PEAK  5(4P16.3) WILD-TYPE
  HISPANIC OR LATINO                                26
  NOT HISPANIC OR LATINO                           560
[1] 2 2
[1] FALSE

Clustering(35) Variable = DEL PEAK  6(4Q35.1) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  6(4Q35.1) MUTATED   275  45
  DEL PEAK  6(4Q35.1) WILD-TYPE 611  74
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                          320                           685 
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                           45                            74 
$`DEL PEAK  6(4Q35.1) MUTATED`
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04W 
       20.88        31.79        39.32        28.01        18.02        64.04 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D0 
       64.57        24.79        75.55        63.45        64.04        21.14 
TCGA-A2-A0EM TCGA-A2-A0EQ TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T0 
      101.72        79.76        24.16        27.12        50.43        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A1FV TCGA-A2-A1G1 
       17.13        20.75        18.21        18.61        23.47        19.20 
TCGA-A2-A25C TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S3 
       17.19        33.93        83.01         7.30        24.39        21.90 
TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A4SA 
       35.31        35.67        12.72        23.74        21.73        14.93 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV 
       14.50        21.17        17.92        14.73        12.10        10.29 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
        9.37        10.42         8.75         1.02        17.98        53.06 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G 
       31.00        26.01         1.02        43.00        19.99        18.97 
TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08I 
        8.98         9.99        15.06        38.01        33.01        12.00 
TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A09B 
        9.99        31.00         0.99        43.00        30.97        12.00 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09X TCGA-AC-A23E TCGA-AC-A2BK 
       49.05        45.07         8.98        14.01         2.37        38.53 
TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OQ 
        0.92         0.99         1.55         1.81         0.69         1.12 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A0AL TCGA-AN-A0AR 
        0.33         0.23         0.33         0.62         6.51         0.33 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         0.33         6.44         7.96         7.00         7.59 
TCGA-AN-A0FY TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33         0.30         0.33         0.33         0.33         5.59 
TCGA-AO-A03N TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 
       66.77        29.13        32.78        52.18        37.48        20.32 
TCGA-AO-A0JD TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G 
       72.00        96.10        90.58        64.04        48.36        41.62 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A0Y5 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TT 
       70.39         0.53         5.65       111.32         5.26        86.66 
TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       55.86        65.36       101.95       114.02        85.97        75.55 
TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       43.73        43.07        17.23        20.22       109.58        50.89 
TCGA-AR-A24O TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A5QP 
       84.20        85.35        50.96        78.48        93.83        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IO 
       10.59        77.62       129.57       112.37       176.98       110.14 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0WV 
      140.88       211.56       189.01        81.17       100.70        79.63 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 
       21.47       113.79        43.59        73.51        85.35        54.28 
TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
      103.63        38.79        46.95        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BP 
       56.94        37.22        32.02        25.71        21.70        48.69 
TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
       53.69        45.57        49.94        49.05        41.75        44.02 
TCGA-BH-A0DI TCGA-BH-A0DS TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EB 
       22.13         2.56         4.41         9.63        46.19        24.49 
TCGA-BH-A0GZ TCGA-BH-A0HI TCGA-BH-A0HU TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       10.78        20.38        12.89        50.79         5.59        23.93 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T 
       23.05         8.81        20.12        55.63        37.55         7.36 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EY 
       51.39        51.16        69.93        42.28        12.00        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FD TCGA-BH-A1FN TCGA-BH-A203 
       25.81        97.48        24.66        33.17        72.07        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U 
       57.83       130.16        11.93        12.66        11.77        12.66 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HJ TCGA-C8-A1HK 
        1.45         0.69         3.75        12.33         0.16        12.03 
TCGA-C8-A1HM TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27B 
        2.30         0.23         0.36         0.43         0.03         0.99 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JE 
       11.90        20.88        19.20        14.17        16.50        18.90 
TCGA-D8-A1JF TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1XG 
       12.03        20.09        20.12        20.09        19.40        14.73 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       14.50        19.92         7.96        16.41        15.85        16.31 
TCGA-D8-A1XU TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27T TCGA-E2-A14N TCGA-E2-A14O 
       12.99        13.05        13.48        13.08        47.15        44.68 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 
       38.24        38.60        25.41        19.43        14.79        25.05 
TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1B0 TCGA-E2-A1B6 TCGA-E2-A1BD 
       12.92         7.73        14.07        53.62        28.50        17.10 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA 
       33.73        33.70        20.98        27.42        39.62        24.59 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N6 
       18.87       106.75       102.61        34.92        19.89        13.48 
TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1RA TCGA-E9-A1RB 
       12.00        39.55         2.10         6.12        32.09        20.81 
TCGA-E9-A1RF TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A248 
        6.58        34.13        12.89        23.51         0.69         1.94 
TCGA-E9-A249 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y 
        0.95        17.75        26.07         0.62        15.72         0.23 
TCGA-E9-A5FL TCGA-EW-A1J1 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 
        0.26        18.90        25.94        22.82        40.41        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PH TCGA-EW-A2FR 
       23.11         7.86         6.15        10.52        19.96        55.00 
TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DF TCGA-GM-A2DH 
       17.49         7.40       109.87       194.27        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN 
       61.91        69.30        11.57        11.44        15.32        14.70 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW 
       14.79         3.88         4.50         6.21        46.55        36.36 
TCGA-OL-A5S0 TCGA-OL-A66K TCGA-OL-A6VO TCGA-PL-A8LV TCGA-PL-A8LX TCGA-S3-A6ZH 
       20.38        33.57        28.21         0.23         0.16         8.65 
TCGA-S3-AA10 TCGA-S3-AA14 
        7.92         7.17 

$`DEL PEAK  6(4Q35.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       47.24        13.68         7.96        19.20        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X 
       41.95        82.16        73.84        22.06        63.12        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       36.13       136.73       112.08        92.48        88.60       107.93 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25         5.19        56.81        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
       25.22        89.36        80.28       107.61        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST 
       35.05        34.29        31.82        29.75        24.72        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       54.64        44.88        44.28         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       17.46        18.90        32.55        25.28        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       21.67        14.50        19.33        48.46        31.73        23.77 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       17.36        36.79        22.45        20.25        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
       52.47       107.70        16.31        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       20.88        39.65        29.98        32.75        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       34.98        31.99        38.37        21.30        23.21        26.96 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.14        38.30        34.29        35.47        30.61        37.45 
TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       33.11        31.73        10.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       24.26        23.80        20.61        22.32        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB 
       10.29        11.28        13.41        14.70        11.97        13.74 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06U TCGA-A8-A075 
       10.72        11.05        13.02        13.02        29.03        17.03 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       53.98         9.01        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
        9.99        10.98         7.99        24.99        28.04        18.05 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J 
       36.95        13.02         0.99        28.96        19.96        37.05 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 
       31.00        33.01        93.04        40.01        33.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D 
       41.98        12.00         9.99         9.99         1.02        50.04 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V 
       29.98        33.07         1.02        25.02        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
        0.99        12.00        19.04        13.02        21.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H 
       13.02        17.03        38.04         0.95        10.85         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        1.48        38.20        40.57        55.43        36.99        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04        50.70         1.02         2.27         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP 
        0.07         1.12         1.18         0.43         1.68         1.74 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        1.32         0.33         2.96         1.78         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.36         0.16         4.64         7.17         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        0.33         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O 
       12.33         0.33         5.33        80.28        47.84        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J3 TCGA-AO-A0J5 
       84.69        68.75        47.87        59.05        21.40        24.16 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE 
       22.36        53.03        21.53        50.70        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM 
       21.37        26.24        50.24        62.04        55.33        71.80 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A12E 
      102.58        99.25       108.72       106.78        77.56        57.30 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H 
       28.37        14.73        82.62        61.87        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O 
       26.93       130.09        15.62        32.52         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
        9.99        49.32        74.79        29.75        98.93        64.83 
TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       76.14        83.87        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       62.56        43.56        39.98        37.81        76.21        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24P 
       63.62        62.14        73.02        96.89        78.51         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z 
      101.52        87.22        76.01        53.36        83.77        79.00 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       56.15        73.18        72.76        58.92       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       62.86        42.87         7.36        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-B6-A0I2 TCGA-B6-A0I5 
       40.54        20.38        54.74        16.04       143.38       149.59 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK 
       12.13       220.90        50.70        65.72       146.50        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RM 
      126.12        84.59       110.93        68.45       234.28        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
      172.96       162.05       102.77       140.48        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 
      157.41        97.48       188.68        17.98       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN 
      186.48        28.27        68.94        58.88       101.52       139.17 
TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY 
      170.17        49.94        55.00        24.53        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BD TCGA-BH-A0BG 
       28.50        40.83        56.98        51.68        18.21        24.85 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BW 
       44.05        61.68        35.67        27.19        53.95        11.67 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       48.13        42.90        45.83        31.17        23.44        38.01 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DT 
       13.91        48.23        17.26        15.65         3.22        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
       45.17        47.41        16.27        15.68        14.30        44.81 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H3 
       32.65        31.00        24.43        30.35        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB 
       35.51        24.56        23.08        41.00        52.96        26.50 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX 
        5.85         2.50        13.61        36.85        51.32        27.25 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18K 
       24.95        42.35        44.81         2.01         7.23        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18S TCGA-BH-A1EO 
       26.66        72.56        37.74        30.28        66.05        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1F5 
      113.82        82.85        55.69        49.58        31.53        89.16 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      120.62       114.15        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       55.00        45.63       144.59        72.07         6.90         0.72 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       83.31        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W 
        8.94        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HF 
       12.66         3.12         1.78         0.62         3.85        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Z 
       11.34        11.34        10.42         3.25         0.30         8.28 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 
        9.67         0.03         0.03        12.20         0.03         0.23 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
       13.25        20.58        13.97        14.17        13.48        21.14 
TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JG TCGA-D8-A1JH 
       17.49        18.71        15.78        18.15        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       18.97        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA 
       18.58        17.79        16.73        25.74        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XM 
       18.15         2.66        17.16        15.22        21.83        17.69 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 
        6.35        15.16        12.66        16.54        15.32        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G 
        3.81        14.24        14.14        17.42        16.04        13.45 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R 
       14.43         9.44        16.41         4.80         0.76        10.09 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       12.53        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
       34.42        27.52        46.59        40.41        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       28.44        28.87        40.96        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 
       34.26        32.02        31.96        28.60        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       23.24        21.04        23.87        23.34        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       20.71        21.63        18.21        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ 
       20.58        13.02        19.56        17.06        14.99        60.53 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF 
       53.03        29.95        32.35        16.47        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       32.78        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LK TCGA-E2-A1LL 
       54.18        19.66        40.47        28.90         8.75        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 
       16.93         5.52        15.72         7.20        30.61        19.00 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND 
        9.21        19.20        36.82        13.12        36.56        12.59 
TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       35.77        20.05        21.57         9.86        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD 
        0.62         1.38         2.76        21.21        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 
       34.65        21.27        34.59        35.64         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
       13.32        39.09        22.75        24.10        17.06         0.85 
TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A54X 
       27.22        24.56         0.72         0.76        18.41        12.33 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
        8.48        18.21        13.25        16.57        15.68        28.77 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 
       29.95        29.85        41.13        39.78        52.96        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG 
       30.08        18.90        19.99        13.94        14.43        34.55 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 
       52.73        25.91        22.09        21.27        10.16        10.59 
TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A2DL 
       59.57        53.13        53.52        43.04        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 
        6.67         4.08         4.60         8.75         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y 
        7.59        17.06        14.47        11.57         2.63         4.14 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         3.22         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        12.66        31.99        58.62        27.65        34.92 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       16.87        24.72        22.32        26.70        23.47        65.62 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY 
       31.07        26.04         7.23        14.07        19.73         0.26 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 
        3.95        16.50         6.81        10.59         5.56         8.52 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE 
                        20.88                         23.34 
[1] "0.0 - 211.6 (20.9)" "0.0 - 234.3 (23.3)"
[1] "hr=" "1.4"
D35V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  6(4Q35.1) MUTATED        24       16        1        0       121
  DEL PEAK  6(4Q35.1) WILD-TYPE      59       64        8        5       221
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  6(4Q35.1) MUTATED          78         0         46          9
  DEL PEAK  6(4Q35.1) WILD-TYPE       156         2         96         20
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  6(4Q35.1) MUTATED           17        8         0       5
  DEL PEAK  6(4Q35.1) WILD-TYPE         46       10         1      11
D35V3, multiclass
            clus
vv           DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  STAGE I                             24                            59
  STAGE IA                            16                            64
  STAGE IB                             1                             8
  STAGE II                             0                             5
  STAGE IIA                          121                           221
  STAGE IIB                           78                           156
  STAGE III                            0                             2
  STAGE IIIA                          46                            96
  STAGE IIIB                           9                            20
  STAGE IIIC                          17                            46
  STAGE IV                             8                            10
  STAGE TIS                            0                             1
  STAGE X                              5                            11
[1] 13  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(4Q35.1) MUTATED    64 211  34  16
  DEL PEAK  6(4Q35.1) WILD-TYPE 201 383  90  23
D35V4, multiclass
    clus
vv   DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  T1                          64                           201
  T2                         211                           383
  T3                          34                            90
  T4                          16                            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                             N0  N1  N2  N3
  DEL PEAK  6(4Q35.1) MUTATED   153 109  39  20
  DEL PEAK  6(4Q35.1) WILD-TYPE 328 230  74  54
D35V5, multiclass
    clus
vv   DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  N0                         153                           328
  N1                         109                           230
  N2                          39                            74
  N3                          20                            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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  6(4Q35.1) MUTATED          1 288   8  29
  DEL PEAK  6(4Q35.1) WILD-TYPE        4 566  11 118
D35V6, multiclass
          clus
vv         DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  CM0 (I+)                           1                             4
  M0                               288                           566
  M1                                 8                            11
  MX                                29                           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V7, binary
                               cls
clus                              0   1
  DEL PEAK  6(4Q35.1) MUTATED   324   2
  DEL PEAK  6(4Q35.1) WILD-TYPE 690   9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q35.1) MUTATED    324    2
  DEL PEAK  6(4Q35.1) WILD-TYPE  690    9
        clus
vv       DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  FEMALE                         324                           690
  MALE                             2                             9
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  6(4Q35.1) MUTATED                            1
  DEL PEAK  6(4Q35.1) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  6(4Q35.1) MUTATED                             279
  DEL PEAK  6(4Q35.1) WILD-TYPE                           475
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  6(4Q35.1) MUTATED                               28
  DEL PEAK  6(4Q35.1) WILD-TYPE                            147
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  6(4Q35.1) MUTATED                     4
  DEL PEAK  6(4Q35.1) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  6(4Q35.1) MUTATED                                  3
  DEL PEAK  6(4Q35.1) WILD-TYPE                               26
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  6(4Q35.1) MUTATED                    0             10
  DEL PEAK  6(4Q35.1) WILD-TYPE                 15             34
D35V8, multiclass
                                  clus
vv                                 DEL PEAK  6(4Q35.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            279
  INFILTRATING LOBULAR CARCINOMA                            28
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           3
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                            10
                                  clus
vv                                 DEL PEAK  6(4Q35.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              475
  INFILTRATING LOBULAR CARCINOMA                             147
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            26
  MUCINOUS CARCINOMA                                          15
  OTHER  SPECIFY                                              34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V9, binary
                               cls
clus                              0   1
  DEL PEAK  6(4Q35.1) MUTATED    94 232
  DEL PEAK  6(4Q35.1) WILD-TYPE 188 511
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q35.1) MUTATED     94  232
  DEL PEAK  6(4Q35.1) WILD-TYPE  188  511
     clus
vv    DEL PEAK  6(4Q35.1) MUTATED DEL PEAK  6(4Q35.1) WILD-TYPE
  NO                           94                           188
  YES                         232                           511
[1] 2 2
[1] FALSE
D35V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  6(4Q35.1) MUTATED                                  1    20
  DEL PEAK  6(4Q35.1) WILD-TYPE                                0    36
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(4Q35.1) MUTATED                          64   212
  DEL PEAK  6(4Q35.1) WILD-TYPE                        94   505
D35V11, multiclass
                                  clus
vv                                 DEL PEAK  6(4Q35.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     20
  BLACK OR AFRICAN AMERICAN                                 64
  WHITE                                                    212
                                  clus
vv                                 DEL PEAK  6(4Q35.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       36
  BLACK OR AFRICAN AMERICAN                                   94
  WHITE                                                      505
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V12, binary
                               cls
clus                              0   1
  DEL PEAK  6(4Q35.1) MUTATED     7 263
  DEL PEAK  6(4Q35.1) WILD-TYPE  29 563
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q35.1) MUTATED      7  263
  DEL PEAK  6(4Q35.1) WILD-TYPE   29  563
                        clus
vv                       DEL PEAK  6(4Q35.1) MUTATED
  HISPANIC OR LATINO                               7
  NOT HISPANIC OR LATINO                         263
                        clus
vv                       DEL PEAK  6(4Q35.1) WILD-TYPE
  HISPANIC OR LATINO                                29
  NOT HISPANIC OR LATINO                           563
[1] 2 2
[1] FALSE

Clustering(36) Variable = DEL PEAK  7(5Q11.2) MUTATION ANALYSIS
D36V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  7(5Q11.2) MUTATED   223  39
  DEL PEAK  7(5Q11.2) WILD-TYPE 663  80
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                          262                           743 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                           39                            80 
$`DEL PEAK  7(5Q11.2) MUTATED`
TCGA-A1-A0SG TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T 
       14.27        31.79        28.01        19.20        18.02        73.84 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A0CM TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 
       22.06        64.04        24.79        56.81        21.14        34.55 
TCGA-A2-A0EQ TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0YE 
       79.76        24.72        24.16        50.43        17.13        18.21 
TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1G1 TCGA-A2-A25E TCGA-A2-A3XS 
       21.67        18.61        31.73        19.20        91.92        33.93 
TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S3 
       83.01        38.40        34.98        38.37         7.30        21.90 
TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A2KD 
       35.67        31.73        10.72        23.74        21.73        22.32 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV 
       14.93        13.74        14.50        21.17        14.73        12.10 
TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A076 
        9.37         8.75        17.98        31.00        17.03        53.98 
TCGA-A8-A07G TCGA-A8-A07O TCGA-A8-A07U TCGA-A8-A084 TCGA-A8-A08F TCGA-A8-A08R 
       18.97         9.99        24.99        15.06        33.01         0.99 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A09A TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09T 
       93.04        43.00         9.99        29.98        33.07        19.04 
TCGA-AC-A2BK TCGA-AC-A62X TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A04D TCGA-AN-A0AK 
       38.53         1.12         1.12         0.23         1.71         7.36 
TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT 
        6.51         0.33         0.33         7.96         7.59         6.02 
TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XU TCGA-AO-A03M 
        0.33         0.33         0.33         0.33         0.33        47.84 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A129 TCGA-AO-A12F 
       52.18        24.16        37.48        55.33        96.10        48.36 
TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TT 
       70.39        26.93       130.09         2.56       111.32        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 
       29.75        98.93        65.36       101.95        83.87        85.97 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU 
       75.55        61.84        52.77        43.07        17.23        76.21 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       20.22        50.89        53.36        79.00        56.15        78.48 
TCGA-AR-A256 TCGA-AR-A2LR TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG 
       93.83        20.38        77.62       129.57        65.72       146.50 
TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WV 
      176.98       140.88       102.77       100.70       131.21        79.63 
TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A1KF TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AV 
       21.47       186.48       101.52        54.28        24.53        38.79 
TCGA-BH-A0B3 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP 
       39.55        56.98        51.68        24.85        44.05        48.69 
TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0HA 
       45.57        11.67        41.75         4.41         9.63        52.96 
TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EU 
       50.79        23.05         7.36        51.16       113.82        42.28 
TCGA-BH-A1EV TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
       12.00        25.81        31.53       114.15        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FM TCGA-BH-A1FU TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 
      122.89        45.63        72.07        38.60        57.83       130.16 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
       11.93        11.77        12.66        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A26W 
        1.78         0.62         3.75        10.92         0.16         0.23 
TCGA-C8-A26X TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A142 
        0.36         0.03        12.20         0.99        20.88        13.97 
TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JF 
       14.17        21.14        19.20        16.50        18.71        12.03 
TCGA-D8-A1JG TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1XA 
       12.03        20.12        20.09        19.40        21.01        27.58 
TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT 
       15.22        21.83        14.50        19.92        16.41         6.35 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27R 
       12.66        15.32        14.14        16.04        13.05        10.09 
TCGA-E2-A14N TCGA-E2-A14R TCGA-E2-A150 TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 
       47.15        38.60        25.41        21.04        14.79        25.05 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B6 TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L6 
       60.53        53.62        28.50        33.70        20.98        54.18 
TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A573 TCGA-E2-A574 
       27.42       106.75       102.61         8.75        34.92        19.89 
TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RH 
       12.00        39.55        12.59        20.81        40.24        34.59 
TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       39.09        12.89        23.51        17.06         0.69        27.22 
TCGA-E9-A2JS TCGA-EW-A1J1 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P8 
       17.75        18.90        25.94        22.82        29.82         7.86 
TCGA-EW-A1PA TCGA-EW-A1PH TCGA-EW-A2FV TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DF 
       18.90        19.96        25.91       109.87        43.04        42.71 
TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN 
       42.28        69.30        11.84        11.44        15.32        14.70 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 
       14.79         3.88         5.59         3.22         6.21        46.55 
TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A6VO 
       36.36        22.32        20.38        23.47        65.62        28.21 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LZ TCGA-S3-AA10 
        0.23         0.16         3.95         7.92 

$`DEL PEAK  7(5Q11.2) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        48.10        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88        13.68         7.96        39.32        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       41.95        82.16        63.12        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       64.57       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25         5.19        63.45        64.04        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER 
       25.22       101.72        89.36        80.28       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0ST 
       37.05        35.05        34.29        31.82        29.75        99.19 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 
       54.64        27.12        44.88        44.28        17.52         8.38 
TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC 
       18.71        20.52        17.46        18.90        20.75        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL 
       25.28        15.42        21.90        14.50        19.33        48.46 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       23.77        23.47        17.36        36.79        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       19.56        16.47        52.47       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV 
       18.15        10.59        20.88        39.65        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       49.48        31.99        24.39        21.30        23.21        26.96 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       21.14        38.30        35.31        34.29        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       37.45        33.11        12.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       24.26        23.80        20.61        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SF TCGA-A7-A5ZW 
       11.28        13.41        14.70        11.97        17.92        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q 
       11.05        10.29        10.42        13.02        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B 
       53.06        29.03        26.01         1.02         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P 
       19.99        18.97        14.01        12.00        17.03        10.98 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 
        8.98         7.99         9.99        28.04        18.05        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I 
       13.02         0.99        38.01        28.96        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08Z 
       37.05         9.99        31.00        31.00        33.01        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       33.01        30.97        17.95        41.98        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N 
       12.00         1.02        50.04        49.05        45.07         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
       25.02         8.98        15.02         0.99        14.01        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
       19.04        13.02        21.04         0.99        13.02        17.03 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
       38.04         0.95         2.37        10.85         2.66         1.48 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM 
       38.20        40.57        55.43        36.99        38.79        26.04 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       50.70         1.02         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
       24.79         1.55         0.07         1.81         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        0.43         1.68         1.74         1.32         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM 
        0.33         0.62         2.96         1.78         8.02         0.16 
TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         6.44         4.64         7.00         7.17         6.28 
TCGA-AN-A0FW TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.36         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N 
        0.33         0.33         5.33         5.59        80.28        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       81.63        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       32.78        21.40        20.32        22.36        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
       50.70        50.86        72.00        76.77        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       50.24        62.04        71.80       102.58        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
      106.78        90.58        77.56        64.04        57.30        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT 
       28.37        14.73        82.62        61.87         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 
       24.79         5.65        15.62        32.52        32.91         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       49.32         5.26        74.79        64.83        55.86        76.14 
TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
      114.02        51.25        48.82        62.56        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H 
       39.98        37.81        61.28        63.62        62.14       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 
       87.22        76.01        85.35        50.96        83.77        73.18 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       72.76        58.92       128.65        20.25        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM 
        7.36        40.04        38.17        39.39        40.54        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       16.04        20.45        10.59       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
      220.90        50.70       112.37        18.77       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      110.14       110.93       211.56        68.45       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT 
       81.17        78.02       172.96       162.05       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ 
      157.41        97.48       188.68        17.98       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI 
      129.70        28.27        68.94        58.88        43.59        73.51 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
      139.17       170.17        85.35        49.94       103.63        55.00 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       20.45        25.55        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       48.36        56.94        37.22        32.02        18.21        25.71 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       21.70        61.68        35.67        27.19        53.69        53.95 
TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       49.94        49.05        44.02        48.13        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       31.17        23.44        38.01        22.13        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       17.26        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 
       47.41        16.27        15.68        14.30        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       32.65        24.49        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 
       15.16        37.78        35.51        24.56        23.08        41.00 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       12.89        51.32        27.25         5.59        23.93        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       42.35        44.81         8.81         2.01         7.23        20.12 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
       90.84        26.66        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET 
       37.55        66.05        51.39        69.93        91.99        82.85 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       55.69        49.58        17.69        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR 
      120.62        36.92        63.35        55.00        72.07       144.59 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        6.90         0.72        83.31        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q 
        0.99       109.28         8.94        11.77        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66        12.66         1.45         0.69         3.85        12.33 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34        11.34        12.03        10.42         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
        0.30         0.43         8.28         9.67         0.03         0.03 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 
        0.03         0.23        11.90        13.25        20.58        13.48 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH 
       14.17        17.49        15.78        18.15        18.90        14.01 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       18.97        20.09        20.38        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB 
       18.58        17.79        16.73        25.74        23.90        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
        2.66        17.16        14.73        17.69         7.96        15.85 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       16.31        12.99        15.16        16.54        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       14.24        17.42        13.45        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
       13.48         4.80         0.76        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       14.50        18.51         7.33        43.00        34.42        27.52 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
       46.59        40.41        37.51        40.11        28.44        28.87 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       44.68        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 
       34.26        32.02        31.96        28.60        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       23.24        19.43        23.87        23.34        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       20.71        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1BC 
       14.07        14.99        53.03        29.95        32.35        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ 
       17.10        38.30        37.41        32.78        33.73        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L8 TCGA-E2-A1L9 
       22.65         3.88        22.19        11.08        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P5 
       24.59        40.47        28.90        18.87        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E2-A9RU 
        5.52        15.72         7.20        30.61        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE 
       19.20        36.82        13.48        13.12        36.56        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       20.05        21.57         9.86        11.90        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA 
        2.10         6.12         1.38         2.76        21.21        32.09 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 
        0.66        34.65         6.58        21.27        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A245 
        0.79        12.53        13.32        22.75        24.10         0.85 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO 
        1.94         0.95        24.56         0.72         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
       18.41         0.62        15.72        12.33         0.23        14.70 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
        0.26        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
        8.48        18.21        13.25        16.57        15.68        28.77 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       29.95        29.85        40.41        41.13        39.78        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       23.11        18.48        30.08        19.99         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW 
       10.52        14.43        34.55        55.00        52.73        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 
       21.27        17.49        10.16        10.59         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
      194.27        53.13        53.52        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 
        6.67         4.08         4.60         8.75         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y 
        7.59        17.06        14.47        11.57         2.63         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         4.50         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66        31.99        58.62        27.65        34.92        16.87 
TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       24.72        26.70        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH 
       14.07        19.73         0.26        16.50         6.81         8.65 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                       186.48                        234.28 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                        23.26                         22.19 
[1] "0.0 - 186.5 (23.3)" "0.0 - 234.3 (22.2)"
[1] "hr=" "1.2"
D36V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  7(5Q11.2) MUTATED        23       14        1        0       101
  DEL PEAK  7(5Q11.2) WILD-TYPE      60       66        8        5       241
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  7(5Q11.2) MUTATED          65         0         32          7
  DEL PEAK  7(5Q11.2) WILD-TYPE       169         2        110         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  7(5Q11.2) MUTATED           12        6         1       5
  DEL PEAK  7(5Q11.2) WILD-TYPE         51       12         0      11
D36V3, multiclass
            clus
vv           DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  STAGE I                             23                            60
  STAGE IA                            14                            66
  STAGE IB                             1                             8
  STAGE II                             0                             5
  STAGE IIA                          101                           241
  STAGE IIB                           65                           169
  STAGE III                            0                             2
  STAGE IIIA                          32                           110
  STAGE IIIB                           7                            22
  STAGE IIIC                          12                            51
  STAGE IV                             6                            12
  STAGE TIS                            1                             0
  STAGE X                              5                            11
[1] 13  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(5Q11.2) MUTATED    58 178  18  12
  DEL PEAK  7(5Q11.2) WILD-TYPE 207 416 106  27
D36V4, multiclass
    clus
vv   DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  T1                          58                           207
  T2                         178                           416
  T3                          18                           106
  T4                          12                            27
[1] 4 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  N3
  DEL PEAK  7(5Q11.2) MUTATED   133  87  30  13
  DEL PEAK  7(5Q11.2) WILD-TYPE 348 252  83  61
D36V5, multiclass
    clus
vv   DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  N0                         133                           348
  N1                          87                           252
  N2                          30                            83
  N3                          13                            61
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  7(5Q11.2) MUTATED          0 233   6  28
  DEL PEAK  7(5Q11.2) WILD-TYPE        5 621  13 119
D36V6, multiclass
          clus
vv         DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               233                           621
  M1                                 6                            13
  MX                                28                           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V7, binary
                               cls
clus                              0   1
  DEL PEAK  7(5Q11.2) MUTATED   267   0
  DEL PEAK  7(5Q11.2) WILD-TYPE 747  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(5Q11.2) MUTATED    267    0
  DEL PEAK  7(5Q11.2) WILD-TYPE  747   11
        clus
vv       DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  FEMALE                         267                           747
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  7(5Q11.2) MUTATED                            1
  DEL PEAK  7(5Q11.2) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  7(5Q11.2) MUTATED                             237
  DEL PEAK  7(5Q11.2) WILD-TYPE                           517
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  7(5Q11.2) MUTATED                                8
  DEL PEAK  7(5Q11.2) WILD-TYPE                            167
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  7(5Q11.2) MUTATED                     5
  DEL PEAK  7(5Q11.2) WILD-TYPE                   1
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  7(5Q11.2) MUTATED                                  4
  DEL PEAK  7(5Q11.2) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  7(5Q11.2) MUTATED                    1             10
  DEL PEAK  7(5Q11.2) WILD-TYPE                 14             34
D36V8, multiclass
                                  clus
vv                                 DEL PEAK  7(5Q11.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            237
  INFILTRATING LOBULAR CARCINOMA                             8
  MEDULLARY CARCINOMA                                        5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                            10
                                  clus
vv                                 DEL PEAK  7(5Q11.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              517
  INFILTRATING LOBULAR CARCINOMA                             167
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  MUCINOUS CARCINOMA                                          14
  OTHER  SPECIFY                                              34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V9, binary
                               cls
clus                              0   1
  DEL PEAK  7(5Q11.2) MUTATED    78 189
  DEL PEAK  7(5Q11.2) WILD-TYPE 204 554
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(5Q11.2) MUTATED     78  189
  DEL PEAK  7(5Q11.2) WILD-TYPE  204  554
     clus
vv    DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  NO                           78                           204
  YES                         189                           554
[1] 2 2
[1] FALSE
D36V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  7(5Q11.2) MUTATED                                  1    19
  DEL PEAK  7(5Q11.2) WILD-TYPE                                0    37
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(5Q11.2) MUTATED                          60   167
  DEL PEAK  7(5Q11.2) WILD-TYPE                        98   550
D36V11, multiclass
                                  clus
vv                                 DEL PEAK  7(5Q11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     19
  BLACK OR AFRICAN AMERICAN                                 60
  WHITE                                                    167
                                  clus
vv                                 DEL PEAK  7(5Q11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       37
  BLACK OR AFRICAN AMERICAN                                   98
  WHITE                                                      550
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V12, binary
                               cls
clus                              0   1
  DEL PEAK  7(5Q11.2) MUTATED     8 223
  DEL PEAK  7(5Q11.2) WILD-TYPE  28 603
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(5Q11.2) MUTATED      8  223
  DEL PEAK  7(5Q11.2) WILD-TYPE   28  603
                        clus
vv                       DEL PEAK  7(5Q11.2) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         223
                        clus
vv                       DEL PEAK  7(5Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           603
[1] 2 2
[1] FALSE

Clustering(37) Variable = DEL PEAK  8(5Q21.3) MUTATION ANALYSIS
D37V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  8(5Q21.3) MUTATED   219  35
  DEL PEAK  8(5Q21.3) WILD-TYPE 667  84
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                          254                           751 
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                           35                            84 
$`DEL PEAK  8(5Q21.3) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T 
       31.79        28.01        19.20        18.02        41.95        73.84 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A0CM TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 
       22.06        64.04        24.79        56.81        21.14        34.55 
TCGA-A2-A0EQ TCGA-A2-A0EY TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YH 
       79.76        24.16        50.43        17.52        18.21        21.67 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XX 
       18.61        31.73        19.20        33.93        83.01        38.40 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0DA 
       34.98        38.37         7.30        21.90        30.61        35.67 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A4SD 
       31.73        10.72        23.74        21.73        22.32        14.50 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY 
       21.17        14.73        12.10        10.29         9.37         8.75 
TCGA-A8-A06X TCGA-A8-A076 TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A084 
       31.00        53.98         9.99         8.98        24.99        15.06 
TCGA-A8-A08F TCGA-A8-A08L TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A09A TCGA-A8-A09C 
       33.01         9.99         0.99        43.00         9.99         1.02 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-AC-A2BK TCGA-AC-A3OD TCGA-AC-A62X 
       29.98        33.07        25.02        38.53        14.83         1.12 
TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AL 
        0.69         1.12         0.23         1.78         7.36         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT 
        0.33         0.33         0.33         7.96         7.59         6.02 
TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XU 
        0.33         0.33         0.33         0.33         0.33         0.33 
TCGA-AO-A03M TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JB TCGA-AO-A0JL 
       47.84        52.18        24.16        37.48        50.70        55.33 
TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12F TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A04L 
      102.58        96.10        48.36        70.39        26.93       130.09 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY 
        2.56       111.32        86.66        29.75        98.93        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       65.36       101.95        83.87        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24K 
       52.77        43.73        43.07        17.23        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24U TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       73.02       101.52        53.36        79.00        56.15        78.48 
TCGA-AR-A256 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IO TCGA-B6-A0RE 
       93.83       129.57        65.72       146.50       110.14       211.56 
TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A1KF TCGA-B6-A402 
      102.77       100.70       131.21        21.47       101.52        54.28 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0B3 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF 
       24.53        38.79        39.55        56.98        51.68        25.71 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0C0 
       24.85        44.05        48.69        45.57        11.67        41.75 
TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HY TCGA-BH-A0WA 
        4.41         9.63        52.96        20.38        50.79        23.05 
TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EV TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 
        7.36        51.16        12.00        25.81        31.53        97.48 
TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A208 TCGA-BH-A209 
      114.15        74.73        72.07        72.07        57.83       130.16 
TCGA-C8-A12L TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A1HF 
       11.93         3.12         1.78         0.69         0.62        10.92 
TCGA-C8-A1HJ TCGA-C8-A1HM TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 
        0.16         2.30         0.23         0.36         0.43         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JB 
       12.20         0.99        13.97        21.14        19.20        18.71 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1X9 
       12.03        12.03        20.12        20.09        19.40        23.90 
TCGA-D8-A1XA TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT 
       27.58        15.22        14.50        19.92        16.41         6.35 
TCGA-D8-A1XW TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27M TCGA-E2-A10C 
       12.66        14.14        16.04        13.05        13.48        40.11 
TCGA-E2-A14N TCGA-E2-A14R TCGA-E2-A150 TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 
       47.15        38.60        25.41        21.04        14.79        25.05 
TCGA-E2-A15A TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1LA 
       23.34        60.53        53.62        33.70        20.98        24.59 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A573 TCGA-E2-A574 
      106.75       102.61         8.75        43.04        34.92        19.89 
TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RH 
       12.00        39.55        12.59        20.81        40.24        34.59 
TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A3QA 
       39.09        12.89        23.51         0.69        27.22         0.62 
TCGA-E9-A5FL TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PA 
        0.26        25.94        22.82        29.82         7.86        18.90 
TCGA-EW-A1PH TCGA-EW-A2FV TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
       19.96        25.91       109.87        43.04        42.71        42.28 
TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP 
       69.30        11.84        11.44        15.32        14.70        14.79 
TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RZ TCGA-OL-A5S0 
        3.88         3.22         6.21        46.55        22.32        20.38 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A6VO TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LZ 
       23.47        65.62        28.21         0.23         0.16         3.95 
TCGA-S3-AA10 TCGA-S3-AA17 
        7.92         3.91 

$`DEL PEAK  8(5Q21.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ 
       47.24        20.88        13.68         7.96        39.32        18.21 
TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
      104.81        82.16        63.12        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       64.57       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25         5.19        63.45        64.04        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER 
       25.22       101.72        89.36        80.28       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       37.05        35.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T1 
       99.19        54.64        27.12        44.88        44.28        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
        8.38        18.71        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK 
       32.55        25.28        15.42        21.90        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ 
       48.46        23.77        23.47        17.36        36.79        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B 
       20.25        19.56        16.47        52.47       107.70        16.31 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY 
       29.98        32.75        49.48        31.99        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       23.21        26.96        21.14        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H 
       35.47        37.45        33.11        12.72        23.61        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ 
       31.36        24.26        23.80        20.61        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.29        11.28        13.41        14.70        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A8-A06O 
       13.74        17.92        10.72        11.05        10.42        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y 
       13.02         1.02        17.98        53.06        29.03        26.01 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
        1.02        17.03         9.01        43.00        19.99        18.97 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07S 
       18.97        14.01        12.00        17.03        10.98         7.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.99        28.04        18.05        36.95        13.02         0.99 
TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O 
       38.01        28.96        19.96        12.00        37.05        31.00 
TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       31.00        33.01        93.04        40.01        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D 
       17.95        41.98        12.00         9.99        12.00        50.04 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       49.05        45.07         1.02         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
        0.99        14.01        12.00        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
        0.99        13.02        17.03        38.04         0.95         2.37 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
       10.85         2.66         1.48        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       36.99        38.79        26.04        50.70         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        2.27         0.99         0.69        22.19         1.12        16.57 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y 
       19.79        23.24        24.79         1.55         0.07         1.81 
TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X 
        1.18         0.43         1.68         1.74         1.32         0.33 
TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ 
        0.33         0.33         0.62         2.96         1.71         8.02 
TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        0.16         6.44         4.64         7.00         7.17         6.28 
TCGA-AN-A0FW TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        0.36         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O 
        0.33         5.33         5.59        80.28        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
       84.69        68.75        47.87        59.05        29.13        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC 
       21.40        20.32        22.36        53.03        21.53        50.86 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       72.00        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
       71.80        99.25       108.72       106.78        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       64.04        57.30        41.62        28.37        14.73        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       61.87         0.53        17.79        24.79         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
       32.52        32.91         9.99        49.32         5.26        74.79 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       64.83        76.14       114.02        51.25        48.82        62.56 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       43.56        39.98        37.81        76.21        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       62.14       109.58        96.89        78.51        84.20         0.85 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 
       87.22        76.01        85.35        50.96        83.77        73.18 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       72.76        58.92       128.65        20.25        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IH TCGA-B6-A0IJ 
      149.59        12.13       220.90        50.70       112.37       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG 
       18.77       126.12        84.59       110.93       140.88        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO 
      189.01       234.28        81.17        78.02       172.96       162.05 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      140.48        89.46       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       17.98       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU 
       68.94        58.88        43.59        73.51       139.17       170.17 
TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY 
       85.35        49.94       103.63        55.00        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 
       28.50        46.95        40.83        39.16        48.36        56.94 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       37.22        32.02        18.21        21.70        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 
       27.19        53.69        53.95        49.94        49.05        44.02 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       48.13        42.90        45.83        31.17        23.44        38.01 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       22.13        13.91        48.23        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE 
       14.30        44.81        46.19        32.65        24.49        31.00 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.43        30.35        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO 
       24.56        23.08        41.00        26.50         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX 
       13.61        36.85        12.89        51.32        27.25         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G 
       23.93        24.95        42.35        44.81         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
        7.23        20.12        90.84        26.66        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN 
       30.28        55.63        37.55        66.05        51.39        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX 
       91.99       113.82        82.85        42.28        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FG 
       17.69        89.16        24.66       120.62        33.17       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 
       36.92        63.35        55.00        45.63       144.59         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        0.72        38.60        83.31        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O 
        0.99       109.28         8.94        11.77        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77         0.07        12.66        12.66        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI 
        1.45         3.85         3.75        12.33        11.34        11.34 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Z TCGA-C8-A273 
       12.03        10.42         3.25         0.30         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z 
        0.03         0.03         0.03         0.23        11.90        20.88 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 
       13.25        20.58        14.17        13.48        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JI 
       16.50        15.78        18.15        18.90        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.09        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC 
       18.58        17.79        16.73        25.74        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       17.16        14.73        21.83        17.69         7.96        15.85 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 
       16.31        12.99        15.16        16.54        15.32        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K 
        3.81        14.24        17.42        13.45        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V 
       16.41         4.80         0.76        10.09        13.08        12.53 
TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 
       12.26        14.50        18.51         7.33        43.00        34.42 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       27.52        46.59        40.41        37.51        28.44        28.87 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       44.68        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 
       34.26        32.02        31.96        28.60        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E 
       23.24        19.43        23.87        22.82        17.29        20.71 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       21.63        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
       20.58         7.73        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       14.99        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ 
       17.10        38.30        37.41        32.78        33.73        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       22.65         3.88        22.19        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A2P5 
       39.62        19.66        40.47        28.90        18.87        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E2-A9RU 
        5.52        15.72         7.20        30.61        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE 
       19.20        36.82        13.48        13.12        36.56        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       20.05        21.57         9.86        11.90        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA 
        2.10         6.12         1.38         2.76        21.21        32.09 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 
        0.66        34.65         6.58        21.27        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 
        0.79        12.53        13.32        22.75        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
        0.85         1.94         0.95        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y 
        0.76        26.07        18.41        15.72        12.33         0.23 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
        8.48        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       28.77        29.95        29.85        40.41        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC 
       52.96        23.11        18.48        30.08        19.99         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS 
       13.94        10.52        14.43        34.55        55.00        52.73 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 
       22.09        21.27        17.49        10.16        10.59         7.40 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK 
       59.57       194.27        53.13        53.52        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       43.73        66.38        72.03        13.55        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ 
       10.95         7.59        17.06        14.47        11.57         2.63 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A9Q3 TCGA-LQ-A4E4 
        4.14         4.50         4.50         5.59         7.36        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66K 
       34.92        36.36        16.87        24.72        26.70        33.57 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY 
       31.07        26.04         7.23        14.07        19.73         0.26 
TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 
       16.50         6.81         8.65        10.59         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        7.17         6.87         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE 
                        23.82                         21.83 
[1] "0.0 - 211.6 (23.8)" "0.0 - 234.3 (21.8)"
[1] "hr=" "1.2"
D37V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  8(5Q21.3) MUTATED        19       16        1        0       106
  DEL PEAK  8(5Q21.3) WILD-TYPE      64       64        8        5       236
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  8(5Q21.3) MUTATED          61         0         27          7
  DEL PEAK  8(5Q21.3) WILD-TYPE       173         2        115         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  8(5Q21.3) MUTATED           12        4         1       4
  DEL PEAK  8(5Q21.3) WILD-TYPE         51       14         0      12
D37V3, multiclass
            clus
vv           DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  STAGE I                             19                            64
  STAGE IA                            16                            64
  STAGE IB                             1                             8
  STAGE II                             0                             5
  STAGE IIA                          106                           236
  STAGE IIB                           61                           173
  STAGE III                            0                             2
  STAGE IIIA                          27                           115
  STAGE IIIB                           7                            22
  STAGE IIIC                          12                            51
  STAGE IV                             4                            14
  STAGE TIS                            1                             0
  STAGE X                              4                            12
[1] 13  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(5Q21.3) MUTATED    52 176  17  12
  DEL PEAK  8(5Q21.3) WILD-TYPE 213 418 107  27
D37V4, multiclass
    clus
vv   DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  T1                          52                           213
  T2                         176                           418
  T3                          17                           107
  T4                          12                            27
[1] 4 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  N3
  DEL PEAK  8(5Q21.3) MUTATED   140  77  27  13
  DEL PEAK  8(5Q21.3) WILD-TYPE 341 262  86  61
D37V5, multiclass
    clus
vv   DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  N0                         140                           341
  N1                          77                           262
  N2                          27                            86
  N3                          13                            61
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  8(5Q21.3) MUTATED          1 226   4  28
  DEL PEAK  8(5Q21.3) WILD-TYPE        4 628  15 119
D37V6, multiclass
          clus
vv         DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  CM0 (I+)                           1                             4
  M0                               226                           628
  M1                                 4                            15
  MX                                28                           119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V7, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q21.3) MUTATED   259   0
  DEL PEAK  8(5Q21.3) WILD-TYPE 755  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q21.3) MUTATED    259    0
  DEL PEAK  8(5Q21.3) WILD-TYPE  755   11
        clus
vv       DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  FEMALE                         259                           755
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  8(5Q21.3) MUTATED                            1
  DEL PEAK  8(5Q21.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  8(5Q21.3) MUTATED                             234
  DEL PEAK  8(5Q21.3) WILD-TYPE                           520
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  8(5Q21.3) MUTATED                                4
  DEL PEAK  8(5Q21.3) WILD-TYPE                            171
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  8(5Q21.3) MUTATED                     6
  DEL PEAK  8(5Q21.3) WILD-TYPE                   0
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  8(5Q21.3) MUTATED                                  4
  DEL PEAK  8(5Q21.3) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  8(5Q21.3) MUTATED                    0              9
  DEL PEAK  8(5Q21.3) WILD-TYPE                 15             35
D37V8, multiclass
                                  clus
vv                                 DEL PEAK  8(5Q21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            234
  INFILTRATING LOBULAR CARCINOMA                             4
  MEDULLARY CARCINOMA                                        6
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK  8(5Q21.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              520
  INFILTRATING LOBULAR CARCINOMA                             171
  MEDULLARY CARCINOMA                                          0
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  MUCINOUS CARCINOMA                                          15
  OTHER  SPECIFY                                              35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V9, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q21.3) MUTATED    80 179
  DEL PEAK  8(5Q21.3) WILD-TYPE 202 564
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q21.3) MUTATED     80  179
  DEL PEAK  8(5Q21.3) WILD-TYPE  202  564
     clus
vv    DEL PEAK  8(5Q21.3) MUTATED DEL PEAK  8(5Q21.3) WILD-TYPE
  NO                           80                           202
  YES                         179                           564
[1] 2 2
[1] FALSE
D37V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  8(5Q21.3) MUTATED                                  0    17
  DEL PEAK  8(5Q21.3) WILD-TYPE                                1    39
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(5Q21.3) MUTATED                          60   162
  DEL PEAK  8(5Q21.3) WILD-TYPE                        98   555
D37V11, multiclass
                                  clus
vv                                 DEL PEAK  8(5Q21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     17
  BLACK OR AFRICAN AMERICAN                                 60
  WHITE                                                    162
                                  clus
vv                                 DEL PEAK  8(5Q21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       39
  BLACK OR AFRICAN AMERICAN                                   98
  WHITE                                                      555
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V12, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q21.3) MUTATED     8 214
  DEL PEAK  8(5Q21.3) WILD-TYPE  28 612
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q21.3) MUTATED      8  214
  DEL PEAK  8(5Q21.3) WILD-TYPE   28  612
                        clus
vv                       DEL PEAK  8(5Q21.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         214
                        clus
vv                       DEL PEAK  8(5Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           612
[1] 2 2
[1] FALSE

Clustering(38) Variable = DEL PEAK  9(6P25.3) MUTATION ANALYSIS
D38V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  9(6P25.3) MUTATED   167  25
  DEL PEAK  9(6P25.3) WILD-TYPE 719  94
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                          192                           813 
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                           25                            94 
$`DEL PEAK  9(6P25.3) MUTATED`
TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SP TCGA-A2-A04W TCGA-A2-A0CQ 
       14.27        13.68        31.79        19.20        64.04        88.60 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D4 
       75.55        75.25         5.19        63.45        21.14        25.22 
TCGA-A2-A0EO TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A25E 
       80.28        27.12        17.52        18.71        20.52        91.92 
TCGA-A2-A3XS TCGA-A2-A3XW TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A7-A0DA TCGA-A7-A2KD 
       33.93        49.48         7.30        21.30        35.67        22.32 
TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06Y TCGA-A8-A06Z 
       21.17        12.10        10.29        13.02        26.01         1.02 
TCGA-A8-A079 TCGA-A8-A07J TCGA-A8-A082 TCGA-A8-A08G TCGA-A8-A08X TCGA-A8-A097 
        9.01        12.00        18.05        19.96        43.00        12.00 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A6 TCGA-A8-A0A9 
       29.98        33.07         8.98        19.04        21.04        13.02 
TCGA-AC-A23C TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A5XS 
        0.95        38.20        26.04         0.92         0.99         1.55 
TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A04A TCGA-AN-A0FV 
        0.07         1.81         0.69         1.74         2.96         0.33 
TCGA-AN-A0FX TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03T TCGA-AO-A0J6 
        0.33         0.33         5.59        80.28        47.87        37.48 
TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A1KR 
       20.32        22.36        72.00        26.24        62.04        70.39 
TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0U1 
       17.79        15.62         2.56        32.91        49.32       101.95 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AU TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
       39.98        43.07        76.21       109.58        50.89        73.02 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A256 
        0.85        87.22        85.35        79.00        73.18        93.83 
TCGA-B6-A0I1 TCGA-B6-A0IA TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0WV TCGA-B6-A0X1 
       77.62       220.90       172.96       162.05        79.63       186.48 
TCGA-B6-A401 TCGA-BH-A0AU TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B9 
       85.35        24.53        46.95        39.16        48.36        51.68 
TCGA-BH-A0BF TCGA-BH-A0C3 TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0E2 TCGA-BH-A0HB 
       25.71        48.13        48.23        15.65        14.30        26.50 
TCGA-BH-A0W3 TCGA-BH-A0W7 TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1ES 
       23.93        44.81         7.36        51.39        51.16       113.82 
TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A208 
       42.28        17.69        89.16        45.63        72.07        57.83 
TCGA-C8-A12O TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A26X TCGA-C8-A274 TCGA-C8-A27A 
       12.66        11.34        12.03         0.36         0.03        12.20 
TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1JC 
        0.99         0.23        11.90        13.48        19.20        15.78 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1XA 
       18.90        12.03        20.09        19.40        21.01        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XU TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A27H 
       18.15         2.66        12.99        15.52         3.81        13.05 
TCGA-D8-A27M TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14R TCGA-E2-A14W 
       13.48        34.42        46.59        40.11        38.60        32.02 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A15D TCGA-E2-A15E 
       25.41        27.12        23.24        21.04        17.29        20.71 
TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A1AZ TCGA-E2-A1BD TCGA-E2-A1IG TCGA-E2-A1L7 
       21.63        12.92        60.53        17.10        32.78        27.42 
TCGA-E2-A1L8 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       39.62        13.48        36.56        39.55        12.59        20.05 
TCGA-E9-A1QZ TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RG TCGA-E9-A22E 
       11.90         2.76        32.09        20.81        21.27        12.89 
TCGA-E9-A249 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1J1 
        0.95         0.62        15.72        13.81        14.40        18.90 
TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DC 
       29.85        29.82        23.11         7.40       109.87        53.52 
TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LL-A6FR TCGA-LL-A740 TCGA-LL-A8F5 
       42.28        69.30        11.84         3.88         4.50         6.21 
TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5DA TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-S3-AA17 
        2.79        12.66        58.62         6.81         7.92         3.91 

$`DEL PEAK  9(6P25.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        48.10        47.24 
TCGA-A1-A0SI TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88         7.96        39.32        28.01        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V 
       18.02        41.95        82.16        73.84        22.06        63.12 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO 
       55.43        36.13       136.73        64.57        24.79       112.08 
TCGA-A2-A0CP TCGA-A2-A0CR TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 
       92.48       107.93        64.04        56.81        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
       28.77       101.72        89.36       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       37.05        35.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.16        99.19        54.64        44.88        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC 
       17.13         8.38        17.46        18.90        20.75        32.55 
TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI 
       25.28        18.21        15.42        21.90        21.67        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV 
       18.61        19.33        48.46        31.73        23.77        23.47 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 
       17.36        36.79        22.45        20.25        19.20        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV 
       10.59        20.88        39.65        83.01        29.98        32.75 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S0 
       38.40        34.98        31.99        38.37        24.39        23.21 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       26.96        21.14        21.90        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E 
       35.47        30.61        37.45        33.11        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G 
       12.72        23.61        29.56        31.36        24.26        23.74 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       23.80        21.73        20.61        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       11.28        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW 
       14.50        17.92        14.73        10.72        11.05         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
       10.42         8.75        13.02         1.02        17.98        53.06 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E 
       29.03        31.00        17.03        53.98        43.00        19.99 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       18.97        18.97        14.01        17.03         9.99        10.98 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 
        8.98         7.99        24.99         9.99        28.04        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       36.95        13.02         0.99        38.01        28.96        33.01 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       12.00        37.05         9.99        31.00        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       33.01        93.04        40.01        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       41.98         9.99         9.99        12.00         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W 
       49.05        45.07         1.02        25.02        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AB 
       14.01        12.00        19.04        13.02         0.99        17.03 
TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
       38.04         2.37        10.85         2.66         1.48        38.53 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH 
       40.57        55.43        36.99        38.79        50.70         1.02 
TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        2.27         0.69        14.83        22.19         1.12        16.57 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX 
       19.79        23.24        24.79         1.12         1.18         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.68         1.12         1.32         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.33         0.62         1.78         1.71         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        6.51         0.16         0.33         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        4.64         7.96         7.00         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        6.02         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV 
       12.33         0.30         0.33         0.33         0.33         5.33 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03U 
       47.84        66.77        81.63        84.69        68.75        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J9 
       29.13        32.78        21.40        52.18        24.16        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI 
       21.53        50.70        50.86        76.77        21.37        50.24 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       55.33        71.80       102.58        99.25       108.72       106.78 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F 
       96.10        90.58        77.56        64.04        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS 
       41.62        28.37        14.73        82.62        61.87         0.53 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A7U7 
       24.79        26.93       130.09         5.65        32.52         9.99 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
      111.32         5.26        74.79        86.66        29.75        98.93 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 
       64.83        55.86        76.14        65.36        83.87       114.02 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       85.97        75.55        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV 
       62.56        43.73        43.56        17.23        37.81        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       63.62        62.14        20.22        96.89        78.51        84.20 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 
      101.52        76.01        53.36        50.96        83.77        56.15 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       78.48        72.76        58.92       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       42.87         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 
       20.38        54.74        16.04        20.45        10.59       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      149.59        12.13       129.57        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      112.37       176.98        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      110.93       140.88       211.56        68.45       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT 
       81.17        78.02       102.77       140.48       100.70        89.46 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX 
      131.21       157.41        97.48       188.68        17.98        21.47 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
      113.79       129.57       129.70        28.27        68.94        58.88 
TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 
       43.59       101.52        73.51       139.17       170.17        54.28 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       49.94       103.63        55.00        38.79        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA 
       28.50        40.83        39.55        56.94        56.98        37.22 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
       32.02        18.21        24.85        21.70        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT 
       35.67        48.69        27.19        53.69        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 
       49.94        11.67        49.05        41.75        44.02        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       45.83        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 
       16.27         4.41        15.68         9.63        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       32.65        24.49        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 
       15.16        37.78        35.51        24.56        23.08        41.00 
TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W4 
       12.89        51.32        27.25        50.79         5.59        24.95 
TCGA-BH-A0W5 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       42.35        23.05         8.81         2.01         7.23        20.12 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
       90.84        26.66        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EV 
       37.55        66.05        69.93        91.99        82.85        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 
       55.69        49.58        25.81        31.53        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
      120.62       114.15        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       38.60        83.31       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77         0.07        12.66        12.66        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
        3.12         1.78         1.45         0.69         0.62         3.85 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL 
        3.75        12.33        10.92        11.34         0.16        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A26Z 
        2.30         3.25         0.30         0.23         0.43         8.28 
TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 
        9.67         0.03         0.03         0.03        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 
       20.58        13.97        14.17        21.14        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI 
       16.50        18.71        18.15        12.03        14.01        18.97 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.12        20.09        20.38        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XD 
       18.58        17.79        16.73        25.74        23.90        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM 
       15.22        14.73        21.83        14.50        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV 
        7.96        16.41        15.85        16.31         6.35        15.16 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       12.66        16.54        15.32        14.24        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N 
       16.04        13.45        14.43         9.44        16.41         4.80 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
        0.76        10.09        13.08        12.53        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
       18.51         7.33        43.00        27.52        40.41        37.51 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q 
       28.44        28.87        47.15        44.68        40.96        38.24 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y 
       33.17        33.30        43.33        34.26        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A 
       17.03        19.43        23.87        14.79        25.05        23.34 
TCGA-E2-A15C TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       22.82        18.21        17.42        19.40         9.04        20.58 
TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T 
        7.73        13.02        19.56        17.06        14.07        14.99 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       53.62        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       38.30        37.41        33.73        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 
        3.88        22.19        20.98        11.08        54.18        19.66 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       24.59        40.47        28.90        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
        8.75        43.04        16.93         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 
       30.61        34.92        19.89        19.00         9.21        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI 
       36.82        12.00        13.12        35.77        21.57         9.86 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 
       14.30         0.62         2.10         6.12         1.38        21.21 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI 
       40.24         0.66        34.65         6.58        34.59        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
       34.13         0.79        12.53        13.32        39.09        22.75 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 
       23.51        24.10        17.06         0.69         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO 
        1.94        24.56         0.72        17.75         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE 
       18.41        12.33         0.23        14.70         0.26        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 
       12.20        39.72         8.48        18.21        13.25        16.57 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ 
       15.68        28.77        25.94        22.82        29.95        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 
       41.13        39.78        52.96        18.48        30.08         7.86 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       18.90        19.99         6.15        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       34.55        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA 
       21.27        17.49        10.16        10.59        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
       53.13        43.04        42.71        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
        6.67         4.08         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
       10.95         7.59        17.06        15.32        14.70        14.47 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7SZ 
       14.79        11.57         2.63         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 
        3.22         7.36        27.91         2.10        46.55        31.99 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        34.92        36.36        16.87        24.72        22.32 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       20.38        26.70        23.47        65.62        33.57        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV 
       26.04         7.23        14.07        28.21        19.73         0.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA0Z 
        0.16         0.26         3.95        16.50         8.65        10.59 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 
        5.56         8.52         7.17         6.87         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                       220.90                        234.28 
  DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE 
                       21.155                        23.050 
[1] "0.0 - 220.9 (21.2)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.2"
D38V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  9(6P25.3) MUTATED        11       14        1        0        77
  DEL PEAK  9(6P25.3) WILD-TYPE      72       66        8        5       265
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  9(6P25.3) MUTATED          49         0         27          4
  DEL PEAK  9(6P25.3) WILD-TYPE       185         2        115         25
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  9(6P25.3) MUTATED            5        4         0       2
  DEL PEAK  9(6P25.3) WILD-TYPE         58       14         1      14
D38V3, multiclass
            clus
vv           DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  STAGE I                             11                            72
  STAGE IA                            14                            66
  STAGE IB                             1                             8
  STAGE II                             0                             5
  STAGE IIA                           77                           265
  STAGE IIB                           49                           185
  STAGE III                            0                             2
  STAGE IIIA                          27                           115
  STAGE IIIB                           4                            25
  STAGE IIIC                           5                            58
  STAGE IV                             4                            14
  STAGE TIS                            0                             1
  STAGE X                              2                            14
[1] 13  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(6P25.3) MUTATED    43 132  13   6
  DEL PEAK  9(6P25.3) WILD-TYPE 222 462 111  33
D38V4, multiclass
    clus
vv   DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  T1                          43                           222
  T2                         132                           462
  T3                          13                           111
  T4                           6                            33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             N0  N1  N2  N3
  DEL PEAK  9(6P25.3) MUTATED    97  66  24   7
  DEL PEAK  9(6P25.3) WILD-TYPE 384 273  89  67
D38V5, multiclass
    clus
vv   DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  N0                          97                           384
  N1                          66                           273
  N2                          24                            89
  N3                           7                            67
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK  9(6P25.3) MUTATED          1 168   4  21
  DEL PEAK  9(6P25.3) WILD-TYPE        4 686  15 126
D38V6, multiclass
          clus
vv         DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  CM0 (I+)                           1                             4
  M0                               168                           686
  M1                                 4                            15
  MX                                21                           126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V7, binary
                               cls
clus                              0   1
  DEL PEAK  9(6P25.3) MUTATED   190   4
  DEL PEAK  9(6P25.3) WILD-TYPE 824   7
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.3) MUTATED    190    4
  DEL PEAK  9(6P25.3) WILD-TYPE  824    7
        clus
vv       DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  FEMALE                         190                           824
  MALE                             4                             7
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  9(6P25.3) MUTATED                            1
  DEL PEAK  9(6P25.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  9(6P25.3) MUTATED                             155
  DEL PEAK  9(6P25.3) WILD-TYPE                           599
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  9(6P25.3) MUTATED                               22
  DEL PEAK  9(6P25.3) WILD-TYPE                            153
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  9(6P25.3) MUTATED                     2
  DEL PEAK  9(6P25.3) WILD-TYPE                   4
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  9(6P25.3) MUTATED                                  4
  DEL PEAK  9(6P25.3) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  9(6P25.3) MUTATED                    2              8
  DEL PEAK  9(6P25.3) WILD-TYPE                 13             36
D38V8, multiclass
                                  clus
vv                                 DEL PEAK  9(6P25.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            155
  INFILTRATING LOBULAR CARCINOMA                            22
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         2
  OTHER  SPECIFY                                             8
                                  clus
vv                                 DEL PEAK  9(6P25.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              599
  INFILTRATING LOBULAR CARCINOMA                             153
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  MUCINOUS CARCINOMA                                          13
  OTHER  SPECIFY                                              36
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V9, binary
                               cls
clus                              0   1
  DEL PEAK  9(6P25.3) MUTATED    64 130
  DEL PEAK  9(6P25.3) WILD-TYPE 218 613
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.3) MUTATED     64  130
  DEL PEAK  9(6P25.3) WILD-TYPE  218  613
     clus
vv    DEL PEAK  9(6P25.3) MUTATED DEL PEAK  9(6P25.3) WILD-TYPE
  NO                           64                           218
  YES                         130                           613
[1] 2 2
[1] FALSE
D38V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  9(6P25.3) MUTATED                                  0    13
  DEL PEAK  9(6P25.3) WILD-TYPE                                1    43
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(6P25.3) MUTATED                          32   132
  DEL PEAK  9(6P25.3) WILD-TYPE                       126   585
D38V11, multiclass
                                  clus
vv                                 DEL PEAK  9(6P25.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     13
  BLACK OR AFRICAN AMERICAN                                 32
  WHITE                                                    132
                                  clus
vv                                 DEL PEAK  9(6P25.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       43
  BLACK OR AFRICAN AMERICAN                                  126
  WHITE                                                      585
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V12, binary
                               cls
clus                              0   1
  DEL PEAK  9(6P25.3) MUTATED     5 161
  DEL PEAK  9(6P25.3) WILD-TYPE  31 665
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(6P25.3) MUTATED      5  161
  DEL PEAK  9(6P25.3) WILD-TYPE   31  665
                        clus
vv                       DEL PEAK  9(6P25.3) MUTATED
  HISPANIC OR LATINO                               5
  NOT HISPANIC OR LATINO                         161
                        clus
vv                       DEL PEAK  9(6P25.3) WILD-TYPE
  HISPANIC OR LATINO                                31
  NOT HISPANIC OR LATINO                           665
[1] 2 2
[1] FALSE

Clustering(39) Variable = DEL PEAK 10(6Q15) MUTATION ANALYSIS
D39V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 10(6Q15) MUTATED   300  38
  DEL PEAK 10(6Q15) WILD-TYPE 586  81
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                        338                         667 
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                         38                          81 
$`DEL PEAK 10(6Q15) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SN TCGA-A2-A04R TCGA-A2-A04U 
        0.39        43.43        14.27        39.32        82.16        22.06 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       64.04        55.43        24.79        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0ET 
       75.25         5.19        63.45        25.22        80.28        35.05 
TCGA-A2-A0SV TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YT TCGA-A2-A1FV 
       27.12        18.71        18.90        20.75        23.77        23.47 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       17.36        36.79       107.70        16.31        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XW TCGA-A2-A4RY TCGA-A7-A0CD 
       91.92        39.65        33.93        49.48        21.30        38.30 
TCGA-A7-A0CJ TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3J1 
       30.61        31.73        12.72        20.61        11.34        11.28 
TCGA-A7-A426 TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A06Z 
       11.97        13.02         1.02        17.98        26.01         1.02 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P 
       53.98         9.01        43.00        12.00        17.03        10.98 
TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I 
        7.99         9.99        18.05        33.01        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E 
       37.05        31.00        12.00         9.99         1.02        49.05 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       45.07        29.98        33.07        25.02         8.98        19.04 
TCGA-A8-A09W TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23G 
        0.99        13.02        21.04        13.02        38.04        10.85 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3BB TCGA-AC-A3W5 
       38.53        38.20        26.04         1.02         0.99        16.57 
TCGA-AC-A62Y TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C 
        1.81         1.74         1.32         0.23         2.96         1.78 
TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FW 
        6.51         0.33         4.64         7.96         0.33         0.36 
TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T 
        0.33         0.33         5.59        66.77        68.75        47.87 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       32.78        21.40        24.16        37.48        20.32        22.36 
TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A126 
       76.77        26.24        50.24        62.04        55.33       108.72 
TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       61.87        17.79       130.09        15.62        32.52         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TZ TCGA-AR-A0U2 
       32.91         9.99        49.32         5.26        76.14        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AQ TCGA-AR-A24K TCGA-AR-A24P TCGA-AR-A24R 
      114.02        85.97        43.07        50.89         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A255 TCGA-B6-A0IJ 
       76.01        85.35        56.15        73.18        58.92       176.98 
TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WY 
       68.45       162.05       131.21        97.48        79.63       113.79 
TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40C 
       43.59       139.17       170.17        85.35        49.94        55.00 
TCGA-BH-A0AU TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BA TCGA-BH-A0BF 
       24.53        46.95        39.16        48.36        37.22        25.71 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BT 
       21.70        61.68        48.69        27.19        53.69        45.57 
TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DL 
       11.67        48.13        31.17        38.01        22.13        48.23 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DX TCGA-BH-A0E2 TCGA-BH-A0EI 
       15.65         3.22         2.56        47.41        14.30        24.43 
TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HW TCGA-BH-A0HX 
       15.16        23.08        52.96        26.50        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18K 
       50.79        23.93        44.81         8.81         7.23        90.84 
TCGA-BH-A18L TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       26.66        66.05         7.36        51.39        51.16        69.93 
TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FC 
      113.82        42.28        12.00        31.53        89.16       114.15 
TCGA-BH-A1FD TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A28Q 
       33.17        63.35        45.63         6.90        38.60         6.44 
TCGA-BH-A42T TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
        0.99         8.94        11.77        12.66        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 
       12.66        12.66        12.66         3.12         1.78         0.62 
TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
        3.85        11.34         0.36         0.43         8.28         9.67 
TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A145 
        0.03        12.20         0.99        11.90        13.25        13.48 
TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1JT 
       17.49        18.71        18.15        18.90        18.97        13.32 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XL 
       25.74        23.90        27.58        18.15        15.22        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y0 
       17.69         7.96         6.35        12.99        16.54        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A107 
        3.81        14.14        10.09        13.08        12.26        34.42 
TCGA-E2-A109 TCGA-E2-A10F TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A152 TCGA-E2-A153 
       46.59        28.87        33.17        33.30        27.12        23.24 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1AZ 
       20.71        21.63        12.92        19.56        17.06        60.53 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IL TCGA-E2-A1L8 TCGA-E2-A1LA 
       16.47        17.10        38.30         3.88        39.62        24.59 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       28.90        18.87        43.04         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1QZ 
       13.48        36.56        12.59        35.77        20.05        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
       14.30         0.62         2.76        21.21        32.09        20.81 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A229 
       34.65         6.58        21.27        34.59        35.64        13.32 
TCGA-E9-A22A TCGA-E9-A249 TCGA-E9-A2JS TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5UO 
       39.09         0.95        17.75        15.72         0.23        13.81 
TCGA-E9-A5UP TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J5 TCGA-EW-A1J6 
       14.40        39.72        18.90        13.25        15.68        28.77 
TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P5 TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-GI-A2C9 
       29.85        41.13        23.11        22.09        21.27       109.87 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A3XN TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LD-A9QF 
       53.52        43.04        66.38        21.24         4.60         8.75 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-MS-A51U 
       15.32        14.70         4.50         5.59         6.21         2.79 
TCGA-OL-A5D6 TCGA-OL-A5RZ TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VQ TCGA-PL-A8LV 
       12.66        22.32        31.07         7.23        19.73         0.23 
TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA12 TCGA-S3-AA14 
       16.50         6.81         8.65         7.92         8.52         7.17 
TCGA-S3-AA17 TCGA-Z7-A8R5 
        3.91       100.01 

$`DEL PEAK 10(6Q15) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        14.37        48.10        47.24        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        28.01        19.20        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK 
       18.02        41.95        73.84        63.12        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 
       64.57       112.08        92.48        64.04        56.81        21.14 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP 
       34.55        33.76        28.77       101.72        89.36       107.61 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
       79.76        74.40        37.05        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX 
       24.72        24.16        99.19        54.64        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52        17.13         8.38        20.52        17.46 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH 
       32.55        25.28        18.21        15.42        21.90        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FZ 
       14.50        18.61        19.33        48.46        31.73        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25F 
       20.25        19.20        19.56        16.47        52.47        10.59 
TCGA-A2-A3KC TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY 
       20.88        83.01        29.98        32.75        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 
       31.99        38.37         7.30        24.39        23.21        26.96 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
       21.14        21.90        35.31        34.29        35.47        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       35.67        33.11        10.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IZ 
       24.26        23.74        23.80        21.73        22.32        10.59 
TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD 
       10.29        13.41        14.70        14.93        13.74        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       21.17        17.92        14.73        12.10        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T 
       10.29         9.37        10.42         8.75        13.02        53.06 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       29.03        31.00        17.03        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A084 
       14.01         9.99         8.98        24.99        28.04        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08L 
       36.95        13.02         0.99        38.01        28.96         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00         0.99        33.01        93.04        43.00        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B 
       33.01        30.97        17.95        41.98         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09N TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       50.04         1.02        15.02        14.01        12.00        19.04 
TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23H TCGA-AC-A2B8 
        0.99        17.03         0.95         2.37         2.66         1.48 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI 
       40.57        55.43        36.99        38.79        50.70         0.92 
TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 
        2.27         0.69        14.83        22.19         1.12        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV 
       23.24        24.79         1.55         0.07         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y 
        0.69         0.43         1.68         1.12         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM 
        0.33         0.62         1.71         8.02         7.36         0.16 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN 
        0.33         0.33         6.44         7.00         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        6.28         6.02         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV 
        0.30         0.33         0.33         0.33         0.33         5.33 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03U TCGA-AO-A03V 
       80.28        47.84        81.63        84.69        59.05        29.13 
TCGA-AO-A0J4 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
       52.18        53.03        21.53        50.70        50.86        72.00 
TCGA-AO-A0JF TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 
       21.37        71.80       102.58        99.25       106.78        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       90.58        77.56        64.04        57.30        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H 
       28.37        14.73        82.62        70.39         0.53        24.79 
TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
       26.93         5.65       111.32        74.79        86.66        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AH 
       98.93        64.83        55.86        65.36       101.95        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       61.84        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       43.56        39.98        17.23        37.81        76.21        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M 
       63.62        62.14        20.22       109.58        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X 
       78.51        84.20       101.52        53.36        50.96        83.77 
TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       79.00        78.48        72.76        93.83       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       62.86        42.87         7.36        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       40.54        20.38        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       77.62       143.38       149.59        12.13       220.90       129.57 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM 
       50.70        65.72       146.50       112.37        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH 
       84.59       110.14       110.93       140.88       211.56       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ 
      234.28        81.17        78.02       172.96       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX 
      100.70        89.46       157.41       188.68        17.98        21.47 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
      129.57       129.70       186.48        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0AW 
      101.52        73.51        54.28       103.63        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0B7 
       25.55        28.50        40.83        39.55        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BO 
       51.68        32.02        18.21        24.85        44.05        35.67 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 
       53.95        49.94        49.05        41.75        44.02        42.90 
TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DT TCGA-BH-A0DV 
       45.83        23.44        13.91        17.26        38.47        45.17 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 
       16.27         4.41        15.68         9.63        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 
       32.65        24.49        31.00        30.35        10.78        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       35.51        24.56        41.00        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 
       13.61        36.85        12.89         5.59        24.95        42.35 
TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
       23.05         2.01        20.12        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX 
       55.63        37.55        91.99        82.85        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FE 
       17.69        25.81        97.48        24.66       120.62        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU 
      122.89        36.92        55.00        72.07       144.59        72.07 
TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 
        0.72        83.31        57.83       130.16        10.65        20.12 
TCGA-BH-A42U TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A134 
      109.28        11.93        11.77        12.66         1.45         0.69 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK 
        3.75        12.33        10.92        11.34         0.16        12.03 
TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A274 
       10.42         2.30         3.25         0.30         0.23         0.03 
TCGA-C8-A278 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 
        0.03         0.03         0.23        20.88        20.58        13.97 
TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JC 
       14.17        21.14        19.20        14.17        16.50        15.78 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL 
       12.03        12.03        14.01        20.09        20.12        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 
       19.40        20.38        21.01        12.20        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ 
       17.79        16.73         2.66        17.16        14.73        21.83 
TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW 
       14.50        16.41        15.85        16.31        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       15.32        14.24        17.42        16.04        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       14.43         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 
       12.53        14.50        18.51         7.33        43.00        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14O 
       40.41        37.51        40.11        28.44        47.15        44.68 
TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       40.96        38.24        38.60        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A155 
       31.96        28.60        17.03        25.41        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       23.87        14.79        25.05        23.34        22.82        17.29 
TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       13.02        14.07        14.99        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II 
       32.35        28.50        37.41        32.78        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       28.44        22.65        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       27.42        19.66        40.47       106.75       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 
       16.93         5.52        15.72         7.20        30.61        34.92 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1NG 
       19.89        19.00        12.00        13.12        39.55        21.57 
TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1RC TCGA-E9-A1RD 
        9.86         2.10         6.12         1.38        40.24         0.66 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
       34.13         0.79        12.53        22.75        12.89        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       24.10        17.06         0.69         0.85        27.22         1.94 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
       24.56         0.72         0.76        26.07        18.41         0.62 
TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY 
       12.33        14.70         0.26        15.39        12.20         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J3 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ 
       18.21        16.57        25.94        22.82        29.95        40.41 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 
       39.78        52.96        29.82        18.48        30.08         7.86 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       18.90        19.99         6.15        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 
       34.55        19.96        55.00        52.73        25.91        17.49 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       10.16        10.59         7.40        59.57       194.27        53.13 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       42.71        42.28        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL 
       77.33        53.36       110.50        38.20        43.73        69.30 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U 
       72.03        13.55        18.12        11.84        11.57         6.67 
TCGA-LD-A7W5 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.08         9.53        11.44        10.95         7.59        17.06 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
       14.47        14.79        11.57         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 
        4.50         3.22         7.36        27.91         2.10        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       31.99        58.62        27.65        34.92        36.36        16.87 
TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       24.72        20.38        26.70        23.47        65.62        33.57 
TCGA-OL-A66N TCGA-OL-A66P TCGA-OL-A6VO TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
       26.04        14.07        28.21         0.16         0.26         3.95 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A 
       10.59         5.56         6.87         5.29         9.60         9.14 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                       0.03                        0.03 
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                     176.98                      234.28 
  DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE 
                     21.255                      23.470 
[1] "0.0 - 177.0 (21.3)" "0.0 - 234.3 (23.5)"
[1] "hr=" "1.1"
D39V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 10(6Q15) MUTATED        28       26        3        0       101
  DEL PEAK 10(6Q15) WILD-TYPE      55       54        6        5       241
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 10(6Q15) MUTATED          87         0         54         14
  DEL PEAK 10(6Q15) WILD-TYPE       147         2         88         15
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 10(6Q15) MUTATED           17        7         0       4
  DEL PEAK 10(6Q15) WILD-TYPE         46       11         1      12
D39V3, multiclass
            clus
vv           DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  STAGE I                           28                          55
  STAGE IA                          26                          54
  STAGE IB                           3                           6
  STAGE II                           0                           5
  STAGE IIA                        101                         241
  STAGE IIB                         87                         147
  STAGE III                          0                           2
  STAGE IIIA                        54                          88
  STAGE IIIB                        14                          15
  STAGE IIIC                        17                          46
  STAGE IV                           7                          11
  STAGE TIS                          0                           1
  STAGE X                            4                          12
[1] 13  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(6Q15) MUTATED    95 193  37  16
  DEL PEAK 10(6Q15) WILD-TYPE 170 401  87  23
D39V4, multiclass
    clus
vv   DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  T1                        95                         170
  T2                       193                         401
  T3                        37                          87
  T4                        16                          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                           N0  N1  N2  N3
  DEL PEAK 10(6Q15) MUTATED   144 122  47  22
  DEL PEAK 10(6Q15) WILD-TYPE 337 217  66  52
D39V5, multiclass
    clus
vv   DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  N0                       144                         337
  N1                       122                         217
  N2                        47                          66
  N3                        22                          52
[1] 4 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                          CM0 (I+)  M0  M1  MX
  DEL PEAK 10(6Q15) MUTATED          3 283   8  47
  DEL PEAK 10(6Q15) WILD-TYPE        2 571  11 100
D39V6, multiclass
          clus
vv         DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  CM0 (I+)                         3                           2
  M0                             283                         571
  M1                               8                          11
  MX                              47                         100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V7, binary
                             cls
clus                            0   1
  DEL PEAK 10(6Q15) MUTATED   338   3
  DEL PEAK 10(6Q15) WILD-TYPE 676   8
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 10(6Q15) MUTATED    338    3
  DEL PEAK 10(6Q15) WILD-TYPE  676    8
        clus
vv       DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  FEMALE                       338                         676
  MALE                           3                           8
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 10(6Q15) MUTATED                            0
  DEL PEAK 10(6Q15) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 10(6Q15) MUTATED                             260
  DEL PEAK 10(6Q15) WILD-TYPE                           494
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 10(6Q15) MUTATED                               47
  DEL PEAK 10(6Q15) WILD-TYPE                            128
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 10(6Q15) MUTATED                     2
  DEL PEAK 10(6Q15) WILD-TYPE                   4
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 10(6Q15) MUTATED                                 12
  DEL PEAK 10(6Q15) WILD-TYPE                               17
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 10(6Q15) MUTATED                    7             13
  DEL PEAK 10(6Q15) WILD-TYPE                  8             31
D39V8, multiclass
                                  clus
vv                                 DEL PEAK 10(6Q15) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          260
  INFILTRATING LOBULAR CARCINOMA                          47
  MEDULLARY CARCINOMA                                      2
  MIXED HISTOLOGY (PLEASE SPECIFY)                        12
  MUCINOUS CARCINOMA                                       7
  OTHER  SPECIFY                                          13
                                  clus
vv                                 DEL PEAK 10(6Q15) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            494
  INFILTRATING LOBULAR CARCINOMA                           128
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                          17
  MUCINOUS CARCINOMA                                         8
  OTHER  SPECIFY                                            31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V9, binary
                             cls
clus                            0   1
  DEL PEAK 10(6Q15) MUTATED   103 238
  DEL PEAK 10(6Q15) WILD-TYPE 179 505
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 10(6Q15) MUTATED    103  238
  DEL PEAK 10(6Q15) WILD-TYPE  179  505
     clus
vv    DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  NO                        103                         179
  YES                       238                         505
[1] 2 2
[1] FALSE
D39V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 10(6Q15) MUTATED                                  0    26
  DEL PEAK 10(6Q15) WILD-TYPE                                1    30
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(6Q15) MUTATED                          52   226
  DEL PEAK 10(6Q15) WILD-TYPE                       106   491
D39V11, multiclass
                                  clus
vv                                 DEL PEAK 10(6Q15) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   26
  BLACK OR AFRICAN AMERICAN                               52
  WHITE                                                  226
                                  clus
vv                                 DEL PEAK 10(6Q15) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     30
  BLACK OR AFRICAN AMERICAN                                106
  WHITE                                                    491
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V12, binary
                             cls
clus                            0   1
  DEL PEAK 10(6Q15) MUTATED    10 273
  DEL PEAK 10(6Q15) WILD-TYPE  26 553
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 10(6Q15) MUTATED     10  273
  DEL PEAK 10(6Q15) WILD-TYPE   26  553
                        clus
vv                       DEL PEAK 10(6Q15) MUTATED DEL PEAK 10(6Q15) WILD-TYPE
  HISPANIC OR LATINO                            10                          26
  NOT HISPANIC OR LATINO                       273                         553
[1] 2 2
[1] FALSE

Clustering(40) Variable = DEL PEAK 11(6Q27) MUTATION ANALYSIS
D40V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 11(6Q27) MUTATED   318  35
  DEL PEAK 11(6Q27) WILD-TYPE 568  84
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                        353                         652 
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                         35                          84 
$`DEL PEAK 11(6Q27) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04R 
        0.39        43.43        47.24        39.32        28.01        82.16 
TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CQ 
       73.84        22.06        64.04        55.43       136.73        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX 
      107.93        75.55        75.25         5.19        63.45        56.81 
TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0ET TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 
       25.22        80.28        35.05        27.12        17.52        18.71 
TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       20.52        20.75        18.61        23.77        17.36        36.79 
TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3KD 
      107.70        16.31        17.19        18.15        91.92        39.65 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S1 TCGA-A7-A0CD 
       32.75        49.48         7.30        21.30        26.96        38.30 
TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26J TCGA-A7-A3IY 
       30.61        35.67        31.73        12.72        20.61        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R 
       10.59        11.28        11.97         8.75        13.02        17.98 
TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       53.06        26.01         1.02        17.03        53.98         9.01 
TCGA-A8-A07J TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A08B TCGA-A8-A08G 
       12.00         8.98         7.99         9.99        38.01        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C 
       12.00        37.05         0.99        12.00         9.99         1.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A4 
       49.05        45.07        29.98         8.98        19.04        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23G TCGA-AC-A2BK TCGA-AC-A2BM 
       21.04         0.99        13.02        10.85        38.53        38.20 
TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A5XS TCGA-AC-A8OP TCGA-AC-A8OR 
        0.99        14.83        16.57         1.55         1.74         1.32 
TCGA-AN-A041 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF 
        0.23         1.78         1.71         0.16         0.33         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XW 
        7.96         0.33         0.33         0.33         0.33         5.59 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J3 
       80.28        66.77        68.75        47.87        32.78        21.40 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       37.48        20.32        22.36        26.24        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AQ-A54O 
       55.33       102.58        17.79       130.09         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TW TCGA-AR-A0TZ 
        9.99       111.32        49.32         5.26        98.93        76.14 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24P 
       83.87       114.02        76.21        20.22        50.89         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A252 
      101.52        87.22        76.01        85.35        78.48        73.18 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LO TCGA-AR-A5QQ TCGA-B6-A0IA TCGA-B6-A0IJ 
       58.92        93.83        39.39        10.59       220.90       176.98 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WS 
      211.56        68.45       162.05       100.70       131.21        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KN 
      188.68        79.63       113.79       186.48        43.59       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0B0 
      170.17        85.35        49.94        55.00        24.53        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BD TCGA-BH-A0BF 
       40.83        39.55        39.16        48.36        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       24.85        21.70        61.68        35.67        48.69        27.19 
TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0DE 
       45.57        11.67        49.05        41.75        48.13        31.17 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0H0 TCGA-BH-A0H7 
       38.01        22.13        48.23        15.65        15.16        23.08 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W3 
       52.96        26.50        51.32        27.25        50.79        23.93 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18R 
       23.05         8.81         7.23        90.84        26.66        37.55 
TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV 
       66.05        51.16        91.99       113.82        42.28        12.00 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM 
       31.53        89.16       114.15        33.17        74.73        45.63 
TCGA-BH-A201 TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P 
        6.90         8.94        11.93        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A134 TCGA-C8-A137 
        0.07        12.66        12.66        12.66         0.69         3.85 
TCGA-C8-A1HG TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-C8-A27B 
       11.34         0.43         8.28         9.67        12.20         0.99 
TCGA-D8-A140 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       13.25        13.48        19.20        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1XA TCGA-D8-A1XB 
       18.90        12.03        18.97        20.09        27.58        18.15 
TCGA-D8-A1XF TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XU 
       15.22        19.92         7.96        16.41         6.35        12.99 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27T 
       15.52         3.81        14.14        13.48        10.09        13.08 
TCGA-D8-A27W TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10F TCGA-E2-A14T TCGA-E2-A14V 
       12.26        34.42        46.59        28.87        33.30        34.26 
TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A158 TCGA-E2-A15E TCGA-E2-A15F 
       17.03        27.12        23.24        14.79        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 
       12.92        19.56        17.06        14.07        60.53        53.62 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IL TCGA-E2-A1L8 TCGA-E2-A1LA 
       16.47        17.10        38.30         3.88        39.62        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL 
       40.47        28.90        18.87       106.75       102.61        43.04 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.20        36.82        13.48        12.00        36.56        39.55 
TCGA-E9-A1NE TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA 
       35.77        11.90        14.30         6.12         2.76        32.09 
TCGA-E9-A1RB TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A229 TCGA-E9-A22A 
       20.81         6.58        34.59        35.64        13.32        39.09 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A2JS 
       12.89        23.51        17.06         1.94         0.95        17.75 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1IX TCGA-EW-A1J1 
       15.72         0.23        13.81        14.40        39.72        18.90 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1P0 TCGA-EW-A1P5 TCGA-EW-A3E8 TCGA-EW-A3U0 
       15.68        28.77        41.13        23.11        21.27        17.49 
TCGA-EW-A424 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3XL 
       10.59        53.13        53.52        43.04        42.71        69.30 
TCGA-GM-A3XN TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A5YM 
       66.38        11.84        21.24         4.60         8.75        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FR TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 
       14.70        14.47         3.88         4.50         5.59         6.21 
TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5DA TCGA-OL-A5S0 TCGA-OL-A66L TCGA-OL-A66O 
        2.79        12.66        58.62        20.38        31.07         7.23 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LZ TCGA-S3-A6ZF 
       14.07        28.21        19.73         0.23         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA12 TCGA-S3-AA14 
        6.81         8.65         7.92         8.52         7.17 

$`DEL PEAK 11(6Q27) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        14.37        48.10        14.27        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       31.79         7.96        19.20        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO 
       41.95        63.12        36.13        64.57        24.79       112.08 
TCGA-A2-A0CP TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       92.48        64.04        21.14        34.55        33.76        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
      101.72        89.36       107.61        79.76        74.40        37.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST 
       34.29        31.82        29.75        24.72        24.16        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 
       54.64        44.88        50.43        44.28        17.13         8.38 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF 
       17.46        18.90        32.55        25.28        18.21        15.42 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.90        21.67        14.50        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 
       23.47        22.45        20.25        19.20        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU 
       52.47        10.59        20.88        33.93        83.01        29.98 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S0 
       38.40        34.98        31.99        38.37        24.39        23.21 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
       21.14        21.90        35.31        34.29        35.47        37.45 
TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       33.11        10.72        23.61        29.56        31.36        24.26 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A3RF 
       23.74        23.80        21.73        22.32        10.29        13.41 
TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF 
       14.70        14.93        13.74        14.50        21.17        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW 
       14.73        12.10        10.72        11.05        10.29         9.37 
TCGA-A7-A6VX TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A07B 
       10.42        13.02         1.02        29.03        31.00        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O 
       19.99        18.97        18.97        14.01        17.03         9.99 
TCGA-A8-A07P TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
       10.98        24.99        28.04        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08L TCGA-A8-A08O 
       13.02         0.99        28.96        33.01         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 
       31.00        33.01        93.04        43.00        40.01        33.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D 
       30.97        17.95        41.98         9.99        12.00        50.04 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       33.07         1.02        25.02        15.02         0.99        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       12.00        19.04        17.03        38.04         0.95         2.37 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        2.66         1.48        40.57        55.43        36.99        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3HN 
       26.04        50.70         1.02         0.92         2.27         0.69 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62V 
       22.19         1.12        19.79        23.24        24.79         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO 
        1.12         1.81         1.18         0.69         0.43         1.68 
TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        1.12         0.33         0.33         0.33         0.62         2.96 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        8.02         7.36         6.51         0.33         0.33         6.44 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW 
        7.00         7.59         7.17         6.28         6.02         0.36 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P 
        0.33         0.33         5.33        47.84        81.63        84.69 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J9 TCGA-AO-A0JA 
       59.05        29.13        52.18        24.16        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JM 
       50.70        50.86        72.00        76.77        21.37        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J 
       82.62        61.87        70.39         0.53        24.79        26.93 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
        5.65        15.62        32.52        74.79        86.66        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH 
       64.83        55.86        65.36       101.95        85.97        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       61.84        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV 
       43.56        39.98        43.07        17.23        37.81        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       63.62        62.14       109.58        73.02        96.89        78.51 
TCGA-AR-A24O TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       84.20        53.36        50.96        83.77        79.00        56.15 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL 
       72.76       128.65        20.25        62.86        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        38.17        40.54        20.38        54.74        16.04 
TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB 
       20.45        77.62       143.38       149.59        12.13       129.57 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM 
       50.70        65.72       146.50       112.37        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI 
       84.59       110.14       110.93       140.88       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       81.17        78.02       172.96       102.77       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
      157.41        17.98        21.47       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A402 TCGA-B6-A40B 
       68.94        58.88       101.52        73.51        54.28       103.63 
TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B6 TCGA-BH-A0B7 
       38.79        20.45        25.55        28.50        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BS 
       51.68        37.22        32.02        44.05        53.69        53.95 
TCGA-BH-A0BV TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DK 
       49.94        44.02        42.90        45.83        23.44        13.91 
TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       16.27         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       46.19        32.65        24.49        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HI 
       10.78        37.78        35.51        24.56        41.00        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0RX 
        5.85         2.50        13.61        36.85        12.89         5.59 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18M 
       24.95        42.35        44.81         2.01        20.12        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN 
       37.74        30.28        55.63         7.36        51.39        69.93 
TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F6 
       82.85        55.69        49.58        17.69        25.81        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       24.66       120.62       122.89        36.92        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 
       72.07       144.59        72.07         0.72        38.60        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       57.83       130.16        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 
      109.28        11.77        12.66         3.12         1.78         1.45 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.75        12.33        10.92        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.03        10.42         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.36         0.03         0.03         0.03         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 
       11.90        20.88        20.58        13.97        14.17        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JJ 
       14.17        17.49        16.50        12.03        14.01        20.09 
TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.12        19.40        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       14.70        18.58        17.79        16.73        25.74        23.90 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM 
        2.66        17.16        14.73        21.83        14.50        17.69 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ 
       15.85        16.31        15.16        12.66        16.54        15.32 
TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.24        17.42        16.04        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27V TCGA-D8-A3Z5 
        9.44        16.41         4.80         0.76        12.53        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
       18.51         7.33        43.00        27.52        40.41        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q 
       40.11        28.44        47.15        44.68        40.96        38.24 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       38.60        33.17        43.33        32.02        31.96        28.60 
TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15A 
       25.41        19.43        21.04        23.87        25.05        23.34 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       22.82        17.29        18.21        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 
       20.58         7.73        13.02        14.99        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II 
       32.35        28.50        37.41        32.78        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 
       28.44        22.65        22.19        20.98        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
       27.42        19.66         8.75        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        7.20        30.61        34.92        19.89        19.00         9.21 
TCGA-E9-A1N9 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R2 
       13.12        12.59        20.05        21.57         9.86         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        2.10         1.38        21.21        40.24         0.66        34.65 
TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A22H 
       21.27        34.13         0.79        12.53        22.75        24.10 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT 
        0.69         0.85        27.22        24.56         0.72         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL 
       26.07        18.41         0.62        12.33        14.70         0.26 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 
       15.39        12.20         8.48        18.21        13.25        16.57 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P1 
       25.94        22.82        29.95        29.85        40.41        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA 
       52.96        29.82        18.48        30.08         7.86        18.90 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       19.99         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A423 
       19.96        55.00        52.73        25.91        22.09        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DH TCGA-GM-A2DI 
        7.40       109.87        59.57       194.27        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       62.33        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       38.20        43.73        72.03        13.55        18.12        11.57 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.08         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z 
       17.06        14.79        11.57         2.63         4.14         4.50 
TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 
        3.22         7.36        27.91         2.10        46.55        31.99 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        34.92        36.36        16.87        24.72        22.32 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N TCGA-PL-A8LX 
       26.70        23.47        65.62        33.57        26.04         0.16 
TCGA-PL-A8LY TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G 
        0.26        10.59         5.56         6.87         3.91         5.29 
TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.60         9.14       100.01       105.04 

  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                     220.90                      234.28 
  DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE 
                     21.300                      23.225 
[1] "0.1 - 220.9 (21.3)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.4"
D40V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 11(6Q27) MUTATED        30       26        3        0       121
  DEL PEAK 11(6Q27) WILD-TYPE      53       54        6        5       221
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 11(6Q27) MUTATED          90         0         51         12
  DEL PEAK 11(6Q27) WILD-TYPE       144         2         91         17
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 11(6Q27) MUTATED           13        6         0       6
  DEL PEAK 11(6Q27) WILD-TYPE         50       12         1      10
D40V3, multiclass
            clus
vv           DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  STAGE I                           30                          53
  STAGE IA                          26                          54
  STAGE IB                           3                           6
  STAGE II                           0                           5
  STAGE IIA                        121                         221
  STAGE IIB                         90                         144
  STAGE III                          0                           2
  STAGE IIIA                        51                          91
  STAGE IIIB                        12                          17
  STAGE IIIC                        13                          50
  STAGE IV                           6                          12
  STAGE TIS                          0                           1
  STAGE X                            6                          10
[1] 13  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(6Q27) MUTATED    95 211  37  14
  DEL PEAK 11(6Q27) WILD-TYPE 170 383  87  25
D40V4, multiclass
    clus
vv   DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  T1                        95                         170
  T2                       211                         383
  T3                        37                          87
  T4                        14                          25
[1] 4 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  N3
  DEL PEAK 11(6Q27) MUTATED   163 131  43  16
  DEL PEAK 11(6Q27) WILD-TYPE 318 208  70  58
D40V5, multiclass
    clus
vv   DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  N0                       163                         318
  N1                       131                         208
  N2                        43                          70
  N3                        16                          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                          CM0 (I+)  M0  M1  MX
  DEL PEAK 11(6Q27) MUTATED          2 306   7  43
  DEL PEAK 11(6Q27) WILD-TYPE        3 548  12 104
D40V6, multiclass
          clus
vv         DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  CM0 (I+)                         2                           3
  M0                             306                         548
  M1                               7                          12
  MX                              43                         104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V7, binary
                             cls
clus                            0   1
  DEL PEAK 11(6Q27) MUTATED   356   2
  DEL PEAK 11(6Q27) WILD-TYPE 658   9
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q27) MUTATED    356    2
  DEL PEAK 11(6Q27) WILD-TYPE  658    9
        clus
vv       DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  FEMALE                       356                         658
  MALE                           2                           9
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 11(6Q27) MUTATED                            0
  DEL PEAK 11(6Q27) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 11(6Q27) MUTATED                             277
  DEL PEAK 11(6Q27) WILD-TYPE                           477
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 11(6Q27) MUTATED                               48
  DEL PEAK 11(6Q27) WILD-TYPE                            127
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 11(6Q27) MUTATED                     2
  DEL PEAK 11(6Q27) WILD-TYPE                   4
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 11(6Q27) MUTATED                                 10
  DEL PEAK 11(6Q27) WILD-TYPE                               19
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 11(6Q27) MUTATED                    7             13
  DEL PEAK 11(6Q27) WILD-TYPE                  8             31
D40V8, multiclass
                                  clus
vv                                 DEL PEAK 11(6Q27) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          277
  INFILTRATING LOBULAR CARCINOMA                          48
  MEDULLARY CARCINOMA                                      2
  MIXED HISTOLOGY (PLEASE SPECIFY)                        10
  MUCINOUS CARCINOMA                                       7
  OTHER  SPECIFY                                          13
                                  clus
vv                                 DEL PEAK 11(6Q27) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            477
  INFILTRATING LOBULAR CARCINOMA                           127
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                          19
  MUCINOUS CARCINOMA                                         8
  OTHER  SPECIFY                                            31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V9, binary
                             cls
clus                            0   1
  DEL PEAK 11(6Q27) MUTATED   112 246
  DEL PEAK 11(6Q27) WILD-TYPE 170 497
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q27) MUTATED    112  246
  DEL PEAK 11(6Q27) WILD-TYPE  170  497
     clus
vv    DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  NO                        112                         170
  YES                       246                         497
[1] 2 2
[1] FALSE
D40V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 11(6Q27) MUTATED                                  0    23
  DEL PEAK 11(6Q27) WILD-TYPE                                1    33
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(6Q27) MUTATED                          55   245
  DEL PEAK 11(6Q27) WILD-TYPE                       103   472
D40V11, multiclass
                                  clus
vv                                 DEL PEAK 11(6Q27) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   23
  BLACK OR AFRICAN AMERICAN                               55
  WHITE                                                  245
                                  clus
vv                                 DEL PEAK 11(6Q27) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     33
  BLACK OR AFRICAN AMERICAN                                103
  WHITE                                                    472
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V12, binary
                             cls
clus                            0   1
  DEL PEAK 11(6Q27) MUTATED     9 291
  DEL PEAK 11(6Q27) WILD-TYPE  27 535
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q27) MUTATED      9  291
  DEL PEAK 11(6Q27) WILD-TYPE   27  535
                        clus
vv                       DEL PEAK 11(6Q27) MUTATED DEL PEAK 11(6Q27) WILD-TYPE
  HISPANIC OR LATINO                             9                          27
  NOT HISPANIC OR LATINO                       291                         535
[1] 2 2
[1] FALSE

Clustering(41) Variable = DEL PEAK 12(7P22.3) MUTATION ANALYSIS
D41V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 12(7P22.3) MUTATED   116  16
  DEL PEAK 12(7P22.3) WILD-TYPE 770 103
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                          132                           873 
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                           16                           103 
$`DEL PEAK 12(7P22.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CM 
        0.39        31.79        28.01        73.84        22.06        24.79 
TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EQ 
       75.25        64.04        21.14        34.55        25.22        79.76 
TCGA-A2-A0ET TCGA-A2-A0SX TCGA-A2-A0T3 TCGA-A2-A0YT TCGA-A2-A1G1 TCGA-A2-A3Y0 
       35.05        50.43        18.71        23.77        19.20        38.37 
TCGA-A2-A4RX TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13G TCGA-A7-A26I 
       24.39        38.30        30.61        35.67        23.61        21.73 
TCGA-A7-A2KD TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A079 
       22.32        10.42        13.02         1.02        29.03         9.01 
TCGA-A8-A07B TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07R TCGA-A8-A08B TCGA-A8-A08F 
       43.00        18.97        14.01         8.98        38.01        33.01 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08S TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A09K 
       12.00         9.99        33.01        33.01        30.97        29.98 
TCGA-A8-A09M TCGA-AC-A23E TCGA-AC-A62X TCGA-AN-A04C TCGA-AN-A0FY TCGA-AN-A0FZ 
       33.07         2.37         1.12         1.78         0.33         0.33 
TCGA-AN-A0XS TCGA-AO-A03L TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A12F TCGA-AO-A12G 
        0.33        80.28        52.18        20.32        48.36        41.62 
TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TV TCGA-AR-A0TW 
        0.53        26.93       130.09         2.56        29.75        98.93 
TCGA-AR-A0U4 TCGA-AR-A1AQ TCGA-AR-A24Q TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK 
       85.97        43.07       101.52        58.92        93.83        42.87 
TCGA-B6-A0I9 TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RS TCGA-B6-A0WY 
       12.13       176.98       140.88        68.45       100.70       113.79 
TCGA-B6-A0X1 TCGA-B6-A0X7 TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0B2 
      186.48        58.88       139.17        54.28        49.94        40.83 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BW TCGA-BH-A0C7 TCGA-BH-A0DZ TCGA-BH-A0E6 
       24.85        44.05        11.67        42.90        16.27         9.63 
TCGA-BH-A18F TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EW TCGA-BH-A1F8 TCGA-BH-A208 
        8.81        51.39        51.16        55.69        24.66        57.83 
TCGA-C8-A137 TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27B TCGA-D8-A147 
        3.85         0.43         8.28         0.03         0.99        19.20 
TCGA-D8-A1J9 TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1XA 
       17.49        18.15        18.90        20.09        19.40        27.58 
TCGA-D8-A1XB TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XW TCGA-D8-A1Y3 TCGA-D8-A27M 
       18.15        14.50        16.41        12.66        14.14        13.48 
TCGA-E2-A105 TCGA-E2-A158 TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1L7 
       43.00        14.79        12.92        14.07        60.53        27.42 
TCGA-E9-A1NF TCGA-E9-A1RE TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 
       20.05        34.65        23.51         0.69        27.22         1.94 
TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-GI-A2C9 
        0.23         0.26        14.40        28.77        22.82       109.87 
TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-PL-A8LV TCGA-S3-A6ZG 
       42.28        69.30        14.79         3.22         0.23         6.81 

$`DEL PEAK 12(7P22.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        13.68         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W 
      104.81        18.02        41.95        82.16        63.12        64.04 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP 
       55.43        36.13       136.73        64.57       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX 
       88.60       107.93        75.55         5.19        63.45        56.81 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       33.76        28.77       101.72        89.36        80.28       107.61 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       74.40        37.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY 
       24.16        99.19        54.64        27.12        44.88        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       17.52        17.13         8.38        20.52        17.46        18.90 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG 
       20.75        32.55        25.28        18.21        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.67        14.50        18.61        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       23.47        17.36        36.79        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT 
       91.92        10.59        20.88        39.65        33.93        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       29.98        32.75        49.48        38.40        34.98        31.99 
TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
        7.30        21.30        23.21        26.96        21.14        21.90 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D 
       35.31        34.29        35.47        37.45        33.11        31.73 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G 
       10.72        12.72        29.56        31.36        24.26        23.74 
TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       23.80        20.61        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD 
       13.41        14.70        11.97        14.93        13.74        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       21.17        17.92        14.73        12.10        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T 
       10.29         9.37         8.75        13.02        17.98        53.06 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07E 
       31.00        26.01         1.02        17.03        53.98        19.99 
TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       18.97        12.00        17.03         9.99        10.98         7.99 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
       24.99         9.99        28.04        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O 
       13.02         0.99        28.96        19.96        37.05        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A093 
       31.00         0.99        93.04        43.00        40.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       41.98        12.00         9.99         9.99        12.00         1.02 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
       50.04        49.05        45.07         1.02        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD 
       13.02        21.04         0.99        13.02        17.03        38.04 
TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        0.95        10.85         2.66         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
        1.02         0.92         2.27         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        1.55         0.07         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        1.68         1.74         1.12         1.32         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ 
        0.23         0.33         0.62         2.96         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        7.36         6.51         0.16         0.33         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN 
        6.44         4.64         7.96         7.00         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0XL 
        6.28         6.02         0.33         0.36         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33        12.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        5.33         5.59        47.84        66.77        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 
       68.75        47.87        59.05        29.13        32.78        21.40 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       24.16        37.48        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        50.24 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       62.04        55.33        71.80       102.58        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
      106.78        96.10        90.58        77.56        64.04        57.30 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT 
       28.37        14.73        82.62        61.87        70.39        17.79 
TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 
       24.79         5.65        15.62        32.52        32.91         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TX 
      111.32        49.32         5.26        74.79        86.66        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       55.86        76.14        65.36       101.95        83.87       114.02 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       75.55        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       43.73        43.56        39.98        17.23        37.81        76.21 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       61.28        63.62        62.14        20.22       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       73.02        96.89        78.51        84.20         0.85        87.22 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       76.01        53.36        85.35        50.96        83.77        79.00 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH 
       56.15        78.48        73.18        72.76       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      146.50       112.37        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      110.93       211.56       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
      172.96       162.05       102.77       140.48        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX 
      157.41        97.48       188.68        79.63        17.98        21.47 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF 
      129.57       129.70        28.27        68.94        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
       73.51       170.17        85.35       103.63        55.00        24.53 
TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 
       38.79        20.45        25.55        28.50        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       39.16        48.36        56.94        56.98        51.68        37.22 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       32.02        18.21        25.71        21.70        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       48.69        27.19        53.69        53.95        45.57        49.94 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.05        41.75        44.02        48.13        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       23.44        38.01        22.13        13.91        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       15.65         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
        4.41        15.68        14.30        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       24.49        31.00        24.43        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       37.78        35.51        24.56        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I 
       24.95        42.35        44.81        23.05         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
       20.12        90.84        26.66        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1EN TCGA-BH-A1EO 
       55.63        37.55        66.05         7.36        69.93        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1EY 
      113.82        82.85        42.28        12.00        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        31.53        89.16        97.48       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       45.63        72.07       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       38.60        83.31       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W 
       12.66        11.77         0.07        12.66        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 
       12.66         3.12         1.78         1.45         0.69         0.62 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        3.75        12.33        10.92        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.03        10.42         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 
        0.36         9.67         0.03         0.03        12.20         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
        0.23        11.90        20.88        13.25        20.58        13.97 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB 
       14.17        13.48        21.14        14.17        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK 
       15.78        12.03        12.03        14.01        18.97        20.12 
TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.09        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC 
       18.58        17.79        16.73        25.74        23.90         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM 
       17.16        15.22        14.73        21.83        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
        7.96        15.85        16.31         6.35        12.99        15.16 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E 
       16.54        15.32        15.52         3.81        14.24        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       16.04        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
        4.80         0.76        10.09        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 
       14.50        18.51         7.33        34.42        27.52        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
       40.41        37.51        40.11        28.44        28.87        47.15 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
       44.68        40.96        38.24        38.60        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       43.33        34.26        32.02        31.96        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
       25.41        27.12        23.24        19.43        21.04        23.87 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       25.05        23.34        22.82        17.29        20.71        21.63 
TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 
       13.02        19.56        17.06        14.99        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       37.41        32.78        33.73        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 
        3.88        22.19        20.98        11.08        54.18        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
       19.66        24.59        40.47        28.90        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      102.61         8.75        43.04        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        7.20        30.61        34.92        19.89        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
       19.20        36.82        13.48        12.00        13.12        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       39.55        12.59        35.77        21.57         9.86        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 
       14.30         0.62         2.10         6.12         1.38         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF 
       21.21        32.09        20.81        40.24         0.66         6.58 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
       21.27        34.59        35.64        34.13         0.79        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 
       13.32        39.09        22.75        12.89        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT 
        0.85         0.95        24.56         0.72        17.75         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK 
       26.07        18.41         0.62        15.72        12.33        14.70 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       13.81        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX 
       18.90        13.25        16.57        15.68        25.94        29.95 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       29.85        40.41        41.13        39.78        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
       23.11        18.48        30.08         7.86        18.90        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
        6.15        13.94        10.52        14.43        34.55        19.96 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
       55.00        52.73        25.91        22.09        21.27        17.49 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       10.16        10.59         7.40        59.57       194.27        53.13 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
       53.52        43.04        42.71        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
       11.44        10.95         7.59        17.06        15.32        14.70 
TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.47        11.57         2.63         3.88         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       34.92        36.36        16.87        24.72        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       26.70        23.47        65.62        33.57        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY 
        7.23        14.07        28.21        19.73         0.16         0.26 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 
        3.95        16.50         8.65        10.59         7.92         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        8.52         7.17         6.87         3.91         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                       186.48                        234.28 
  DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE 
                       24.725                        21.900 
[1] "0.0 - 186.5 (24.7)" "0.0 - 234.3 (21.9)"
[1] "hr=" "1"  
D41V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 12(7P22.3) MUTATED        10        7        3        0        53
  DEL PEAK 12(7P22.3) WILD-TYPE      73       73        6        5       289
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 12(7P22.3) MUTATED          29         1         17          5
  DEL PEAK 12(7P22.3) WILD-TYPE       205         1        125         24
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 12(7P22.3) MUTATED            4        2         0       2
  DEL PEAK 12(7P22.3) WILD-TYPE         59       16         1      14
D41V3, multiclass
            clus
vv           DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  STAGE I                             10                            73
  STAGE IA                             7                            73
  STAGE IB                             3                             6
  STAGE II                             0                             5
  STAGE IIA                           53                           289
  STAGE IIB                           29                           205
  STAGE III                            1                             1
  STAGE IIIA                          17                           125
  STAGE IIIB                           5                            24
  STAGE IIIC                           4                            59
  STAGE IV                             2                            16
  STAGE TIS                            0                             1
  STAGE X                              2                            14
[1] 13  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(7P22.3) MUTATED    26  88  14   5
  DEL PEAK 12(7P22.3) WILD-TYPE 239 506 110  34
D41V4, multiclass
    clus
vv   DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  T1                          26                           239
  T2                          88                           506
  T3                          14                           110
  T4                           5                            34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                               vv
clus                             N0  N1  N2  N3
  DEL PEAK 12(7P22.3) MUTATED    72  35  18   5
  DEL PEAK 12(7P22.3) WILD-TYPE 409 304  95  69
D41V5, multiclass
    clus
vv   DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  N0                          72                           409
  N1                          35                           304
  N2                          18                            95
  N3                           5                            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                            CM0 (I+)  M0  M1  MX
  DEL PEAK 12(7P22.3) MUTATED          0 120   2  11
  DEL PEAK 12(7P22.3) WILD-TYPE        5 734  17 136
D41V6, multiclass
          clus
vv         DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               120                           734
  M1                                 2                            17
  MX                                11                           136
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V7, binary
                               cls
clus                              0   1
  DEL PEAK 12(7P22.3) MUTATED   133   0
  DEL PEAK 12(7P22.3) WILD-TYPE 881  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7P22.3) MUTATED    133    0
  DEL PEAK 12(7P22.3) WILD-TYPE  881   11
        clus
vv       DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  FEMALE                         133                           881
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 12(7P22.3) MUTATED                            0
  DEL PEAK 12(7P22.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 12(7P22.3) MUTATED                             120
  DEL PEAK 12(7P22.3) WILD-TYPE                           634
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 12(7P22.3) MUTATED                                3
  DEL PEAK 12(7P22.3) WILD-TYPE                            172
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 12(7P22.3) MUTATED                     1
  DEL PEAK 12(7P22.3) WILD-TYPE                   5
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 12(7P22.3) MUTATED                                  3
  DEL PEAK 12(7P22.3) WILD-TYPE                               26
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 12(7P22.3) MUTATED                    0              6
  DEL PEAK 12(7P22.3) WILD-TYPE                 15             38
D41V8, multiclass
                                  clus
vv                                 DEL PEAK 12(7P22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            120
  INFILTRATING LOBULAR CARCINOMA                             3
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           3
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             6
                                  clus
vv                                 DEL PEAK 12(7P22.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              634
  INFILTRATING LOBULAR CARCINOMA                             172
  MEDULLARY CARCINOMA                                          5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            26
  MUCINOUS CARCINOMA                                          15
  OTHER  SPECIFY                                              38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V9, binary
                               cls
clus                              0   1
  DEL PEAK 12(7P22.3) MUTATED    39  94
  DEL PEAK 12(7P22.3) WILD-TYPE 243 649
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7P22.3) MUTATED     39   94
  DEL PEAK 12(7P22.3) WILD-TYPE  243  649
     clus
vv    DEL PEAK 12(7P22.3) MUTATED DEL PEAK 12(7P22.3) WILD-TYPE
  NO                           39                           243
  YES                          94                           649
[1] 2 2
[1] FALSE
D41V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 12(7P22.3) MUTATED                                  0     8
  DEL PEAK 12(7P22.3) WILD-TYPE                                1    48
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(7P22.3) MUTATED                          23    84
  DEL PEAK 12(7P22.3) WILD-TYPE                       135   633
D41V11, multiclass
                                  clus
vv                                 DEL PEAK 12(7P22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 23
  WHITE                                                     84
                                  clus
vv                                 DEL PEAK 12(7P22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                  135
  WHITE                                                      633
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V12, binary
                               cls
clus                              0   1
  DEL PEAK 12(7P22.3) MUTATED     3 106
  DEL PEAK 12(7P22.3) WILD-TYPE  33 720
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(7P22.3) MUTATED      3  106
  DEL PEAK 12(7P22.3) WILD-TYPE   33  720
                        clus
vv                       DEL PEAK 12(7P22.3) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                         106
                        clus
vv                       DEL PEAK 12(7P22.3) WILD-TYPE
  HISPANIC OR LATINO                                33
  NOT HISPANIC OR LATINO                           720
[1] 2 2
[1] FALSE

Clustering(42) Variable = DEL PEAK 13(7Q36.1) MUTATION ANALYSIS
D42V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 13(7Q36.1) MUTATED   168  22
  DEL PEAK 13(7Q36.1) WILD-TYPE 718  97
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                          190                           815 
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                           22                            97 
$`DEL PEAK 13(7Q36.1) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CM 
        0.39        39.32        28.01        22.06        55.43        24.79 
TCGA-A2-A0CT TCGA-A2-A0D4 TCGA-A2-A0ET TCGA-A2-A0T7 TCGA-A2-A0YM TCGA-A2-A0YT 
       75.25        25.22        35.05        20.75        31.73        23.77 
TCGA-A2-A1FW TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25C TCGA-A2-A4RW TCGA-A2-A4RX 
       17.36        20.25        19.20        17.19         7.30        24.39 
TCGA-A7-A0CD TCGA-A7-A13G TCGA-A7-A26G TCGA-A7-A3IZ TCGA-A7-A4SD TCGA-A7-A6VV 
       38.30        23.61        23.74        10.59        14.50        10.29 
TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06U TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       10.42        13.02        29.03        17.03        53.98         9.01 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A08B TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X 
       18.97        14.01        38.01        31.00        33.01        43.00 
TCGA-A8-A092 TCGA-A8-A099 TCGA-A8-A09I TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 
       30.97         9.99        45.07        25.02         0.99        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2FM 
       19.04        13.02        13.02         2.37        38.53        26.04 
TCGA-AC-A2QH TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS 
        1.02         0.62         1.78         8.02         0.16         0.33 
TCGA-AN-A0AT TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ 
        0.33         6.02         0.33         0.36         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XS TCGA-AO-A03L TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0JD 
        0.33         0.33        80.28        32.78        20.32        72.00 
TCGA-AO-A0JE TCGA-AO-A0JM TCGA-AO-A12D TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A04L 
       76.77        71.80        64.04         0.53        26.93       130.09 
TCGA-AQ-A1H2 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AR TCGA-AR-A24H 
       15.62        83.87        85.97        75.55        17.23       109.58 
TCGA-AR-A24W TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-B6-A0I9 TCGA-B6-A0IC 
       50.96        58.92        93.83        42.87        12.13        50.70 
TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0RS TCGA-B6-A0WY TCGA-B6-A408 TCGA-BH-A0AV 
      176.98       110.14       100.70       113.79        49.94        38.79 
TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BW TCGA-BH-A0DI 
       28.50        40.83        24.85        21.70        11.67        22.13 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E2 TCGA-BH-A0EB TCGA-BH-A0W7 TCGA-BH-A18F 
       47.41        16.27        14.30        24.49        44.81         8.81 
TCGA-BH-A18L TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EU 
       26.66        55.63         7.36        51.39        51.16        42.28 
TCGA-BH-A1EV TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12W 
       12.00        72.07        38.60         0.99        11.93        12.66 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HM TCGA-C8-A26X 
        0.62         3.75        10.92         0.16         2.30         0.36 
TCGA-C8-A27B TCGA-D8-A143 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
        0.99        14.17        16.50        18.15        18.90        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ 
       20.09        14.70        18.58        27.58        18.15        21.83 
TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-E2-A109 TCGA-E2-A14N 
       14.50        17.69        16.41        12.99        46.59        47.15 
TCGA-E2-A14R TCGA-E2-A14W TCGA-E2-A15A TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A1B0 
       38.60        32.02        23.34        12.92         7.73        53.62 
TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LB 
       16.47        38.30        33.70        27.42        39.62        40.47 
TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1R3 TCGA-E9-A1R4 
       13.48        36.56        39.55        35.77         2.10         6.12 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A22B 
        2.76        21.21        40.24         6.58        21.27        22.75 
TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A24A TCGA-E9-A3HO TCGA-E9-A54Y TCGA-E9-A5UP 
       12.89         0.69        24.56        26.07         0.23        14.40 
TCGA-EW-A1IY TCGA-EW-A1P0 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FV TCGA-EW-A2FW 
        8.48        41.13         6.15        13.94        25.91        22.09 
TCGA-EW-A3U0 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI 
       17.49       109.87        59.57        43.04        42.28        61.91 
TCGA-LL-A5YP TCGA-LL-A7SZ TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A66I TCGA-OL-A66P 
       14.79         5.59        36.36        24.72        23.47        14.07 
TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA14 
        6.81        10.59         7.92         7.17 

$`DEL PEAK 13(7Q36.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        13.68        31.79         7.96        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V 
      104.81        18.02        41.95        82.16        73.84        63.12 
TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP 
       64.04        36.13       136.73        64.57       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
       88.60       107.93        75.55         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM 
       56.81        21.14        34.55        33.76        28.77       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
       89.36        80.28       107.61        79.76        74.40        37.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST 
       34.29        31.82        29.75        24.72        24.16        99.19 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       54.64        27.12        44.88        50.43        44.28        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       17.13         8.38        18.71        20.52        17.46        18.90 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH 
       32.55        25.28        18.21        15.42        21.90        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FX 
       14.50        18.61        19.33        48.46        23.47        36.79 
TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B 
       22.45        19.56        16.47        52.47       107.70        16.31 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
       18.15        91.92        10.59        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       83.01        29.98        32.75        49.48        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       31.99        38.37        21.30        23.21        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.90        35.31        34.29        35.47        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13H 
       35.67        33.11        31.73        10.72        12.72        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD 
       31.36        24.26        23.80        21.73        20.61        22.32 
TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       11.34        10.29        11.28        13.41        14.70        11.97 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       14.93        13.74        21.17        17.92        14.73        12.10 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q 
       10.72        11.05         9.37         8.75        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A07B 
       17.98        53.06        31.00        26.01         1.02        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       19.99        18.97        12.00        17.03         9.99        10.98 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
        8.98         7.99        24.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08F 
       15.06        36.95        13.02         0.99        28.96        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08R 
       19.96        12.00        37.05         9.99        31.00         0.99 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       93.04        40.01        33.01        17.95        41.98        12.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K 
        9.99        12.00         1.02        50.04        49.05        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09X 
       33.07         1.02         8.98        19.04        15.02        14.01 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       21.04         0.99        17.03        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        2.66         1.48        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        50.70         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       24.79         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR 
        0.69         0.43         1.68         1.74         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D 
        0.33         0.33         0.23         0.33         2.96         1.71 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        7.36         6.51         0.33         6.44         4.64         7.96 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0XL 
        7.00         7.59         7.17         6.28         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV 
       12.33         0.30         0.33         0.33         0.33         5.33 
TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        5.59        47.84        66.77        81.63        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       47.87        59.05        29.13        21.40        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC 
       37.48        22.36        53.03        21.53        50.70        50.86 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 
       21.37        26.24        50.24        62.04        55.33       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       57.30        48.36        41.62        28.37        14.73        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       61.87        70.39        17.79        24.79         5.65        32.52 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        2.56        32.91         9.99       111.32        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
       74.79        86.66        29.75        98.93        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A1AI TCGA-AR-A1AJ 
       76.14        65.36       101.95       114.02        61.84        52.77 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       51.25        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.07        37.81        76.21        61.28        63.62        62.14 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85       101.52        87.22        76.01        53.36        85.35 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       83.77        79.00        56.15        78.48        73.18        72.76 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
      128.65        20.25        62.86         7.36        40.04        38.17 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       39.39        40.54        20.38        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB 
       10.59        77.62       143.38       149.59       220.90       129.57 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
       65.72       146.50       112.37        18.77       126.12        84.59 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      110.93       140.88       211.56        68.45       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
       89.46       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       17.98        21.47       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN 
       68.94        58.88        43.59       101.52        73.51       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
      170.17        85.35        54.28       103.63        55.00        24.53 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       20.45        25.55        46.95        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       56.94        56.98        51.68        37.22        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       25.71        44.05        61.68        35.67        48.69        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 
       53.69        53.95        45.57        49.94        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       44.02        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       38.01        13.91        48.23        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 
        2.56        38.47        45.17         4.41        15.68         9.63 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        46.19        32.65        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       10.78        15.16        37.78        35.51        24.56        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       41.00        52.96        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY 
       13.61        36.85        12.89        51.32        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0WA TCGA-BH-A18G 
        5.59        23.93        24.95        42.35        23.05         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        7.23        20.12        90.84        72.56        37.74        30.28 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       37.55        66.05        69.93        91.99       113.82        82.85 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       55.69        49.58        17.69        25.81        31.53        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
       97.48        24.66       120.62       114.15        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        45.63       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
       72.07         6.90         0.72        83.31        57.83       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M 
       10.65         6.44        20.12       109.28         8.94        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V 
       11.77        12.66        11.77         0.07        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 
       12.66         3.12         1.78         1.45         0.69         3.85 
TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN 
       12.33        11.34        11.34        12.03        10.42         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.30         0.23         0.43         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.03         0.03        12.20         0.03         0.23        11.90 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 
       20.88        13.25        20.58        13.97        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF 
       19.20        14.17        17.49        18.71        15.78        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       14.01        18.97        20.12        20.09        19.40        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       21.01        12.20        13.32        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL 
       23.90         2.66        17.16        15.22        14.73        19.92 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW 
        7.96        15.85        16.31         6.35        15.16        12.66 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 
       16.54        15.32        15.52         3.81        14.24        14.14 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
       17.42        16.04        13.45        13.05        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T 
       16.41        13.48         4.80         0.76        10.09        13.08 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       12.53        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       34.42        27.52        40.41        37.51        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T 
       28.87        44.68        40.96        38.24        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       43.33        34.26        31.96        28.60        17.03        25.41 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       27.12        23.24        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G 
       25.05        22.82        17.29        20.71        21.63        18.21 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P 
       17.42        19.40         9.04        20.58        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B4 
       17.06        14.07        14.99        60.53        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       32.35        28.50        17.10        37.41        32.78        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU 
       28.44        22.65         3.88        22.19        20.98        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
       54.18        19.66        24.59        28.90        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      102.61         8.75        43.04        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        7.20        30.61        34.92        19.89        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1ND TCGA-E9-A1NF 
       19.20        36.82        12.00        13.12        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R5 
       21.57         9.86        11.90        14.30         0.62         1.38 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A1RI 
       32.09        20.81         0.66        34.65        34.59        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22G 
       34.13         0.79        12.53        13.32        39.09        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       24.10        17.06         0.85        27.22         1.94         0.95 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
        0.72        17.75         0.76        18.41         0.62        15.72 
TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       12.33        14.70         0.26        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       39.72        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       28.77        25.94        22.82        29.95        29.85        40.41 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       39.78        52.96        29.82        23.11        18.48        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
        7.86        18.90        19.99        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 
       19.96        55.00        52.73        21.27        10.16        10.59 
TCGA-GI-A2C8 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DK 
        7.40       194.27        53.13        53.52        42.71        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       43.73        69.30        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 
       11.84        11.57        21.24         6.67         4.08         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.75         9.53        11.44        10.95         7.59        17.06 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR 
       15.32        14.70        14.47        11.57         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 
        4.14         4.50         4.50         3.22         6.21         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       27.91         2.79         2.10        12.66        46.55        31.99 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RZ TCGA-OL-A5S0 
       58.62        27.65        34.92        16.87        22.32        20.38 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       26.70        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
       28.21        19.73         0.23         0.16         0.26         3.95 
TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 
       16.50         8.65         5.56         8.52         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                         0.16                          0.03 
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                       176.98                        234.28 
  DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE 
                        21.24                         23.08 
[1] "0.2 - 177.0 (21.2)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.4"
D42V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 13(7Q36.1) MUTATED        17        9        2        0        72
  DEL PEAK 13(7Q36.1) WILD-TYPE      66       71        7        5       270
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 13(7Q36.1) MUTATED          45         1         32          5
  DEL PEAK 13(7Q36.1) WILD-TYPE       189         1        110         24
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 13(7Q36.1) MUTATED            8        1         0       3
  DEL PEAK 13(7Q36.1) WILD-TYPE         55       17         1      13
D42V3, multiclass
            clus
vv           DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  STAGE I                             17                            66
  STAGE IA                             9                            71
  STAGE IB                             2                             7
  STAGE II                             0                             5
  STAGE IIA                           72                           270
  STAGE IIB                           45                           189
  STAGE III                            1                             1
  STAGE IIIA                          32                           110
  STAGE IIIB                           5                            24
  STAGE IIIC                           8                            55
  STAGE IV                             1                            17
  STAGE TIS                            0                             1
  STAGE X                              3                            13
[1] 13  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(7Q36.1) MUTATED    41 127  19   8
  DEL PEAK 13(7Q36.1) WILD-TYPE 224 467 105  31
D42V4, multiclass
    clus
vv   DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  T1                          41                           224
  T2                         127                           467
  T3                          19                           105
  T4                           8                            31
[1] 4 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  N3
  DEL PEAK 13(7Q36.1) MUTATED    93  59  28  11
  DEL PEAK 13(7Q36.1) WILD-TYPE 388 280  85  63
D42V5, multiclass
    clus
vv   DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  N0                          93                           388
  N1                          59                           280
  N2                          28                            85
  N3                          11                            63
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK 13(7Q36.1) MUTATED          2 168   1  24
  DEL PEAK 13(7Q36.1) WILD-TYPE        3 686  18 123
D42V6, multiclass
          clus
vv         DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  CM0 (I+)                           2                             3
  M0                               168                           686
  M1                                 1                            18
  MX                                24                           123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V7, binary
                               cls
clus                              0   1
  DEL PEAK 13(7Q36.1) MUTATED   193   2
  DEL PEAK 13(7Q36.1) WILD-TYPE 821   9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7Q36.1) MUTATED    193    2
  DEL PEAK 13(7Q36.1) WILD-TYPE  821    9
        clus
vv       DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  FEMALE                         193                           821
  MALE                             2                             9
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 13(7Q36.1) MUTATED                            0
  DEL PEAK 13(7Q36.1) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 13(7Q36.1) MUTATED                             165
  DEL PEAK 13(7Q36.1) WILD-TYPE                           589
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 13(7Q36.1) MUTATED                               15
  DEL PEAK 13(7Q36.1) WILD-TYPE                            160
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 13(7Q36.1) MUTATED                     0
  DEL PEAK 13(7Q36.1) WILD-TYPE                   6
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 13(7Q36.1) MUTATED                                  6
  DEL PEAK 13(7Q36.1) WILD-TYPE                               23
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 13(7Q36.1) MUTATED                    0              9
  DEL PEAK 13(7Q36.1) WILD-TYPE                 15             35
D42V8, multiclass
                                  clus
vv                                 DEL PEAK 13(7Q36.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            165
  INFILTRATING LOBULAR CARCINOMA                            15
  MEDULLARY CARCINOMA                                        0
  MIXED HISTOLOGY (PLEASE SPECIFY)                           6
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK 13(7Q36.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              589
  INFILTRATING LOBULAR CARCINOMA                             160
  MEDULLARY CARCINOMA                                          6
  MIXED HISTOLOGY (PLEASE SPECIFY)                            23
  MUCINOUS CARCINOMA                                          15
  OTHER  SPECIFY                                              35
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V9, binary
                               cls
clus                              0   1
  DEL PEAK 13(7Q36.1) MUTATED    54 141
  DEL PEAK 13(7Q36.1) WILD-TYPE 228 602
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7Q36.1) MUTATED     54  141
  DEL PEAK 13(7Q36.1) WILD-TYPE  228  602
     clus
vv    DEL PEAK 13(7Q36.1) MUTATED DEL PEAK 13(7Q36.1) WILD-TYPE
  NO                           54                           228
  YES                         141                           602
[1] 2 2
[1] FALSE
D42V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 13(7Q36.1) MUTATED                                  0    13
  DEL PEAK 13(7Q36.1) WILD-TYPE                                1    43
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(7Q36.1) MUTATED                          31   127
  DEL PEAK 13(7Q36.1) WILD-TYPE                       127   590
D42V11, multiclass
                                  clus
vv                                 DEL PEAK 13(7Q36.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     13
  BLACK OR AFRICAN AMERICAN                                 31
  WHITE                                                    127
                                  clus
vv                                 DEL PEAK 13(7Q36.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       43
  BLACK OR AFRICAN AMERICAN                                  127
  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"
D42V12, binary
                               cls
clus                              0   1
  DEL PEAK 13(7Q36.1) MUTATED     4 156
  DEL PEAK 13(7Q36.1) WILD-TYPE  32 670
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7Q36.1) MUTATED      4  156
  DEL PEAK 13(7Q36.1) WILD-TYPE   32  670
                        clus
vv                       DEL PEAK 13(7Q36.1) MUTATED
  HISPANIC OR LATINO                               4
  NOT HISPANIC OR LATINO                         156
                        clus
vv                       DEL PEAK 13(7Q36.1) WILD-TYPE
  HISPANIC OR LATINO                                32
  NOT HISPANIC OR LATINO                           670
[1] 2 2
[1] FALSE

Clustering(43) Variable = DEL PEAK 14(8P23.2) MUTATION ANALYSIS
D43V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 14(8P23.2) MUTATED   448  74
  DEL PEAK 14(8P23.2) WILD-TYPE 438  45
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                          522                           483 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                           74                            45 
$`DEL PEAK 14(8P23.2) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO 
        0.39        14.27        20.88        31.79        39.32        28.01 
TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U 
       19.20       104.81        18.02        41.95        73.84        22.06 
TCGA-A2-A04X TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CU TCGA-A2-A0CW 
       55.43        64.57       112.08        92.48         5.19        64.04 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU 
       21.14        34.55        25.22        79.76        74.40        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T0 
       31.82        29.75        24.72        27.12        50.43        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YK 
       17.13        18.71        20.75        21.67        18.61        19.33 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G4 TCGA-A2-A259 
       31.73        23.77        17.36        36.79        19.56        52.47 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XY 
       18.15        91.92        33.93        83.01        29.98        34.98 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0D9 
       31.99         7.30        21.90        35.31        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J 
       35.67        31.73        10.72        23.74        23.80        20.61 
TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SE 
       22.32        10.59        11.28        11.97        14.93        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY 
       17.92        14.73        12.10        10.29         9.37         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
       13.02        13.02         1.02        17.98        53.06        29.03 
TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       31.00         1.02        17.03        53.98         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       19.99        18.97        14.01         9.99        10.98         7.99 
TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08F 
        9.99        18.05        15.06        36.95        13.02        33.01 
TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       19.96        37.05        31.00        31.00         0.99        33.01 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A097 
       93.04        43.00        40.01        33.01        30.97        12.00 
TCGA-A8-A09A TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
        9.99        29.98        33.07         1.02        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A0A7 TCGA-AC-A23H TCGA-AC-A2FO TCGA-AC-A2QJ TCGA-AC-A3QP 
       19.04         0.99         2.66        50.70         2.27        22.19 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3YI TCGA-AC-A8OP TCGA-AN-A03Y TCGA-AN-A049 
        1.12        16.57        23.24         1.74         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AR 
        2.96         1.78         1.71         8.02         0.16         0.33 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        0.33         0.33         6.44         6.28         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        0.33         0.33         0.33         0.33         0.33        12.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03N TCGA-AO-A03O 
        0.33         0.33         0.33         5.33        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       84.69        68.75        32.78        21.40        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JM 
       37.48        53.03        50.70        76.77        26.24        71.80 
TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12G TCGA-AO-A1KP 
      102.58       108.72        96.10        64.04        41.62        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       61.87        70.39        17.79       130.09         5.65        15.62 
TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
       32.91       111.32        74.79        86.66        29.75        98.93 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       64.83        55.86        65.36       101.95        83.87       114.02 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AR 
       52.77        51.25        62.56        43.73        39.98        17.23 
TCGA-AR-A1AS TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
       37.81        63.62        62.14       109.58        50.89        73.02 
TCGA-AR-A24Q TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
      101.52        53.36        85.35        79.00        56.15        78.48 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LK TCGA-AR-A2LL 
       72.76        58.92        93.83       128.65        42.87         7.36 
TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       39.39        20.38        16.04        10.59        77.62       143.38 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IG TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
       12.13       220.90       146.50       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RL 
       84.59       140.88       211.56        68.45       189.01        81.17 
TCGA-B6-A0RM TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
       78.02       162.05       100.70       131.21       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X5 
      188.68        79.63        17.98        21.47       113.79        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A402 
       58.88        43.59       101.52       139.17        85.35        54.28 
TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B2 TCGA-BH-A0B4 
       49.94        55.00        38.79        25.55        40.83        39.16 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR 
       56.94        56.98        24.85        44.05        48.69        53.69 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DI 
       45.57        49.94        11.67        41.75        42.90        22.13 
TCGA-BH-A0DL TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EB TCGA-BH-A0EE 
       48.23        14.30         9.63        44.81        24.49        31.00 
TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0HK 
       24.43        15.16        24.56        23.08        26.50         5.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W5 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       42.35        23.05         8.81         7.23        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN 
       26.66        37.74        66.05         7.36        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       91.99        55.69        17.69        25.81        31.53        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
       97.48        24.66       120.62       114.15        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 
      122.89        36.92        72.07        72.07         6.90        38.60 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M 
       83.31        57.83       130.16         8.94        11.93        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W 
       11.77        12.66        11.77         0.07        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 
       12.66         1.78         1.45         0.69         0.62         3.75 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34        11.34        12.03        10.42         2.30         3.25 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B 
        0.23         0.36         9.67         0.03        12.20         0.99 
TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A143 
        0.23        11.90        20.88        13.25        13.97        14.17 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       13.48        14.17        17.49        18.71        15.78        18.15 
TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       12.03        18.97        20.09        20.12        20.09        19.40 
TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X6 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XD 
       21.01        13.32        17.79        25.74        23.90        17.16 
TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT 
       21.83        19.92        17.69        16.41        16.31         6.35 
TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27F 
       12.99        15.32        15.52        14.24        14.14        16.04 
TCGA-D8-A27H TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W 
       13.05        16.41        13.48         4.80        10.09        12.26 
TCGA-D8-A3Z6 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A14N 
       18.51        43.00        27.52        40.41        40.11        47.15 
TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X 
       40.96        33.17        33.30        43.33        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A15A 
       28.60        17.03        25.41        27.12        14.79        23.34 
TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15K 
       22.82        20.71        21.63        12.92        19.40         9.04 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B5 TCGA-E2-A1BC 
       17.06        14.07        60.53        53.62        32.35        16.47 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IO 
       38.30        37.41        33.73        33.70        22.19        20.98 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       54.18        27.42        39.62        24.59        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A56Z 
       18.87       102.61         8.75        43.04        16.93         7.20 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       19.89        19.00         9.21        13.48        12.00        13.12 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R5 
       39.55        12.59        20.05         9.86         0.62         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A228 
       21.21        34.65         6.58        34.59        34.13        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A248 
       13.32        39.09        22.75        12.89         0.69         1.94 
TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5UP TCGA-EW-A1IX TCGA-EW-A1J5 
       17.75         0.62         0.23        14.40        39.72        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 
       28.77        25.94        22.82        29.85        40.41        41.13 
TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE 
       52.96        18.48         7.86        18.90        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 
       14.43        19.96        55.00        52.73        25.91        17.49 
TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF 
       10.59        59.57       194.27        53.13        43.04        42.71 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XL TCGA-GM-A5PV TCGA-JL-A3YW TCGA-JL-A3YX 
       53.36       110.50        69.30        13.55        11.84        11.57 
TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A50Y TCGA-LL-A5YM 
        4.08         4.60         9.53        11.44         7.59        15.32 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
       14.47        14.79         2.63         3.88         4.14         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5RY 
        3.22         6.21         7.36        46.55        36.36        24.72 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66P TCGA-S3-A6ZH TCGA-S3-AA10 
       22.32        20.38        65.62        14.07         8.65         7.92 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        8.52         7.17         3.91         9.60         9.14       105.04 

$`DEL PEAK 14(8P23.2) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SJ 
        8.52        14.37        43.43        48.10        47.24        13.68 
TCGA-A1-A0SM TCGA-A1-A0SQ TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y 
        7.96        18.21        82.16        63.12        64.04        36.13 
TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT 
      136.73        24.79        88.60       107.93        75.55        75.25 
TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN 
       63.45        56.81        33.76        28.77       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0ST 
       80.28       107.61        37.05        35.05        24.16        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 
       54.64        44.88        44.28         8.38        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG 
       18.90        32.55        25.28        18.21        15.42        21.90 
TCGA-A2-A0YI TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       14.50        48.46        23.47        22.45        20.25        19.20 
TCGA-A2-A1G6 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F TCGA-A2-A3KC 
       16.47       107.70        16.31        17.19        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RX 
       39.65        32.75        49.48        38.40        38.37        24.39 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG 
       21.30        23.21        26.96        21.14        38.30        34.29 
TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       35.47        33.11        12.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 
       24.26        21.73        11.34        10.29        13.41        14.70 
TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A8-A06Y 
       13.74        14.50        10.72        11.05        10.42        26.01 
TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07Z 
       18.97        12.00        17.03         8.98        24.99        28.04 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A093 
        0.99        38.01        28.96        12.00         9.99        17.95 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E 
       41.98         9.99        12.00         1.02        50.04        49.05 
TCGA-A8-A09I TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       45.07        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       13.02        21.04        13.02        17.03        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB 
        2.37        10.85         1.48        38.53        38.20        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QI 
       55.43        36.99        38.79        26.04         1.02         0.92 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3W6 TCGA-AC-A3YJ TCGA-AC-A5XS 
        0.99         0.69        14.83        19.79        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        0.07         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.68         1.12         1.32         0.33         0.23         0.33 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        7.36         6.51         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FW TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XW TCGA-AO-A03L 
        7.17         0.36         0.30         0.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J7 TCGA-AO-A0J8 
       47.84        47.87        59.05        29.13        20.32        22.36 
TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ 
       21.53        50.86        72.00        21.37        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E 
       55.33        99.25       106.78        90.58        77.56        57.30 
TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J 
       48.36        28.37        14.73         0.53        24.79        26.93 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TZ 
       32.52         2.56         9.99        49.32         5.26        76.14 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AQ 
       85.97        75.55        61.84        48.82        43.56        43.07 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       76.21        61.28        20.22        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 
        0.85        87.22        76.01        50.96        83.77        73.18 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QM 
       20.25        62.86        40.04        38.17        40.54        54.74 
TCGA-AR-A5QP TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IH 
       20.45       149.59       129.57        50.70        65.72       112.37 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RI TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ 
      110.14       110.93       234.28       172.96       102.77       140.48 
TCGA-B6-A0RT TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A1KI 
       89.46       129.57       129.70       186.48        28.27        73.51 
TCGA-B6-A2IU TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 
      170.17       103.63        24.53        20.45        28.50        46.95 
TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       39.55        48.36        51.68        37.22        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS 
       25.71        21.70        61.68        35.67        27.19        53.95 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       49.05        44.02        48.13        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       38.01        13.91        17.26        15.65         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
       38.47        45.17        47.41        16.27         4.41        15.68 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 
       46.19        32.65        30.35        10.78        37.78        35.51 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       41.00        52.96        20.38         2.50        13.61        36.85 
TCGA-BH-A0W4 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q 
       24.95        44.81         2.01        72.56        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
       37.55        51.39       113.82        82.85        42.28        12.00 
TCGA-BH-A1EX TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A202 
       49.58        63.35        55.00        45.63       144.59         0.72 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-C8-A12V 
       10.65         6.44        20.12         0.99       109.28        12.66 
TCGA-C8-A130 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A26V 
        3.12         3.85        12.33        10.92         0.16         0.30 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-D8-A141 
        0.43         8.28         0.03         0.03         0.03        20.58 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH 
       21.14        19.20        16.50        18.90        12.03        14.01 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1XA 
       20.38        12.20        14.70        18.58        16.73        27.58 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XO 
       18.15         2.66        15.22        14.73        14.50         7.96 
TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 TCGA-D8-A27E 
       15.85        15.16        12.66        16.54         3.81        17.42 
TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
       13.45        14.43         9.44         0.76        13.08        12.53 
TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10E 
       14.50         7.33        34.42        46.59        37.51        28.44 
TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A153 
       28.87        44.68        38.24        38.60        34.26        23.24 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15D TCGA-E2-A15G 
       19.43        21.04        23.87        25.05        17.29        18.21 
TCGA-E2-A15I TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15T 
       17.42        20.58         7.73        13.02        19.56        14.99 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IG TCGA-E2-A1IJ 
       53.03        29.95        28.50        17.10        32.78        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L9 TCGA-E2-A1LH TCGA-E2-A2P6 
       22.65         3.88        11.08        19.66       106.75         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NA 
       15.72        30.61        34.92        19.20        36.82        36.56 
TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R4 
       35.77        21.57        11.90        14.30         2.10         6.12 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG 
        2.76        32.09        20.81        40.24         0.66        21.27 
TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
       35.64         0.79        23.51        24.10        17.06         0.85 
TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO 
       27.22         0.95        24.56         0.72         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO 
       18.41        15.72        12.33        14.70         0.26        13.81 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       15.39        12.20         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1OX TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P7 
       16.57        29.95        39.78        29.82        23.11        30.08 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PG TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 
       19.99         6.15        34.55        22.09        21.27        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
        7.40       109.87        53.52        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN 
       90.84        76.64        77.33        38.20        43.73        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A9QF TCGA-LL-A442 
       72.03        18.12        21.24         6.67         8.75        10.95 
TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A6FP TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 
       17.06        14.70        11.57         4.50         5.59        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L 
       34.92        16.87        26.70        23.47        33.57        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX 
       26.04         7.23        28.21        19.73         0.23         0.16 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA11 
        0.26         3.95        16.50         6.81        10.59         5.56 
TCGA-S3-AA15 TCGA-W8-A86G TCGA-Z7-A8R5 
        6.87         5.29       100.01 

  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                       220.90                        234.28 
  DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE 
                       22.785                        22.090 
[1] "0.0 - 220.9 (22.8)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.3"
D43V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 14(8P23.2) MUTATED        45       41        6        2       174
  DEL PEAK 14(8P23.2) WILD-TYPE      38       39        3        3       168
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 14(8P23.2) MUTATED         123         1         73         15
  DEL PEAK 14(8P23.2) WILD-TYPE       111         1         69         14
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 14(8P23.2) MUTATED           31       10         0      10
  DEL PEAK 14(8P23.2) WILD-TYPE         32        8         1       6
D43V3, multiclass
            clus
vv           DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  STAGE I                             45                            38
  STAGE IA                            41                            39
  STAGE IB                             6                             3
  STAGE II                             2                             3
  STAGE IIA                          174                           168
  STAGE IIB                          123                           111
  STAGE III                            1                             1
  STAGE IIIA                          73                            69
  STAGE IIIB                          15                            14
  STAGE IIIC                          31                            32
  STAGE IV                            10                             8
  STAGE TIS                            0                             1
  STAGE X                             10                             6
[1] 13  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   150 309  49  22
  DEL PEAK 14(8P23.2) WILD-TYPE 115 285  75  17
D43V4, multiclass
    clus
vv   DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  T1                         150                           115
  T2                         309                           285
  T3                          49                            75
  T4                          22                            17
[1] 4 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  N3
  DEL PEAK 14(8P23.2) MUTATED   236 178  68  36
  DEL PEAK 14(8P23.2) WILD-TYPE 245 161  45  38
D43V5, multiclass
    clus
vv   DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  N0                         236                           245
  N1                         178                           161
  N2                          68                            45
  N3                          36                            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                            CM0 (I+)  M0  M1  MX
  DEL PEAK 14(8P23.2) MUTATED          3 454  10  65
  DEL PEAK 14(8P23.2) WILD-TYPE        2 400   9  82
D43V6, multiclass
          clus
vv         DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  CM0 (I+)                           3                             2
  M0                               454                           400
  M1                                10                             9
  MX                                65                            82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V7, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED   525   7
  DEL PEAK 14(8P23.2) WILD-TYPE 489   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED    525    7
  DEL PEAK 14(8P23.2) WILD-TYPE  489    4
        clus
vv       DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  FEMALE                         525                           489
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 14(8P23.2) MUTATED                            1
  DEL PEAK 14(8P23.2) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 14(8P23.2) MUTATED                             435
  DEL PEAK 14(8P23.2) WILD-TYPE                           319
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 14(8P23.2) MUTATED                               53
  DEL PEAK 14(8P23.2) WILD-TYPE                            122
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 14(8P23.2) MUTATED                     3
  DEL PEAK 14(8P23.2) WILD-TYPE                   3
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 14(8P23.2) MUTATED                                 11
  DEL PEAK 14(8P23.2) WILD-TYPE                               18
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 14(8P23.2) MUTATED                    3             25
  DEL PEAK 14(8P23.2) WILD-TYPE                 12             19
D43V8, multiclass
                                  clus
vv                                 DEL PEAK 14(8P23.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            435
  INFILTRATING LOBULAR CARCINOMA                            53
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          11
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                            25
                                  clus
vv                                 DEL PEAK 14(8P23.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              319
  INFILTRATING LOBULAR CARCINOMA                             122
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            18
  MUCINOUS CARCINOMA                                          12
  OTHER  SPECIFY                                              19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V9, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED   145 387
  DEL PEAK 14(8P23.2) WILD-TYPE 137 356
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED    145  387
  DEL PEAK 14(8P23.2) WILD-TYPE  137  356
     clus
vv    DEL PEAK 14(8P23.2) MUTATED DEL PEAK 14(8P23.2) WILD-TYPE
  NO                          145                           137
  YES                         387                           356
[1] 2 2
[1] FALSE
D43V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 14(8P23.2) MUTATED                                  1    37
  DEL PEAK 14(8P23.2) WILD-TYPE                                0    19
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(8P23.2) MUTATED                          93   347
  DEL PEAK 14(8P23.2) WILD-TYPE                        65   370
D43V11, multiclass
                                  clus
vv                                 DEL PEAK 14(8P23.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     37
  BLACK OR AFRICAN AMERICAN                                 93
  WHITE                                                    347
                                  clus
vv                                 DEL PEAK 14(8P23.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       19
  BLACK OR AFRICAN AMERICAN                                   65
  WHITE                                                      370
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V12, binary
                               cls
clus                              0   1
  DEL PEAK 14(8P23.2) MUTATED    18 430
  DEL PEAK 14(8P23.2) WILD-TYPE  18 396
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(8P23.2) MUTATED     18  430
  DEL PEAK 14(8P23.2) WILD-TYPE   18  396
                        clus
vv                       DEL PEAK 14(8P23.2) MUTATED
  HISPANIC OR LATINO                              18
  NOT HISPANIC OR LATINO                         430
                        clus
vv                       DEL PEAK 14(8P23.2) WILD-TYPE
  HISPANIC OR LATINO                                18
  NOT HISPANIC OR LATINO                           396
[1] 2 2
[1] FALSE

Clustering(44) Variable = DEL PEAK 15(8P11.21) MUTATION ANALYSIS
D44V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 15(8P11.21) MUTATED   158  24
  DEL PEAK 15(8P11.21) WILD-TYPE 728  95
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                           182                            823 
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                            24                             95 
$`DEL PEAK 15(8P11.21) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04U 
       48.10        39.32        19.20        18.02        41.95        22.06 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CL TCGA-A2-A0D1 TCGA-A2-A0EQ TCGA-A2-A0SV 
       55.43        36.13        64.57        34.55        79.76        27.12 
TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0YH TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A259 
       50.43        17.13        21.67        23.77        17.36        52.47 
TCGA-A2-A25B TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4S3 TCGA-A7-A0D9 TCGA-A7-A13D 
       16.31        34.98        31.99        21.90        37.45        31.73 
TCGA-A7-A26G TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A6VV TCGA-A7-A6VY TCGA-A8-A06T 
       23.74        14.93        21.17        10.29         8.75        53.06 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A08G 
        1.02        17.03         9.01         8.98         7.99        19.96 
TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09I 
       37.05        31.00        43.00        12.00         9.99        45.07 
TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A0A7 TCGA-AC-A23H TCGA-AC-A2QH 
       29.98         1.02        19.04         0.99         2.66         1.02 
TCGA-AC-A2QJ TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A049 
        2.27         1.12        16.57         1.74         0.23         0.62 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FD 
        2.96         1.78         8.02         0.16         0.33         6.44 
TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 
        7.59         6.02         0.33        29.13        52.18        24.16 
TCGA-AO-A0J9 TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A124 TCGA-AO-A12D TCGA-AO-A1KT 
       53.03        76.77        26.24       102.58        64.04        17.79 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0U0 
        5.65        15.62        86.66        29.75        55.86        65.36 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A250 TCGA-AR-A254 
       52.77        51.25        50.89        53.36        56.15        72.76 
TCGA-AR-A255 TCGA-B6-A0RH TCGA-B6-A0WY TCGA-B6-A1KN TCGA-BH-A0AU TCGA-BH-A0AV 
       58.92       189.01       113.79       139.17        24.53        38.79 
TCGA-BH-A0B7 TCGA-BH-A0BG TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0EB TCGA-BH-A0EE 
       56.98        24.85        53.69        11.67        24.49        31.00 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
        5.59        23.93         8.81        20.12        90.84        26.66 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EY TCGA-BH-A1F8 TCGA-BH-A1FE 
       51.39        51.16       113.82        17.69        24.66        74.73 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A203 TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 
       72.07        72.07        38.60        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HL TCGA-D8-A13Z TCGA-D8-A140 
        1.78         0.62         3.75        10.42        20.88        13.25 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK 
       13.48        14.17        17.49        12.03        20.09        20.12 
TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-D8-A27L 
       21.01        18.58        19.92        16.41        12.99        16.41 
TCGA-D8-A3Z6 TCGA-E2-A108 TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A14Z 
       18.51        27.52        33.30        34.26        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A1B5 TCGA-E2-A1BC 
       25.41        27.12        12.92        19.40        32.35        16.47 
TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LB TCGA-E2-A1LE 
       37.41        33.73        20.98        39.62        40.47        28.90 
TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1ND TCGA-E9-A1NF 
      106.75        43.04        12.00        13.12        12.59        20.05 
TCGA-E9-A1NI TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 
        9.86         1.38        21.21        21.27        34.59        34.13 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A248 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1PE 
       22.75        12.89         1.94        25.94        22.82        10.52 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A3XL 
       19.96        55.00        25.91        17.49        10.59        69.30 
TCGA-GM-A5PV TCGA-JL-A3YW TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A73Z 
       13.55        11.84         7.59        14.70        14.47         4.50 
TCGA-OL-A5RZ TCGA-OL-A5S0 
       22.32        20.38 

$`DEL PEAK 15(8P11.21) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SQ 
       20.88        13.68        31.79         7.96        28.01        18.21 
TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A0CK 
      104.81        82.16        73.84        63.12        64.04       136.73 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       24.79       112.08        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 
       75.25         5.19        63.45        64.04        56.81        21.14 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       33.76        28.77        25.22       101.72        89.36        80.28 
TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV 
      107.61        74.40        37.05        35.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW 
       29.75        24.72        24.16        99.19        54.64        44.88 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52         8.38        18.71        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF 
       18.90        20.75        32.55        25.28        18.21        15.42 
TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.90        14.50        18.61        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 
       23.47        36.79        22.45        20.25        19.20        19.56 
TCGA-A2-A1G6 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
       16.47       107.70        17.19        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV 
       20.88        39.65        33.93        83.01        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       49.48        38.40        38.37         7.30        24.39        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       23.21        26.96        21.14        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13F 
       35.47        30.61        35.67        33.11        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        31.36        24.26        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       20.61        22.32        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF 
       13.41        14.70        11.97        13.74        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX 
       14.73        12.10        10.72        11.05         9.37        10.42 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X 
       13.02        13.02         1.02        17.98        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       26.01        53.98        43.00        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07U 
       14.01        12.00        17.03         9.99        10.98        24.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 
        9.99        28.04        18.05        15.06        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08L 
        0.99        38.01        28.96        33.01        12.00         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 
       31.00         0.99        33.01        93.04        40.01        33.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       30.97        17.95        41.98         9.99        12.00         1.02 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V 
       50.04        49.05        33.07        25.02         8.98        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
        0.99        14.01        12.00        19.04        13.02        21.04 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
       13.02        17.03        38.04         0.95         2.37        10.85 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        1.48        38.53        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        26.04        50.70         0.92         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
       14.83        22.19        19.79        23.24        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        0.07         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 
        1.68         1.12         1.32         0.33         0.33         0.33 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FF 
        1.71         7.36         6.51         0.33         0.33         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FX 
        7.96         7.00         7.17         6.28         0.36         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
        0.33         0.33         0.33         0.33        12.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
       80.28        47.84        66.77        81.63        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0J7 
       47.87        59.05        32.78        21.40        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF 
       22.36        21.53        50.70        50.86        72.00        21.37 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       50.24        62.04        55.33        71.80        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F 
      106.78        96.10        90.58        77.56        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
       41.62        28.37        14.73        82.62        61.87        70.39 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A54N 
        0.53        24.79        26.93       130.09        32.52         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
       32.91         9.99       111.32        49.32         5.26        74.79 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       98.93        64.83        76.14       101.95        83.87       114.02 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       85.97        75.55        61.84        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       43.56        39.98        43.07        17.23        37.81        76.21 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L 
       61.28        63.62        62.14        20.22       109.58        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       96.89        78.51        84.20         0.85       101.52        87.22 
TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 
       76.01        85.35        50.96        83.77        79.00        78.48 
TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       73.18        93.83       128.65        20.25        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
      146.50       112.37       176.98        18.77       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RI 
      110.14       110.93       140.88       211.56        68.45       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      100.70        89.46       131.21       157.41        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       79.63        17.98        21.47       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI 
       28.27        68.94        58.88        43.59       101.52        73.51 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
      170.17        85.35        54.28        49.94       103.63        55.00 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       20.45        25.55        28.50        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.16        48.36        56.94        51.68        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        21.70        44.05        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ 
       48.69        27.19        53.95        45.57        49.94        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       41.75        44.02        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       23.44        38.01        22.13        13.91        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       15.65         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       16.27         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       46.19        32.65        24.43        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       37.78        35.51        24.56        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 
       12.89        51.32        27.25        50.79        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18M TCGA-BH-A18N 
       44.81        23.05         2.01         7.23        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1EN 
       30.28        55.63        37.55        66.05         7.36        69.93 
TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX 
       91.99        82.85        42.28        12.00        55.69        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        31.53        89.16        97.48       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       33.17       122.89        36.92        63.35        55.00        45.63 
TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
      144.59         6.90         0.72        83.31        57.83       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V 
       10.65         6.44        20.12         0.99       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
       11.93        11.77        11.77        12.66        11.77         0.07 
TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66        12.66         1.45         0.69         3.85        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM 
       10.92        11.34        11.34         0.16        12.03         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z 
        3.25         0.30         0.23         0.36         0.43         8.28 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B 
        9.67         0.03         0.03         0.03        12.20         0.99 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 
        0.03         0.23        11.90        20.58        13.97        14.17 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       21.14        19.20        16.50        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JM 
       18.90        12.03        14.01        18.97        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 
       20.38        12.20        13.32        14.70        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       25.74        23.90        27.58        18.15         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO 
       15.22        14.73        21.83        14.50        17.69         7.96 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY 
       15.85        16.31         6.35        15.16        12.66        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       15.32        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27M 
       16.04        13.45        13.05        14.43         9.44        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
        4.80         0.76        10.09        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A 
       14.50         7.33        43.00        34.42        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O 
       37.51        40.11        28.44        28.87        47.15        44.68 
TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14W 
       40.96        38.24        38.60        33.17        43.33        32.02 
TCGA-E2-A14X TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       31.96        23.24        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       25.05        23.34        22.82        17.29        20.71        21.63 
TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       18.21        17.42         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       19.56        17.06        14.07        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG 
       53.03        29.95        28.50        17.10        38.30        32.78 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       33.70        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LI 
       54.18        27.42        19.66        24.59        18.87       102.61 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
        8.75        16.93         5.52        15.72         7.20        30.61 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       34.92        19.89        19.00         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ 
       13.48        36.56        39.55        35.77        21.57        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA 
       14.30         0.62         2.10         6.12         2.76        32.09 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RI 
       20.81        40.24         0.66        34.65         6.58        35.64 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22G TCGA-E9-A22H 
        0.79        12.53        13.32        39.09        23.51        24.10 
TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A 
       17.06         0.69         0.85        27.22         0.95        24.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
        0.72        17.75         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO 
       15.72        12.33         0.23        14.70         0.26        13.81 
TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       14.40        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OX 
       18.90        13.25        16.57        15.68        28.77        29.95 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       29.85        40.41        41.13        39.78        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
       23.11        18.48        30.08         7.86        18.90        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FW 
        6.15        13.94        14.43        34.55        52.73        22.09 
TCGA-EW-A3E8 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA 
       21.27        10.16         7.40       109.87        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI 
       53.13        53.52        43.04        42.71        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       62.33        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PX TCGA-JL-A3YX 
       38.20        43.73        66.38        72.03        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FP 
       11.44        10.95        17.06        15.32        14.79        11.57 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        2.63         3.88         4.14         4.50         5.59         3.22 
TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        6.21         7.36        27.91         2.79         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW 
       46.55        31.99        58.62        27.65        34.92        36.36 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       16.87        24.72        26.70        23.47        65.62        33.57 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ 
       31.07        26.04         7.23        14.07        28.21        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG 
        0.23         0.16         0.26         3.95        16.50         6.81 
TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        8.65        10.59         7.92         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                          0.16                           0.03 
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                        189.01                         234.28 
  DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE 
                         21.19                          23.11 
[1] "0.2 - 189.0 (21.2)" "0.0 - 234.3 (23.1)"
[1] "hr=" "1.6"
D44V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 15(8P11.21) MUTATED        17       17        0        0        64
  DEL PEAK 15(8P11.21) WILD-TYPE      66       63        9        5       278
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 15(8P11.21) MUTATED          38         0         26          6
  DEL PEAK 15(8P11.21) WILD-TYPE       196         2        116         23
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 15(8P11.21) MUTATED           11        6         0       3
  DEL PEAK 15(8P11.21) WILD-TYPE         52       12         1      13
D44V3, multiclass
            clus
vv           DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  STAGE I                              17                             66
  STAGE IA                             17                             63
  STAGE IB                              0                              9
  STAGE II                              0                              5
  STAGE IIA                            64                            278
  STAGE IIB                            38                            196
  STAGE III                             0                              2
  STAGE IIIA                           26                            116
  STAGE IIIB                            6                             23
  STAGE IIIC                           11                             52
  STAGE IV                              6                             12
  STAGE TIS                             0                              1
  STAGE X                               3                             13
[1] 13  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(8P11.21) MUTATED    49 110  18  11
  DEL PEAK 15(8P11.21) WILD-TYPE 216 484 106  28
D44V4, multiclass
    clus
vv   DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  T1                           49                            216
  T2                          110                            484
  T3                           18                            106
  T4                           11                             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 15(8P11.21) MUTATED    93  52  26  15
  DEL PEAK 15(8P11.21) WILD-TYPE 388 287  87  59
D44V5, multiclass
    clus
vv   DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  N0                           93                            388
  N1                           52                            287
  N2                           26                             87
  N3                           15                             59
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 15(8P11.21) MUTATED          0 161   6  21
  DEL PEAK 15(8P11.21) WILD-TYPE        5 693  13 126
D44V6, multiclass
          clus
vv         DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                161                            693
  M1                                  6                             13
  MX                                 21                            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V7, binary
                                cls
clus                               0   1
  DEL PEAK 15(8P11.21) MUTATED   188   0
  DEL PEAK 15(8P11.21) WILD-TYPE 826  11
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(8P11.21) MUTATED    188    0
  DEL PEAK 15(8P11.21) WILD-TYPE  826   11
        clus
vv       DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  FEMALE                          188                            826
  MALE                              0                             11
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 15(8P11.21) MUTATED                            0
  DEL PEAK 15(8P11.21) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 15(8P11.21) MUTATED                             160
  DEL PEAK 15(8P11.21) WILD-TYPE                           594
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 15(8P11.21) MUTATED                               15
  DEL PEAK 15(8P11.21) WILD-TYPE                            160
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 15(8P11.21) MUTATED                     0
  DEL PEAK 15(8P11.21) WILD-TYPE                   6
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 15(8P11.21) MUTATED                                  5
  DEL PEAK 15(8P11.21) WILD-TYPE                               24
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 15(8P11.21) MUTATED                    0              8
  DEL PEAK 15(8P11.21) WILD-TYPE                 15             36
D44V8, multiclass
                                  clus
vv                                 DEL PEAK 15(8P11.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             160
  INFILTRATING LOBULAR CARCINOMA                             15
  MEDULLARY CARCINOMA                                         0
  MIXED HISTOLOGY (PLEASE SPECIFY)                            5
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                              8
                                  clus
vv                                 DEL PEAK 15(8P11.21) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               594
  INFILTRATING LOBULAR CARCINOMA                              160
  MEDULLARY CARCINOMA                                           6
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  MUCINOUS CARCINOMA                                           15
  OTHER  SPECIFY                                               36
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V9, binary
                                cls
clus                               0   1
  DEL PEAK 15(8P11.21) MUTATED    57 131
  DEL PEAK 15(8P11.21) WILD-TYPE 225 612
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(8P11.21) MUTATED     57  131
  DEL PEAK 15(8P11.21) WILD-TYPE  225  612
     clus
vv    DEL PEAK 15(8P11.21) MUTATED DEL PEAK 15(8P11.21) WILD-TYPE
  NO                            57                            225
  YES                          131                            612
[1] 2 2
[1] FALSE
D44V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 15(8P11.21) MUTATED                                  1     9
  DEL PEAK 15(8P11.21) WILD-TYPE                                0    47
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(8P11.21) MUTATED                          33   123
  DEL PEAK 15(8P11.21) WILD-TYPE                       125   594
D44V11, multiclass
                                  clus
vv                                 DEL PEAK 15(8P11.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       9
  BLACK OR AFRICAN AMERICAN                                  33
  WHITE                                                     123
                                  clus
vv                                 DEL PEAK 15(8P11.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        47
  BLACK OR AFRICAN AMERICAN                                   125
  WHITE                                                       594
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V12, binary
                                cls
clus                               0   1
  DEL PEAK 15(8P11.21) MUTATED     6 149
  DEL PEAK 15(8P11.21) WILD-TYPE  30 677
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(8P11.21) MUTATED      6  149
  DEL PEAK 15(8P11.21) WILD-TYPE   30  677
                        clus
vv                       DEL PEAK 15(8P11.21) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          149
                        clus
vv                       DEL PEAK 15(8P11.21) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            677
[1] 2 2
[1] FALSE

Clustering(45) Variable = DEL PEAK 16(9P23) MUTATION ANALYSIS
D45V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 16(9P23) MUTATED   261  45
  DEL PEAK 16(9P23) WILD-TYPE 625  74
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                        306                         699 
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                         45                          74 
$`DEL PEAK 16(9P23) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SJ TCGA-A1-A0SO TCGA-A2-A0CL TCGA-A2-A0CT TCGA-A2-A0CU 
       14.37        13.68        28.01        64.57        75.25         5.19 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EY 
       80.28        79.76        74.40        35.05        34.29        24.16 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T7 TCGA-A2-A0YE 
       54.64        27.12        44.88        17.52        20.75        18.21 
TCGA-A2-A0YG TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B 
       21.90        23.77        17.36        36.79        19.20        16.31 
TCGA-A2-A25E TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4S1 
       91.92        32.75        38.40        34.98        38.37        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26G 
       21.90        30.61        37.45        31.73        12.72        23.74 
TCGA-A7-A2KD TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A8-A06O TCGA-A8-A06R 
       22.32        14.93        13.74        17.92        13.02        17.98 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07G 
       29.03        31.00         1.02        17.03         9.01        18.97 
TCGA-A8-A07L TCGA-A8-A07W TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L 
       17.03         9.99        19.96        12.00        37.05         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A097 TCGA-A8-A09A 
       31.00        31.00         0.99        33.01        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09N 
       12.00         1.02        49.05        45.07        33.07         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A6 
       25.02         8.98        19.04         0.99        19.04        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A2BM TCGA-AC-A2FO TCGA-AC-A2QH 
        0.99        13.02        17.03        38.20        50.70         1.02 
TCGA-AC-A2QI TCGA-AC-A62V TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y 
        0.92         0.07         0.69         1.74         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        0.23         0.62         2.96         8.02         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FZ 
        0.16         0.33         7.96         0.33         0.36         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L 
        0.33        12.33         0.33         5.33         5.59        80.28 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0JA 
       66.77        81.63        29.13        21.40        24.16        21.53 
TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04L 
       50.70        76.77        61.87         0.53        17.79       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
        5.65        15.62        32.91        49.32         5.26        74.79 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
       29.75        98.93        55.86        76.14        83.87       114.02 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24N TCGA-AR-A24R 
       75.55        61.84        39.98        63.62        78.51        87.22 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A2LK 
       85.35        50.96        79.00        73.18        58.92        42.87 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IK TCGA-B6-A0IO TCGA-B6-A0RO TCGA-B6-A0RP 
       12.13       129.57        18.77       110.14       162.05       102.77 
TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AW 
       79.63       113.79        85.35        49.94        24.53        20.45 
TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BF TCGA-BH-A0BL 
       28.50        39.55        48.36        56.98        25.71        44.05 
TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DI 
       53.69        49.94        11.67        48.13        42.90        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0EB 
       13.91        48.23         3.22        14.30         9.63        24.49 
TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HY TCGA-BH-A0W3 
       30.35        23.08        41.00        52.96        50.79        23.93 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN 
       90.84        26.66        66.05         7.36        51.39        69.93 
TCGA-BH-A1ES TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FM TCGA-BH-A1FU 
      113.82        17.69        31.53        24.66        45.63        72.07 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A42T TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
       38.60        57.83         0.99        12.66        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 
       12.66        12.66        12.66         3.12         1.78         1.45 
TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V 
        3.85        11.34        12.03        10.42         2.30         0.30 
TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A143 
        0.43         9.67        12.20        11.90        20.88        14.17 
TCGA-D8-A145 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG 
       13.48        17.49        16.50        15.78        12.03        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X9 
       20.09        20.12        19.40        18.58        17.79        23.90 
TCGA-D8-A1XA TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y3 TCGA-D8-A27F 
       27.58        16.31        12.99        16.54        14.14        16.04 
TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A14O TCGA-E2-A14T 
        4.80        10.09        12.26        46.59        44.68        33.30 
TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F 
       32.02        17.03        27.12        23.34        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1LA 
       12.92        14.07        20.98        54.18        27.42        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A56Z 
       40.47        28.90       106.75         8.75        43.04         7.20 
TCGA-E2-A573 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ 
       34.92        13.12        36.56        20.05         9.86        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC 
        0.62         6.12         2.76        21.21        20.81        40.24 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22A TCGA-E9-A22B 
       34.65         6.58        21.27        34.59        39.09        22.75 
TCGA-E9-A22E TCGA-E9-A247 TCGA-E9-A2JS TCGA-E9-A54X TCGA-E9-A5FL TCGA-E9-A5UO 
       12.89        27.22        17.75        12.33         0.26        13.81 
TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 
       14.40        28.77        25.94        29.85        40.41        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A2FS 
       29.82        23.11        18.90        13.94        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2DB TCGA-JL-A3YX TCGA-LD-A7W5 
       25.91        10.16        10.59        53.13        11.57         4.08 
TCGA-LL-A441 TCGA-LL-A6FQ TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OL-A5D6 
       11.44         2.63         5.59         3.22         2.79        12.66 
TCGA-OL-A5RZ TCGA-OL-A66N TCGA-OL-A66P TCGA-PL-A8LV TCGA-S3-A6ZH TCGA-S3-AA17 
       22.32        26.04        14.07         0.23         8.65         3.91 

$`DEL PEAK 16(9P23) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        31.79         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U 
      104.81        18.02        41.95        82.16        73.84        22.06 
TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM 
       63.12        64.04        55.43        36.13       136.73        24.79 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CV 
      112.08        92.48        88.60       107.93        75.55        63.45 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       64.04        56.81        21.14        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0EV 
       25.22       101.72        89.36       107.61        37.05        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       29.75        24.72        99.19        50.43        44.28        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
        8.38        18.71        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       25.28        15.42        21.67        14.50        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       48.46        31.73        23.47        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F 
       16.47        52.47       107.70        17.19        18.15        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW 
       20.88        39.65        33.93        83.01        29.98        49.48 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       31.99         7.30        24.39        21.30        23.21        21.14 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DA TCGA-A7-A0DB 
       38.30        35.31        34.29        35.47        35.67        33.11 
TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H 
       10.72        23.61        29.56        31.36        24.26        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       21.73        20.61        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D 
       13.41        14.70        11.97        14.50        21.17        14.73 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       12.10        10.72        11.05        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A076 
        8.75        13.02         1.02        53.06        26.01        53.98 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O 
       43.00        19.99        18.97        14.01        12.00         9.99 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
       10.98         8.98         7.99        24.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
       15.06        36.95        13.02         0.99        38.01        28.96 
TCGA-A8-A08F TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       33.01        93.04        43.00        40.01        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09V 
       17.95        41.98         9.99        50.04        29.98        15.02 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       14.01        12.00        13.02        38.04         0.95         2.37 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FF 
       10.85         2.66         1.48        38.53        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       36.99        38.79        26.04         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX 
       24.79         1.55         1.12         1.81         1.18         0.43 
TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A04C TCGA-AN-A04D 
        1.68         1.12         1.32         0.33         1.78         1.71 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         0.33         6.44         4.64         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL 
        7.17         6.28         6.02         0.33         0.33         0.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03M TCGA-AO-A03P 
        0.30         0.33         0.33         0.33        47.84        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 
       68.75        47.87        59.05        32.78        52.18        37.48 
TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF 
       20.32        22.36        53.03        50.86        72.00        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       26.24        50.24        62.04        55.33        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A1H3 TCGA-AQ-A54N 
       82.62        70.39        24.79        26.93        32.52         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A0U1 
        9.99       111.32        86.66        64.83        65.36       101.95 
TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       85.97        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       43.56        43.07        17.23        37.81        76.21        61.28 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       62.14        20.22       109.58        50.89        73.02        96.89 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X 
       84.20         0.85       101.52        76.01        53.36        83.77 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       56.15        78.48        72.76        93.83       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      143.38       149.59       220.90        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ 
      112.37       176.98       126.12        84.59       110.93       140.88 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      211.56        68.45       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      172.96       140.48       100.70        89.46       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 
       97.48       188.68        17.98        21.47       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
      186.48        28.27        68.94        58.88        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C 
       73.51       139.17       170.17        54.28       103.63        55.00 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 
       38.79        25.55        46.95        40.83        39.16        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ 
       51.68        37.22        32.02        18.21        24.85        21.70 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT 
       61.68        35.67        48.69        27.19        53.95        45.57 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       49.05        41.75        44.02        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       38.01        17.26        15.65         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0E9 
       47.41        16.27         4.41        15.68        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       32.65        31.00        24.43        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       35.51        24.56        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX 
       13.61        36.85        12.89        51.32        27.25         5.59 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
       24.95        42.35        44.81        23.05         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
        7.23        20.12        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
       37.55        51.16        91.99        82.85        42.28        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB 
       55.69        49.58        25.81        89.16        97.48       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      114.15        33.17        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 
       55.00        72.07       144.59         6.90         0.72        83.31 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
      130.16        10.65         6.44        20.12       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A134 TCGA-C8-A135 
       11.93        11.77        11.77        12.66         0.69         0.62 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HN 
        3.75        12.33        10.92        11.34         0.16         3.25 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.23         0.36         8.28         0.03         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
        0.99         0.03         0.23        13.25        20.58        13.97 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE 
       21.14        19.20        14.17        18.71        18.15        18.90 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       14.01        18.97        20.09        20.38        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC 
       13.32        14.70        16.73        25.74        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL 
       17.16        15.22        14.73        21.83        14.50        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV 
       17.69         7.96        16.41        15.85         6.35        15.16 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E 
       12.66        15.32        15.52         3.81        14.24        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        13.08        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
       43.00        34.42        27.52        40.41        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R 
       28.44        28.87        47.15        40.96        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 
       33.17        43.33        34.26        31.96        28.60        25.41 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 
       23.24        19.43        21.04        23.87        14.79        25.05 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       22.82        17.29        18.21        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T 
       20.58         7.73        13.02        19.56        17.06        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       60.53        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       16.47        17.10        38.30        37.41        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       33.70        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A2P5 TCGA-E2-A2P6 
       39.62        19.66        18.87       102.61        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 
       15.72        30.61        19.89        19.00         9.21        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        13.48        12.00        39.55        12.59        35.77 
TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1RA TCGA-E9-A1RD 
       21.57        14.30         2.10         1.38        32.09         0.66 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22G 
       35.64        34.13         0.79        12.53        13.32        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 
       24.10        17.06         0.69         0.85         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
       24.56         0.72         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       15.72         0.23        14.70        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
        8.48        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 
       22.82        29.95        41.13        39.78        18.48        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
        7.86        19.99         6.15        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 
       19.96        22.09        21.27        17.49         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
       59.57       194.27        53.52        43.04        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       61.91        62.33        90.84        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 
      110.50        38.20        43.73        69.30        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       13.55        18.12        11.84        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        8.75         9.53        10.95         7.59        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Y 
       14.70        14.47        14.79        11.57         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        4.50         4.50         6.21         7.36        27.91         2.10 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW 
       46.55        31.99        58.62        27.65        34.92        36.36 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       16.87        24.72        20.38        26.70        23.47        65.62 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX 
       33.57        31.07         7.23        28.21        19.73         0.16 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 
        0.26         3.95        16.50         6.81        10.59         7.92 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 
        5.56         8.52         7.17         6.87         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                     162.05                      234.28 
  DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE 
                     20.845                      23.610 
[1] "0.1 - 162.1 (20.8)" "0.0 - 234.3 (23.6)"
[1] "hr=" "2"  
D45V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 16(9P23) MUTATED        21       17        1        0        97
  DEL PEAK 16(9P23) WILD-TYPE      62       63        8        5       245
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 16(9P23) MUTATED          67         1         57         16
  DEL PEAK 16(9P23) WILD-TYPE       167         1         85         13
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 16(9P23) MUTATED           19       10         0       5
  DEL PEAK 16(9P23) WILD-TYPE         44        8         1      11
D45V3, multiclass
            clus
vv           DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  STAGE I                           21                          62
  STAGE IA                          17                          63
  STAGE IB                           1                           8
  STAGE II                           0                           5
  STAGE IIA                         97                         245
  STAGE IIB                         67                         167
  STAGE III                          1                           1
  STAGE IIIA                        57                          85
  STAGE IIIB                        16                          13
  STAGE IIIC                        19                          44
  STAGE IV                          10                           8
  STAGE TIS                          0                           1
  STAGE X                            5                          11
[1] 13  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(9P23) MUTATED    58 200  34  19
  DEL PEAK 16(9P23) WILD-TYPE 207 394  90  20
D45V4, multiclass
    clus
vv   DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  T1                        58                         207
  T2                       200                         394
  T3                        34                          90
  T4                        19                          20
[1] 4 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  N3
  DEL PEAK 16(9P23) MUTATED   131  99  52  24
  DEL PEAK 16(9P23) WILD-TYPE 350 240  61  50
D45V5, multiclass
    clus
vv   DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  N0                       131                         350
  N1                        99                         240
  N2                        52                          61
  N3                        24                          50
[1] 4 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                          CM0 (I+)  M0  M1  MX
  DEL PEAK 16(9P23) MUTATED          2 264  11  34
  DEL PEAK 16(9P23) WILD-TYPE        3 590   8 113
D45V6, multiclass
          clus
vv         DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  CM0 (I+)                         2                           3
  M0                             264                         590
  M1                              11                           8
  MX                              34                         113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V7, binary
                             cls
clus                            0   1
  DEL PEAK 16(9P23) MUTATED   305   6
  DEL PEAK 16(9P23) WILD-TYPE 709   5
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 16(9P23) MUTATED    305    6
  DEL PEAK 16(9P23) WILD-TYPE  709    5
        clus
vv       DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  FEMALE                       305                         709
  MALE                           6                           5
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 16(9P23) MUTATED                            0
  DEL PEAK 16(9P23) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 16(9P23) MUTATED                             263
  DEL PEAK 16(9P23) WILD-TYPE                           491
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 16(9P23) MUTATED                               20
  DEL PEAK 16(9P23) WILD-TYPE                            155
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 16(9P23) MUTATED                     3
  DEL PEAK 16(9P23) WILD-TYPE                   3
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 16(9P23) MUTATED                                  9
  DEL PEAK 16(9P23) WILD-TYPE                               20
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 16(9P23) MUTATED                    5             11
  DEL PEAK 16(9P23) WILD-TYPE                 10             33
D45V8, multiclass
                                  clus
vv                                 DEL PEAK 16(9P23) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          263
  INFILTRATING LOBULAR CARCINOMA                          20
  MEDULLARY CARCINOMA                                      3
  MIXED HISTOLOGY (PLEASE SPECIFY)                         9
  MUCINOUS CARCINOMA                                       5
  OTHER  SPECIFY                                          11
                                  clus
vv                                 DEL PEAK 16(9P23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            491
  INFILTRATING LOBULAR CARCINOMA                           155
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          20
  MUCINOUS CARCINOMA                                        10
  OTHER  SPECIFY                                            33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V9, binary
                             cls
clus                            0   1
  DEL PEAK 16(9P23) MUTATED    90 221
  DEL PEAK 16(9P23) WILD-TYPE 192 522
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 16(9P23) MUTATED     90  221
  DEL PEAK 16(9P23) WILD-TYPE  192  522
     clus
vv    DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  NO                         90                         192
  YES                       221                         522
[1] 2 2
[1] FALSE
D45V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 16(9P23) MUTATED                                  0    21
  DEL PEAK 16(9P23) WILD-TYPE                                1    35
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(9P23) MUTATED                          46   204
  DEL PEAK 16(9P23) WILD-TYPE                       112   513
D45V11, multiclass
                                  clus
vv                                 DEL PEAK 16(9P23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   21
  BLACK OR AFRICAN AMERICAN                               46
  WHITE                                                  204
                                  clus
vv                                 DEL PEAK 16(9P23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     35
  BLACK OR AFRICAN AMERICAN                                112
  WHITE                                                    513
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V12, binary
                             cls
clus                            0   1
  DEL PEAK 16(9P23) MUTATED    10 246
  DEL PEAK 16(9P23) WILD-TYPE  26 580
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 16(9P23) MUTATED     10  246
  DEL PEAK 16(9P23) WILD-TYPE   26  580
                        clus
vv                       DEL PEAK 16(9P23) MUTATED DEL PEAK 16(9P23) WILD-TYPE
  HISPANIC OR LATINO                            10                          26
  NOT HISPANIC OR LATINO                       246                         580
[1] 2 2
[1] FALSE

Clustering(46) Variable = DEL PEAK 17(9P21.3) MUTATION ANALYSIS
D46V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 17(9P21.3) MUTATED   295  44
  DEL PEAK 17(9P21.3) WILD-TYPE 591  75
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                          339                           666 
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                           44                            75 
$`DEL PEAK 17(9P21.3) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T 
       48.10        13.68        28.01        18.02        41.95        73.84 
TCGA-A2-A0CT TCGA-A2-A0D0 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ET 
       75.25        21.14        80.28        79.76        74.40        35.05 
TCGA-A2-A0EU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YF 
       34.29        27.12        44.88        17.52        18.21        15.42 
TCGA-A2-A0YG TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B 
       21.90        23.77        17.36        36.79        19.20        16.31 
TCGA-A2-A25E TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4S1 
       91.92        32.75        38.40        34.98        38.37        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F 
       21.90        30.61        37.45        35.67        31.73        12.72 
TCGA-A7-A26G TCGA-A7-A2KD TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZV 
       23.74        22.32        14.93        13.74        17.92        12.10 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X 
        8.75        13.02         1.02        17.98        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G 
       26.01         1.02        17.03        53.98         9.01        18.97 
TCGA-A8-A07L TCGA-A8-A07W TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
       17.03         9.99        33.01        19.96        12.00        37.05 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A097 
       31.00        31.00         0.99        33.01        40.01        12.00 
TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
        9.99         9.99        12.00         1.02        49.05        45.07 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
       33.07         1.02        25.02         8.98        19.04         0.99 
TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A2BM 
       19.04        21.04         0.99        13.02        17.03        38.20 
TCGA-AC-A2FF TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A62V TCGA-AC-A6IW 
       55.43         1.02         0.92         2.27         0.07         0.69 
TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04A 
        1.74         0.33         0.33         0.23         0.62         2.96 
TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AT 
        1.78         8.02         7.36         6.51         0.16         0.33 
TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XN 
        6.44         7.96         0.33         0.36         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N 
       12.33         0.33         5.33         5.59        80.28        66.77 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JA 
       29.13        21.40        52.18        24.16        37.48        21.53 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       72.00        76.77        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TQ 
       24.79       130.09         5.65        15.62        32.91        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ 
        5.26        74.79        29.75        98.93        55.86        76.14 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
      101.95        83.87       114.02        85.97        75.55        61.84 
TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24R 
       39.98        63.62        50.89        78.51       101.52        87.22 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 
       85.35        50.96        79.00        78.48        73.18        58.92 
TCGA-AR-A2LK TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IO 
       42.87        12.13       129.57       176.98        18.77       110.14 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A401 
      162.05       102.77        79.63        17.98       113.79        85.35 
TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B4 
       49.94        24.53        20.45        28.50        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP 
       48.36        56.98        25.71        24.85        44.05        48.69 
TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DI 
       53.69        49.94        11.67        48.13        42.90        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0GY 
       13.91        48.23         3.22         9.63        24.49        30.35 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18K 
       23.08        41.00        52.96        50.79        23.93        90.84 
TCGA-BH-A18L TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES 
       26.66         7.36        51.39        51.16        69.93       113.82 
TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FM TCGA-BH-A1FU TCGA-BH-A208 
       17.69        31.53        24.66        45.63        72.07        57.83 
TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P 
      130.16         0.99        11.93        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 
        0.07        12.66        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V 
        1.45         3.85        11.34        10.42         2.30         0.30 
TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A143 
        0.43         9.67         0.99        11.90        20.88        14.17 
TCGA-D8-A145 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF 
       13.48        17.49        18.71        15.78        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1X5 
       12.03        18.97        20.09        20.12        19.40        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XQ TCGA-D8-A1XS 
       17.79        23.90        27.58        17.16        16.41        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H 
        6.35        12.99        16.54        14.14        16.04        13.05 
TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A14O 
        4.80        10.09        12.26        46.59        40.41        44.68 
TCGA-E2-A14P TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A15A 
       40.96        33.30        32.02        17.03        27.12        23.34 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1IO TCGA-E2-A1LA 
       20.71        21.63        12.92        14.07        20.98        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A56Z 
       40.47        28.90       106.75         8.75        43.04         7.20 
TCGA-E2-A573 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1NI 
       34.92        13.12        36.56        39.55        20.05         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB 
       11.90         0.62         6.12         2.76        21.21        20.81 
TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22A 
       40.24        34.65         6.58        21.27        34.59        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A247 TCGA-E9-A3QA TCGA-E9-A54X 
       22.75        12.89        23.51        27.22         0.62        12.33 
TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1P3 
       13.81        14.40        28.77        25.94        29.85        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A2FR 
       29.82        23.11         7.86        18.90        13.94        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DB 
       52.73        25.91        10.16        10.59       109.87        53.13 
TCGA-JL-A3YX TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A441 TCGA-LL-A6FQ TCGA-LL-A73Y 
       11.57         4.08         8.75        11.44         2.63         4.14 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5RZ TCGA-OL-A66H 
        5.59         3.22         2.79        12.66        22.32        26.70 
TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZH 
       26.04        14.07         8.65 

$`DEL PEAK 17(9P21.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        31.79         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
      104.81        82.16        22.06        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       36.13       136.73        64.57        24.79       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
       88.60       107.93        75.55         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       56.81        34.55        33.76        28.77        25.22       101.72 
TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       89.36       107.61        37.05        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       24.16        99.19        54.64        50.43        44.28        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
        8.38        18.71        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       32.55        25.28        21.67        14.50        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       48.46        31.73        23.47        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F 
       16.47        52.47       107.70        17.19        18.15        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW 
       20.88        39.65        33.93        83.01        29.98        49.48 
TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       31.99         7.30        24.39        21.30        23.21        21.14 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13E 
       38.30        35.31        34.29        35.47        33.11        10.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        31.36        24.26        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF 
       20.61        11.34        10.59        10.29        11.28        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZW 
       14.70        11.97        14.50        21.17        14.73        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06P TCGA-A8-A06T 
       11.05        10.29         9.37        10.42        13.02        53.06 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O 
       43.00        19.99        18.97        14.01        12.00         9.99 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
       10.98         8.98         7.99        24.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
       15.06        36.95        13.02         0.99        38.01        28.96 
TCGA-A8-A08L TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
        9.99        93.04        43.00        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 
       41.98        50.04        29.98        15.02        14.01        12.00 
TCGA-A8-A0A4 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H 
       13.02        38.04         0.95         2.37        10.85         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM 
        1.48        38.53        40.57        36.99        38.79        26.04 
TCGA-AC-A2FO TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
       50.70         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
       16.57        19.79        23.24        24.79         1.55         1.12 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR 
        1.81         1.18         0.43         1.68         1.12         1.32 
TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FK 
        0.33         1.71         0.33         0.33         4.64         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FX TCGA-AN-A0FY 
        7.59         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03M 
        0.33         0.30         0.33         0.33         0.33        47.84 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 
       81.63        84.69        68.75        47.87        59.05        32.78 
TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF 
       20.32        22.36        53.03        50.70        50.86        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       26.24        50.24        62.04        55.33        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AQ-A04J TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP 
       82.62        26.93        32.52         2.56         9.99       111.32 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       86.66        64.83        65.36        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS 
       62.56        43.73        43.56        43.07        17.23        37.81 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L 
       76.21        61.28        62.14        20.22       109.58        73.02 
TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X 
       96.89        84.20         0.85        76.01        53.36        83.77 
TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       56.15        72.76        93.83       128.65        20.25        62.86 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
      149.59       220.90        50.70        65.72       146.50       112.37 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG 
      126.12        84.59       110.93       140.88       211.56        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RQ 
      189.01       234.28        81.17        78.02       172.96       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      100.70        89.46       131.21       157.41        97.48       188.68 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 
       21.47       129.57       129.70       186.48        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU 
       58.88        43.59       101.52        73.51       139.17       170.17 
TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B0 
       54.28       103.63        55.00        38.79        25.55        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       40.83        56.94        51.68        37.22        32.02        18.21 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT 
       21.70        61.68        35.67        27.19        53.95        45.57 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       49.05        41.75        44.02        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       38.01        17.26        15.65         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
       47.41        16.27         4.41        15.68        14.30        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 
       46.19        32.65        31.00        24.43        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       37.78        35.51        24.56        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        2.50        13.61        36.85        12.89        51.32        27.25 
TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
        5.59        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        2.01         7.23        20.12        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU 
       55.63        37.55        66.05        91.99        82.85        42.28 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 
       12.00        55.69        49.58        25.81        89.16        97.48 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
      120.62       114.15        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00        72.07       144.59         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       38.60        83.31        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 
        8.94        11.77        12.66         0.69         0.62         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HN 
       12.33        10.92        11.34         0.16        12.03         3.25 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.23         0.36         8.28         0.03         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
       12.20         0.03         0.23        13.25        20.58        13.97 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JH 
       21.14        19.20        14.17        16.50        18.15        14.01 
TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.09        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG 
       16.73        25.74        18.15         2.66        15.22        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       21.83        14.50        19.92        17.69         7.96        15.85 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.16        12.66        15.32        15.52         3.81        14.24 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       17.42        13.45        14.43         9.44        16.41        13.48 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        13.08        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       43.00        34.42        27.52        37.51        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U 
       28.87        47.15        38.24        38.60        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 
       34.26        31.96        28.60        25.41        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        25.05        22.82        17.29 
TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       13.02        19.56        17.06        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       53.03        29.95        32.35        28.50        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ 
       38.30        37.41        32.78        33.73        33.70        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       22.65         3.88        22.19        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A2P5 TCGA-E2-A2P6 
       39.62        19.66        18.87       102.61        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 
       15.72        30.61        19.89        19.00         9.21        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       36.82        13.48        12.00        12.59        35.77        21.57 
TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RI 
       14.30         2.10         1.38        32.09         0.66        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A243 
       34.13         0.79        12.53        13.32        24.10        17.06 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.69         0.85         1.94         0.95        24.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y 
       17.75         0.76        26.07        18.41        15.72         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
       14.70         0.26        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OW 
       18.21        18.90        13.25        16.57        15.68        22.82 
TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 
       29.95        40.41        41.13        39.78        18.48        30.08 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
       19.99         6.15        10.52        14.43        34.55        19.96 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        17.49         7.40        59.57       194.27 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       53.52        43.04        42.71        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       43.73        69.30        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       11.84        21.24         6.67         4.60         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
        7.59        17.06        15.32        14.70        14.47        14.79 
TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 
       11.57         3.88         4.50         4.50         6.21         7.36 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
       27.91         2.10        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66I 
       34.92        36.36        16.87        24.72        20.38        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ 
       65.62        33.57        31.07         7.23        28.21        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG 
        0.23         0.16         0.26         3.95        16.50         6.81 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
       10.59         7.92         5.56         8.52         7.17         6.87 
TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        3.91         5.29         9.60         9.14       100.01       105.04 

  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                       176.98                        234.28 
  DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE 
                       21.210                        23.455 
[1] "0.1 - 177.0 (21.2)" "0.0 - 234.3 (23.5)"
[1] "hr=" "1.5"
D46V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 17(9P21.3) MUTATED        23       22        2        0       111
  DEL PEAK 17(9P21.3) WILD-TYPE      60       58        7        5       231
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 17(9P21.3) MUTATED          72         1         59         17
  DEL PEAK 17(9P21.3) WILD-TYPE       162         1         83         12
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 17(9P21.3) MUTATED           23       10         0       6
  DEL PEAK 17(9P21.3) WILD-TYPE         40        8         1      10
D46V3, multiclass
            clus
vv           DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  STAGE I                             23                            60
  STAGE IA                            22                            58
  STAGE IB                             2                             7
  STAGE II                             0                             5
  STAGE IIA                          111                           231
  STAGE IIB                           72                           162
  STAGE III                            1                             1
  STAGE IIIA                          59                            83
  STAGE IIIB                          17                            12
  STAGE IIIC                          23                            40
  STAGE IV                            10                             8
  STAGE TIS                            0                             1
  STAGE X                              6                            10
[1] 13  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(9P21.3) MUTATED    70 219  37  20
  DEL PEAK 17(9P21.3) WILD-TYPE 195 375  87  19
D46V4, multiclass
    clus
vv   DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  T1                          70                           195
  T2                         219                           375
  T3                          37                            87
  T4                          20                            19
[1] 4 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  N3
  DEL PEAK 17(9P21.3) MUTATED   154 104  54  30
  DEL PEAK 17(9P21.3) WILD-TYPE 327 235  59  44
D46V5, multiclass
    clus
vv   DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  N0                         154                           327
  N1                         104                           235
  N2                          54                            59
  N3                          30                            44
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK 17(9P21.3) MUTATED          1 293  11  41
  DEL PEAK 17(9P21.3) WILD-TYPE        4 561   8 106
D46V6, multiclass
          clus
vv         DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  CM0 (I+)                           1                             4
  M0                               293                           561
  M1                                11                             8
  MX                                41                           106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V7, binary
                               cls
clus                              0   1
  DEL PEAK 17(9P21.3) MUTATED   339   7
  DEL PEAK 17(9P21.3) WILD-TYPE 675   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 17(9P21.3) MUTATED    339    7
  DEL PEAK 17(9P21.3) WILD-TYPE  675    4
        clus
vv       DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  FEMALE                         339                           675
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 17(9P21.3) MUTATED                            1
  DEL PEAK 17(9P21.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 17(9P21.3) MUTATED                             295
  DEL PEAK 17(9P21.3) WILD-TYPE                           459
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 17(9P21.3) MUTATED                               19
  DEL PEAK 17(9P21.3) WILD-TYPE                            156
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 17(9P21.3) MUTATED                     4
  DEL PEAK 17(9P21.3) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 17(9P21.3) MUTATED                                 11
  DEL PEAK 17(9P21.3) WILD-TYPE                               18
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 17(9P21.3) MUTATED                    5             11
  DEL PEAK 17(9P21.3) WILD-TYPE                 10             33
D46V8, multiclass
                                  clus
vv                                 DEL PEAK 17(9P21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            295
  INFILTRATING LOBULAR CARCINOMA                            19
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                          11
  MUCINOUS CARCINOMA                                         5
  OTHER  SPECIFY                                            11
                                  clus
vv                                 DEL PEAK 17(9P21.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              459
  INFILTRATING LOBULAR CARCINOMA                             156
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            18
  MUCINOUS CARCINOMA                                          10
  OTHER  SPECIFY                                              33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V9, binary
                               cls
clus                              0   1
  DEL PEAK 17(9P21.3) MUTATED   101 245
  DEL PEAK 17(9P21.3) WILD-TYPE 181 498
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 17(9P21.3) MUTATED    101  245
  DEL PEAK 17(9P21.3) WILD-TYPE  181  498
     clus
vv    DEL PEAK 17(9P21.3) MUTATED DEL PEAK 17(9P21.3) WILD-TYPE
  NO                          101                           181
  YES                         245                           498
[1] 2 2
[1] FALSE
D46V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 17(9P21.3) MUTATED                                  0    24
  DEL PEAK 17(9P21.3) WILD-TYPE                                1    32
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(9P21.3) MUTATED                          53   223
  DEL PEAK 17(9P21.3) WILD-TYPE                       105   494
D46V11, multiclass
                                  clus
vv                                 DEL PEAK 17(9P21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     24
  BLACK OR AFRICAN AMERICAN                                 53
  WHITE                                                    223
                                  clus
vv                                 DEL PEAK 17(9P21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       32
  BLACK OR AFRICAN AMERICAN                                  105
  WHITE                                                      494
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V12, binary
                               cls
clus                              0   1
  DEL PEAK 17(9P21.3) MUTATED    11 270
  DEL PEAK 17(9P21.3) WILD-TYPE  25 556
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 17(9P21.3) MUTATED     11  270
  DEL PEAK 17(9P21.3) WILD-TYPE   25  556
                        clus
vv                       DEL PEAK 17(9P21.3) MUTATED
  HISPANIC OR LATINO                              11
  NOT HISPANIC OR LATINO                         270
                        clus
vv                       DEL PEAK 17(9P21.3) WILD-TYPE
  HISPANIC OR LATINO                                25
  NOT HISPANIC OR LATINO                           556
[1] 2 2
[1] FALSE

Clustering(47) Variable = DEL PEAK 18(9Q21.11) MUTATION ANALYSIS
D47V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 18(9Q21.11) MUTATED   246  37
  DEL PEAK 18(9Q21.11) WILD-TYPE 640  82
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                           283                            722 
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                            37                             82 
$`DEL PEAK 18(9Q21.11) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04Y 
       13.68         7.96        28.01        73.84        64.04        36.13 
TCGA-A2-A0CL TCGA-A2-A0CT TCGA-A2-A0D0 TCGA-A2-A0EO TCGA-A2-A0ET TCGA-A2-A0EU 
       64.57        75.25        21.14        80.28        35.05        34.29 
TCGA-A2-A0EY TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YT 
       24.16        50.43        17.13        18.21        21.67        23.77 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XX TCGA-A2-A3XY 
       17.36        36.79        19.20        33.93        38.40        34.98 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F 
       21.90        35.31        37.45        35.67        31.73        12.72 
TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06Q 
       13.74        14.50        17.92        10.29        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
       17.98        53.06        31.00        26.01         1.02        17.03 
TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A08F 
        9.01        18.97        10.98         8.98         9.99        33.01 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       12.00        37.05        31.00        31.00         0.99        33.01 
TCGA-A8-A08X TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09Q 
       43.00        12.00         1.02        45.07        33.07        25.02 
TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
       19.04        19.04        21.04         0.99        13.02        17.03 
TCGA-AC-A2BM TCGA-AC-A2FF TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A62V 
       38.20        55.43         1.02         0.92         2.27         0.07 
TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.12         0.69         1.12         0.33         0.33         0.23 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FJ TCGA-AN-A0FT 
        2.96         1.78         7.36         0.16         7.96         6.02 
TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AN-A0XU 
        0.36         0.33         0.33        12.33         0.33         0.33 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       80.28        66.77        81.63        21.40        52.18        24.16 
TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A12F TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
       72.00        55.33        48.36        61.87        70.39         0.53 
TCGA-AO-A1KT TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP 
       17.79         5.65        15.62         2.56        32.91       111.32 
TCGA-AR-A0TS TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI 
       74.79        55.86        65.36       114.02        75.55        61.84 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24N 
       39.98        43.07        63.62        20.22        50.89        78.51 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A2LR 
       85.35        79.00        73.18        58.92        42.87        20.38 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
       12.13       129.57       110.14       110.93       140.88       211.56 
TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WY 
       81.17       162.05       102.77       100.70       131.21       113.79 
TCGA-B6-A1KC TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0B3 
       43.59        85.35        54.28        49.94        24.53        39.55 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BP 
       48.36        56.98        51.68        25.71        44.05        48.69 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0GY 
       45.57        49.94        48.13         9.63        24.49        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0W3 TCGA-BH-A18K 
       10.78        23.08        41.00        52.96        23.93        90.84 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EV 
       55.63         7.36        51.39        51.16       113.82        12.00 
TCGA-BH-A1F8 TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU 
       24.66        33.17        74.73        45.63        72.07        72.07 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P 
       57.83       130.16         0.99        11.93        12.66        11.77 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A138 TCGA-C8-A1HN 
       12.66        12.66         3.12         1.78         3.75         3.25 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-D8-A13Z TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A1J9 
        0.36         8.28        20.88        14.17        13.48        17.49 
TCGA-D8-A1JC TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1X5 TCGA-D8-A1X6 
       15.78        18.97        20.09        20.12        18.58        17.79 
TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XS TCGA-D8-A1XY TCGA-D8-A1Y3 
       27.58        17.16        14.50        16.31        16.54        14.14 
TCGA-D8-A27F TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A14O 
       16.04        10.09        12.26        46.59        40.41        44.68 
TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A154 
       40.96        38.60        32.02        31.96        17.03        19.43 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A1AZ TCGA-E2-A1II 
       25.05        23.34        20.71        21.63        60.53        33.70 
TCGA-E2-A1IO TCGA-E2-A1LB TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A56Z TCGA-E2-A573 
       20.98        40.47       102.61         8.75         7.20        34.92 
TCGA-E9-A1N4 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ 
       19.20        13.12        36.56        20.05         9.86        11.90 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH 
        2.76        21.21        20.81        40.24        21.27        34.59 
TCGA-E9-A22B TCGA-E9-A243 TCGA-E9-A295 TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1J6 
       22.75        17.06         0.72        13.81        14.40        28.77 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P8 
       25.94        22.82        29.85        52.96        23.11         7.86 
TCGA-EW-A1PA TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 
       18.90        19.96        55.00        52.73        25.91        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF 
       17.49        10.16        10.59       109.87        53.13        42.71 
TCGA-GM-A2DH TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP 
       42.28        72.03        11.57        11.44        15.32        14.79 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5D6 TCGA-OL-A5RW 
        2.63         3.88         5.59         3.22        12.66        36.36 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZF TCGA-S3-A6ZH 
       22.32        20.38        26.04        14.07        16.50         8.65 
TCGA-S3-AA14 
        7.17 

$`DEL PEAK 18(9Q21.11) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       47.24        20.88        31.79        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V 
      104.81        18.02        41.95        82.16        22.06        63.12 
TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       55.43       136.73        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX 
      107.93        75.55         5.19        63.45        64.04        56.81 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       34.55        33.76        28.77        25.22       101.72        89.36 
TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW 
      107.61        79.76        74.40        37.05        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY 
       24.72        99.19        54.64        27.12        44.88        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       17.52         8.38        18.71        20.52        17.46        18.90 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI 
       20.75        32.55        25.28        15.42        21.90        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ 
       18.61        19.33        48.46        31.73        23.47        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B 
       20.25        19.56        16.47        52.47       107.70        16.31 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A3Y0 
       83.01        29.98        32.75        49.48        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30        24.39        21.30        23.21        26.96        21.14 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13E 
       38.30        34.29        35.47        30.61        33.11        10.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SE 
       11.28        13.41        14.70        11.97        14.93        21.17 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX 
       14.73        12.10        10.72        11.05         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06U TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E 
        8.75        13.02        29.03        53.98        43.00        19.99 
TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07S 
       18.97        14.01        12.00        17.03         9.99         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 
       24.99        28.04        18.05        15.06        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08L TCGA-A8-A08T 
        0.99        38.01        28.96        19.96         9.99        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       40.01        33.01        30.97        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N 
        9.99         9.99        50.04        49.05        29.98         1.02 
TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 
        8.98        15.02         0.99        14.01        12.00        13.02 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
       38.04         0.95         2.37        10.85         2.66         1.48 
TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       38.53        40.57        36.99        38.79        26.04        50.70 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        0.99         0.69        14.83        22.19         1.12        16.57 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV 
       19.79        23.24        24.79         1.55         1.81         1.18 
TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A049 
        0.43         1.68         1.74         1.32         0.33         0.62 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        1.71         8.02         6.51         0.33         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.00         7.59         7.17         6.28 
TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33         0.33         0.30         0.33 
TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03R 
        0.33         5.33         5.59        47.84        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J6 TCGA-AO-A0J7 
       47.87        59.05        29.13        32.78        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE 
       22.36        53.03        21.53        50.70        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 
       21.37        26.24        50.24        62.04        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       64.04        57.30        41.62        28.37        14.73        82.62 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ 
       24.79        26.93       130.09        32.52         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ 
        5.26        86.66        29.75        98.93        64.83        76.14 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
      101.95        83.87        85.97        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       62.56        43.73        43.56        17.23        37.81        76.21 
TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O 
       61.28        62.14       109.58        73.02        96.89        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
        0.85       101.52        87.22        76.01        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE 
       83.77        56.15        78.48        72.76        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       20.25        62.86         7.36        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       40.54        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      143.38       149.59       220.90        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0RG 
      112.37       176.98        18.77       126.12        84.59        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RT 
      189.01       234.28        78.02       172.96       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX 
      157.41        97.48       188.68        79.63        17.98        21.47 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
      129.57       129.70       186.48        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A40B TCGA-B6-A40C 
      101.52        73.51       139.17       170.17       103.63        55.00 
TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       38.79        20.45        25.55        28.50        46.95        40.83 
TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG 
       39.16        56.94        37.22        32.02        18.21        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       21.70        61.68        35.67        27.19        53.69        53.95 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD 
       11.67        49.05        41.75        44.02        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       31.17        23.44        38.01        22.13        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       17.26        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 
       47.41        16.27         4.41        15.68        14.30        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H3 
       46.19        32.65        31.00        24.43        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       35.51        24.56        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY 
       13.61        36.85        12.89        51.32        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
        5.59        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
        2.01         7.23        20.12        26.66        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET 
       30.28        37.55        66.05        69.93        91.99        82.85 
TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
       42.28        55.69        49.58        17.69        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FG TCGA-BH-A1FH 
       89.16        97.48       120.62       114.15       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       63.35        55.00       144.59         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
       83.31        10.65         6.44        20.12       109.28         8.94 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A132 
       11.77        11.77         0.07        12.66        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.69         0.62         3.85        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V 
       11.34         0.16        12.03        10.42         2.30         0.30 
TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.23         0.43         9.67         0.03         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 
       12.20         0.99         0.03         0.23        11.90        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA 
       20.58        13.97        21.14        19.20        14.17        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       18.71        18.15        18.90        12.03        12.03        14.01 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.09        19.40        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC 
       14.70        16.73        25.74        23.90        18.15         2.66 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       15.22        14.73        21.83        19.92        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
       16.41        15.85         6.35        12.99        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G 
       15.32        15.52         3.81        14.24        17.42        13.45 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N 
       13.05        14.43         9.44        16.41        13.48         4.80 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        13.08        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       43.00        34.42        27.52        37.51        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       28.87        47.15        38.24        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 
       34.26        28.60        25.41        27.12        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15H 
       23.87        14.79        22.82        17.29        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       17.42        19.40         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 
       19.56        17.06        14.07        14.99        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       37.41        32.78        33.73        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 
       22.19        11.08        54.18        27.42        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E2-A2P5 
       24.59        28.90        18.87       106.75        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
        5.52        15.72        30.61        19.89        19.00         9.21 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        13.48        12.00        39.55        12.59        35.77 
TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       21.57        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A226 
       32.09         0.66        34.65         6.58        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G 
        0.79        12.53        13.32        39.09        12.89        23.51 
TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       24.10         0.69         0.85        27.22         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
       24.56        17.75         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE 
       15.72        12.33         0.23        14.70         0.26        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       12.20        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       16.57        15.68        29.95        40.41        41.13        39.78 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       29.82        18.48        30.08        19.99         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FW TCGA-GI-A2C8 TCGA-GM-A2D9 
       10.52        14.43        34.55        22.09         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
      194.27        53.52        43.04        61.91        62.33        90.84 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        43.73 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       69.30        66.38        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 
        6.67         4.08         4.60         8.75         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Y 
        7.59        17.06        14.70        14.47        11.57         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         4.50         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       16.87        24.72        26.70        23.47        65.62        33.57 
TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX 
       31.07         7.23        28.21        19.73         0.23         0.16 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 
        0.26         3.95         6.81        10.59         7.92         5.56 
TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A 
        8.52         6.87         3.91         5.29         9.60         9.14 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE 
                         22.75                          22.34 
[1] "0.1 - 211.6 (22.8)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.2"
D47V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 18(9Q21.11) MUTATED        24       16        1        0       101
  DEL PEAK 18(9Q21.11) WILD-TYPE      59       64        8        5       241
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 18(9Q21.11) MUTATED          57         1         43         12
  DEL PEAK 18(9Q21.11) WILD-TYPE       177         1         99         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 18(9Q21.11) MUTATED           20        8         0       4
  DEL PEAK 18(9Q21.11) WILD-TYPE         43       10         1      12
D47V3, multiclass
            clus
vv           DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  STAGE I                              24                             59
  STAGE IA                             16                             64
  STAGE IB                              1                              8
  STAGE II                              0                              5
  STAGE IIA                           101                            241
  STAGE IIB                            57                            177
  STAGE III                             1                              1
  STAGE IIIA                           43                             99
  STAGE IIIB                           12                             17
  STAGE IIIC                           20                             43
  STAGE IV                              8                             10
  STAGE TIS                             0                              1
  STAGE X                               4                             12
[1] 13  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(9Q21.11) MUTATED    61 176  33  16
  DEL PEAK 18(9Q21.11) WILD-TYPE 204 418  91  23
D47V4, multiclass
    clus
vv   DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  T1                           61                            204
  T2                          176                            418
  T3                           33                             91
  T4                           16                             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                              N0  N1  N2  N3
  DEL PEAK 18(9Q21.11) MUTATED   137  85  38  24
  DEL PEAK 18(9Q21.11) WILD-TYPE 344 254  75  50
D47V5, multiclass
    clus
vv   DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  N0                          137                            344
  N1                           85                            254
  N2                           38                             75
  N3                           24                             50
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 18(9Q21.11) MUTATED          1 239   8  39
  DEL PEAK 18(9Q21.11) WILD-TYPE        4 615  11 108
D47V6, multiclass
          clus
vv         DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                239                            615
  M1                                  8                             11
  MX                                 39                            108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V7, binary
                                cls
clus                               0   1
  DEL PEAK 18(9Q21.11) MUTATED   281   6
  DEL PEAK 18(9Q21.11) WILD-TYPE 733   5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(9Q21.11) MUTATED    281    6
  DEL PEAK 18(9Q21.11) WILD-TYPE  733    5
        clus
vv       DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  FEMALE                          281                            733
  MALE                              6                              5
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 18(9Q21.11) MUTATED                            0
  DEL PEAK 18(9Q21.11) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 18(9Q21.11) MUTATED                             242
  DEL PEAK 18(9Q21.11) WILD-TYPE                           512
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 18(9Q21.11) MUTATED                               20
  DEL PEAK 18(9Q21.11) WILD-TYPE                            155
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 18(9Q21.11) MUTATED                     2
  DEL PEAK 18(9Q21.11) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 18(9Q21.11) MUTATED                                 10
  DEL PEAK 18(9Q21.11) WILD-TYPE                               19
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 18(9Q21.11) MUTATED                    3             10
  DEL PEAK 18(9Q21.11) WILD-TYPE                 12             34
D47V8, multiclass
                                  clus
vv                                 DEL PEAK 18(9Q21.11) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             242
  INFILTRATING LOBULAR CARCINOMA                             20
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           10
  MUCINOUS CARCINOMA                                          3
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 18(9Q21.11) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               512
  INFILTRATING LOBULAR CARCINOMA                              155
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             19
  MUCINOUS CARCINOMA                                           12
  OTHER  SPECIFY                                               34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V9, binary
                                cls
clus                               0   1
  DEL PEAK 18(9Q21.11) MUTATED    91 196
  DEL PEAK 18(9Q21.11) WILD-TYPE 191 547
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(9Q21.11) MUTATED     91  196
  DEL PEAK 18(9Q21.11) WILD-TYPE  191  547
     clus
vv    DEL PEAK 18(9Q21.11) MUTATED DEL PEAK 18(9Q21.11) WILD-TYPE
  NO                            91                            191
  YES                          196                            547
[1] 2 2
[1] FALSE
D47V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 18(9Q21.11) MUTATED                                  1    15
  DEL PEAK 18(9Q21.11) WILD-TYPE                                0    41
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(9Q21.11) MUTATED                          53   183
  DEL PEAK 18(9Q21.11) WILD-TYPE                       105   534
D47V11, multiclass
                                  clus
vv                                 DEL PEAK 18(9Q21.11) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      15
  BLACK OR AFRICAN AMERICAN                                  53
  WHITE                                                     183
                                  clus
vv                                 DEL PEAK 18(9Q21.11) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        41
  BLACK OR AFRICAN AMERICAN                                   105
  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"
D47V12, binary
                                cls
clus                               0   1
  DEL PEAK 18(9Q21.11) MUTATED    13 221
  DEL PEAK 18(9Q21.11) WILD-TYPE  23 605
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(9Q21.11) MUTATED     13  221
  DEL PEAK 18(9Q21.11) WILD-TYPE   23  605
                        clus
vv                       DEL PEAK 18(9Q21.11) MUTATED
  HISPANIC OR LATINO                               13
  NOT HISPANIC OR LATINO                          221
                        clus
vv                       DEL PEAK 18(9Q21.11) WILD-TYPE
  HISPANIC OR LATINO                                 23
  NOT HISPANIC OR LATINO                            605
[1] 2 2
[1] FALSE

Clustering(48) Variable = DEL PEAK 19(9Q34.2) MUTATION ANALYSIS
D48V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 19(9Q34.2) MUTATED   251  30
  DEL PEAK 19(9Q34.2) WILD-TYPE 635  89
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                          281                           724 
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                           30                            89 
$`DEL PEAK 19(9Q34.2) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04R TCGA-A2-A04U 
       13.68         7.96        28.01        18.02        82.16        22.06 
TCGA-A2-A0CL TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0D1 TCGA-A2-A0EO TCGA-A2-A0ET 
       64.57        75.25         5.19        34.55        80.28        35.05 
TCGA-A2-A0EU TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YT 
       34.29        50.43        17.52        18.21        21.67        23.77 
TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3XY 
       36.79        19.20        33.93        83.01        38.40        34.98 
TCGA-A2-A3Y0 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA 
       38.37        21.90        35.31        30.61        37.45        35.67 
TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26I TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE 
       31.73        12.72        21.73        13.74        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06Q 
       17.92        10.29         9.37        10.42        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07G 
       53.06        31.00         1.02         9.01        43.00        18.97 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A08P 
        8.98        24.99        33.01        12.00        31.00        31.00 
TCGA-A8-A08R TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M 
        0.99        12.00         1.02        49.05        45.07        33.07 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A7 
        1.02        25.02        19.04        19.04        21.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FF TCGA-AC-A2QH 
       13.02        17.03        38.53        38.20        55.43         1.02 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A6IW TCGA-AC-A8OQ 
        0.92         2.27        16.57         0.07         0.69         1.12 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D 
        0.33         0.33         0.23         0.62         1.78         1.71 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FW 
        7.36         6.51         0.16         0.33         7.96         0.36 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03L 
        0.33         0.33         0.33         0.33         5.33        80.28 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 
       66.77        81.63        29.13        32.78        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A129 TCGA-AO-A12F TCGA-AO-A12G 
       37.48        72.00        55.33        96.10        48.36        41.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       61.87        70.39        17.79        26.93         5.65        15.62 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TY TCGA-AR-A0U0 
        2.56        32.91       111.32        74.79        55.86        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AP 
      101.95       114.02        85.97        75.55        61.84        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24N 
       43.07        63.62        20.22       109.58        50.89        78.51 
TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LL 
       85.35        78.48        73.18        93.83        42.87         7.36 
TCGA-B6-A0IB TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RO TCGA-B6-A0RP 
      129.57       110.14       140.88       211.56       162.05       102.77 
TCGA-B6-A0WX TCGA-B6-A1KC TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AU 
       21.47        43.59        85.35        54.28        49.94        24.53 
TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BG 
       39.55        48.36        56.98        51.68        25.71        24.85 
TCGA-BH-A0BL TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0E0 TCGA-BH-A0E6 
       44.05        45.57        49.94        48.13         4.41         9.63 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0W3 
       24.49        30.35        10.78        41.00        52.96        23.93 
TCGA-BH-A0WA TCGA-BH-A18K TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1EN 
       23.05        90.84        55.63        66.05         7.36        69.93 
TCGA-BH-A1ES TCGA-BH-A1F8 TCGA-BH-A1FD TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A208 
      113.82        24.66        33.17        45.63        72.07        57.83 
TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12W TCGA-C8-A12X 
      130.16         0.99        12.66        11.77        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HJ TCGA-C8-A26X 
        3.12         1.78         0.69         3.75         0.16         0.36 
TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A145 
        0.99        11.90        20.88        13.25        14.17        13.48 
TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JJ TCGA-D8-A1X5 
       19.20        17.49        15.78        12.03        20.09        18.58 
TCGA-D8-A1X6 TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XY 
       17.79        27.58        17.16        16.41        16.31        16.54 
TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 
       14.14        16.04        13.05        10.09        12.26        46.59 
TCGA-E2-A14O TCGA-E2-A14R TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 
       44.68        38.60        32.02        31.96        17.03        25.41 
TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15F TCGA-E2-A15S TCGA-E2-A1AZ 
       19.43        25.05        23.34        21.63        14.07        60.53 
TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A573 
       33.70        27.42       106.75       102.61         8.75        34.92 
TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R6 
       19.89        12.00        39.55         9.86        11.90         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22B TCGA-E9-A244 TCGA-E9-A3QA 
       21.21        21.27        34.59        22.75         0.69         0.62 
TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P3 
       14.40        28.77        25.94        22.82        29.85        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A2FR 
       29.82        23.11         7.86        13.94        19.96        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 
       52.73        25.91        17.49        10.16        10.59       109.87 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP 
       53.13        42.71        11.57        11.44        15.32        14.79 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5RW TCGA-OL-A5RZ 
        2.63         3.88         5.59         3.22        36.36        22.32 
TCGA-OL-A5S0 TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG TCGA-S3-A6ZH 
       20.38        26.04        14.07         6.81         8.65 

$`DEL PEAK 19(9Q34.2) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       47.24        20.88        31.79        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
      104.81        41.95        73.84        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 
      107.93        75.55        63.45        64.04        56.81        21.14 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP 
       33.76        28.77        25.22       101.72        89.36       107.61 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       79.76        74.40        37.05        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY 
       24.16        99.19        54.64        27.12        44.88        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       17.13         8.38        18.71        20.52        17.46        18.90 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI 
       20.75        32.55        25.28        15.42        21.90        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FW 
       18.61        19.33        48.46        31.73        23.47        17.36 
TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       22.45        20.25        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
       16.31        17.19        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW 
       39.65        29.98        32.75        49.48        31.99         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD 
       24.39        21.30        23.21        26.96        21.14        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H 
       34.29        35.47        33.11        10.72        23.61        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD 
       31.36        24.26        23.74        23.80        20.61        22.32 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       11.34        10.59        10.29        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       11.97        14.93        14.73        12.10        10.72        11.05 
TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A075 
        8.75        13.02        17.98        29.03        26.01        17.03 
TCGA-A8-A076 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       53.98        19.99        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
        9.99        10.98         7.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
       15.06        36.95        13.02         0.99        38.01        28.96 
TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X 
       19.96        37.05         9.99        33.01        93.04        43.00 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       40.01        33.01        30.97        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09V 
        9.99         9.99        50.04        29.98         8.98        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0AD TCGA-AC-A23C 
        0.99        14.01        12.00        13.02        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FG 
        2.37        10.85         2.66         1.48        40.57        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       38.79        26.04        50.70         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
       22.19         1.12        19.79        23.24        24.79         1.55 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP 
        1.12         1.81         1.18         0.43         1.68         1.74 
TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AR TCGA-AN-A0AS 
        1.32         0.33         2.96         8.02         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.00         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO 
        6.02         0.33         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03P 
        0.30         0.33         0.33         5.59        47.84        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 
       68.75        47.87        59.05        21.40        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.70        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       26.24        50.24        62.04        71.80       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
      108.72       106.78        90.58        77.56        64.04        57.30 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04L 
       28.37        14.73        82.62         0.53        24.79       130.09 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
       32.52         9.99        49.32         5.26        86.66        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A1AJ TCGA-AR-A1AK 
       98.93        64.83        76.14        83.87        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AR TCGA-AR-A1AS 
       48.82        62.56        43.73        43.56        17.23        37.81 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O 
       76.21        61.28        62.14        73.02        96.89        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
        0.85       101.52        87.22        76.01        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       83.77        79.00        56.15        72.76        58.92       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25        62.86        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59        12.13       220.90        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
      146.50       112.37       176.98        18.77       126.12        84.59 
TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      110.93        68.45       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      172.96       140.48       100.70        89.46       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ 
       97.48       188.68        79.63        17.98       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF 
      129.70       186.48        28.27        68.94        58.88       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
       73.51       139.17       170.17       103.63        55.00        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       20.45        25.55        28.50        46.95        40.83        39.16 
TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BM 
       56.94        37.22        32.02        18.21        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW 
       35.67        48.69        27.19        53.69        53.95        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.05        41.75        44.02        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       23.44        38.01        22.13        13.91        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       15.65         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       16.27        15.68        14.30        44.81        46.19        32.65 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       31.00        24.43        15.16        37.78        35.51        24.56 
TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       23.08        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
       36.85        12.89        51.32        27.25        50.79         5.59 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       24.95        42.35        44.81         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R 
       20.12        26.66        72.56        37.74        30.28        37.55 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
       51.39        51.16        91.99        82.85        42.28        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       55.69        49.58        17.69        25.81        31.53        89.16 
TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       97.48       120.62       114.15        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       38.60        83.31        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12U 
        8.94        11.93        11.77        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF 
       12.66         1.45         0.62         3.85        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34        11.34        12.03        10.42         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.30         0.23         0.43         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A141 
        0.03         0.03        12.20         0.03         0.23        20.58 
TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD 
       13.97        21.14        14.17        16.50        18.71        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL 
       18.90        12.03        14.01        18.97        20.12        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       19.40        20.38        21.01        12.20        13.32        14.70 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF 
       16.73        25.74        23.90        18.15         2.66        15.22 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       14.73        21.83        14.50        19.92        17.69         7.96 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ 
       15.85         6.35        12.99        15.16        12.66        15.32 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I 
       15.52         3.81        14.24        17.42        13.45        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
        9.44        16.41        13.48         4.80         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 
       12.53        14.50        18.51         7.33        43.00        34.42 
TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
       27.52        40.41        37.51        40.11        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       47.15        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       34.26        28.60        27.12        23.24        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       14.79        22.82        17.29        20.71        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       17.42        19.40         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       19.56        17.06        14.99        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       32.35        28.50        16.47        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       32.78        33.73        28.44        22.65         3.88        22.19 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA 
       20.98        11.08        54.18        39.62        19.66        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 
       40.47        28.90        18.87        43.04        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 
       15.72         7.20        30.61        19.00         9.21        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        13.48        13.12        36.56        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
       20.05        21.57        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        1.38        32.09        20.81        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
        6.58        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
       39.09        12.89        23.51        24.10        17.06         0.85 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
       27.22         1.94         0.95        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y 
        0.76        26.07        18.41        15.72        12.33         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70         0.26        13.81        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
        8.48        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 
       29.95        40.41        41.13        39.78        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       18.90        19.99         6.15        10.52        14.43        34.55 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC 
       22.09        21.27         7.40        59.57       194.27        53.52 
TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       43.04        42.28        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL 
       77.33        53.36       110.50        38.20        43.73        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.84        21.24 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 
        6.67         4.08         4.60         8.75         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Y 
        7.59        17.06        14.70        14.47        11.57         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         4.50         6.21         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       34.92        16.87        24.72        26.70        23.47        65.62 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV 
       33.57        31.07         7.23        28.21        19.73         0.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA10 
        0.16         0.26         3.95        16.50        10.59         7.92 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G 
        5.56         8.52         7.17         6.87         3.91         5.29 
TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.60         9.14       100.01       105.04 

  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE 
                        23.05                         22.19 
[1] "0.1 - 211.6 (23.1)" "0.0 - 234.3 (22.2)"
[1] "hr=" "1"  
D48V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 19(9Q34.2) MUTATED        23       16        0        1       106
  DEL PEAK 19(9Q34.2) WILD-TYPE      60       64        9        4       236
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 19(9Q34.2) MUTATED          53         1         43         14
  DEL PEAK 19(9Q34.2) WILD-TYPE       181         1         99         15
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 19(9Q34.2) MUTATED           18        5         0       5
  DEL PEAK 19(9Q34.2) WILD-TYPE         45       13         1      11
D48V3, multiclass
            clus
vv           DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  STAGE I                             23                            60
  STAGE IA                            16                            64
  STAGE IB                             0                             9
  STAGE II                             1                             4
  STAGE IIA                          106                           236
  STAGE IIB                           53                           181
  STAGE III                            1                             1
  STAGE IIIA                          43                            99
  STAGE IIIB                          14                            15
  STAGE IIIC                          18                            45
  STAGE IV                             5                            13
  STAGE TIS                            0                             1
  STAGE X                              5                            11
[1] 13  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(9Q34.2) MUTATED    57 183  29  15
  DEL PEAK 19(9Q34.2) WILD-TYPE 208 411  95  24
D48V4, multiclass
    clus
vv   DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  T1                          57                           208
  T2                         183                           411
  T3                          29                            95
  T4                          15                            24
[1] 4 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  N3
  DEL PEAK 19(9Q34.2) MUTATED   143  80  39  21
  DEL PEAK 19(9Q34.2) WILD-TYPE 338 259  74  53
D48V5, multiclass
    clus
vv   DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  N0                         143                           338
  N1                          80                           259
  N2                          39                            74
  N3                          21                            53
[1] 4 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                            CM0 (I+)  M0  M1  MX
  DEL PEAK 19(9Q34.2) MUTATED          0 244   5  36
  DEL PEAK 19(9Q34.2) WILD-TYPE        5 610  14 111
D48V6, multiclass
          clus
vv         DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  CM0 (I+)                           0                             5
  M0                               244                           610
  M1                                 5                            14
  MX                                36                           111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V7, binary
                               cls
clus                              0   1
  DEL PEAK 19(9Q34.2) MUTATED   278   7
  DEL PEAK 19(9Q34.2) WILD-TYPE 736   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 19(9Q34.2) MUTATED    278    7
  DEL PEAK 19(9Q34.2) WILD-TYPE  736    4
        clus
vv       DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  FEMALE                         278                           736
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 19(9Q34.2) MUTATED                            0
  DEL PEAK 19(9Q34.2) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 19(9Q34.2) MUTATED                             245
  DEL PEAK 19(9Q34.2) WILD-TYPE                           509
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 19(9Q34.2) MUTATED                               18
  DEL PEAK 19(9Q34.2) WILD-TYPE                            157
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 19(9Q34.2) MUTATED                     4
  DEL PEAK 19(9Q34.2) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 19(9Q34.2) MUTATED                                  6
  DEL PEAK 19(9Q34.2) WILD-TYPE                               23
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 19(9Q34.2) MUTATED                    3              8
  DEL PEAK 19(9Q34.2) WILD-TYPE                 12             36
D48V8, multiclass
                                  clus
vv                                 DEL PEAK 19(9Q34.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            245
  INFILTRATING LOBULAR CARCINOMA                            18
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           6
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                             8
                                  clus
vv                                 DEL PEAK 19(9Q34.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              509
  INFILTRATING LOBULAR CARCINOMA                             157
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            23
  MUCINOUS CARCINOMA                                          12
  OTHER  SPECIFY                                              36
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V9, binary
                               cls
clus                              0   1
  DEL PEAK 19(9Q34.2) MUTATED    90 195
  DEL PEAK 19(9Q34.2) WILD-TYPE 192 548
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 19(9Q34.2) MUTATED     90  195
  DEL PEAK 19(9Q34.2) WILD-TYPE  192  548
     clus
vv    DEL PEAK 19(9Q34.2) MUTATED DEL PEAK 19(9Q34.2) WILD-TYPE
  NO                           90                           192
  YES                         195                           548
[1] 2 2
[1] FALSE
D48V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 19(9Q34.2) MUTATED                                  0    16
  DEL PEAK 19(9Q34.2) WILD-TYPE                                1    40
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(9Q34.2) MUTATED                          57   182
  DEL PEAK 19(9Q34.2) WILD-TYPE                       101   535
D48V11, multiclass
                                  clus
vv                                 DEL PEAK 19(9Q34.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     16
  BLACK OR AFRICAN AMERICAN                                 57
  WHITE                                                    182
                                  clus
vv                                 DEL PEAK 19(9Q34.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       40
  BLACK OR AFRICAN AMERICAN                                  101
  WHITE                                                      535
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V12, binary
                               cls
clus                              0   1
  DEL PEAK 19(9Q34.2) MUTATED    13 224
  DEL PEAK 19(9Q34.2) WILD-TYPE  23 602
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 19(9Q34.2) MUTATED     13  224
  DEL PEAK 19(9Q34.2) WILD-TYPE   23  602
                        clus
vv                       DEL PEAK 19(9Q34.2) MUTATED
  HISPANIC OR LATINO                              13
  NOT HISPANIC OR LATINO                         224
                        clus
vv                       DEL PEAK 19(9Q34.2) WILD-TYPE
  HISPANIC OR LATINO                                23
  NOT HISPANIC OR LATINO                           602
[1] 2 2
[1] FALSE

Clustering(49) Variable = DEL PEAK 20(10Q23.31) MUTATION ANALYSIS
D49V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 20(10Q23.31) MUTATED   268  37
  DEL PEAK 20(10Q23.31) WILD-TYPE 618  82
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                            305                             700 
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                             37                              82 
$`DEL PEAK 20(10Q23.31) MUTATED`
TCGA-A1-A0SJ TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04T TCGA-A2-A04W 
       13.68        39.32        28.01        19.20        73.84        64.04 
TCGA-A2-A0CL TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0D0 TCGA-A2-A0D4 
       64.57        75.55        75.25         5.19        21.14        25.22 
TCGA-A2-A0EV TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YG 
       31.82        27.12        17.52        18.71        18.21        21.90 
TCGA-A2-A0YJ TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS TCGA-A2-A3XT 
       18.61        36.79        19.20        16.31        33.93        83.01 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CJ TCGA-A7-A0DA 
       38.37         7.30        24.39        26.96        30.61        35.67 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A2KD 
       10.72        12.72        29.56        31.36        23.74        22.32 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZX 
       14.93        13.74        14.50        21.17        14.73        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A076 
       10.29         9.37         8.75        17.98        29.03        53.98 
TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08F TCGA-A8-A08I 
       19.99        18.97         8.98        15.06        33.01        12.00 
TCGA-A8-A08L TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E 
        9.99        43.00        12.00         9.99        12.00        49.05 
TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 
       45.07        33.07         8.98        19.04        19.04        21.04 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2QH TCGA-AC-A2QI 
       17.03        38.04         0.95         2.66         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A0AJ TCGA-AN-A0AK 
        2.27         1.81         0.69         1.12         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        6.51         0.33         0.33         0.33         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33         0.33         0.30         0.33         0.33         5.59 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       47.84        66.77        84.69        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JL 
       32.78        52.18        37.48        21.53        72.00        55.33 
TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AQ-A04H 
      102.58        96.10        64.04        48.36        41.62        24.79 
TCGA-AQ-A04J TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
       26.93        32.91         9.99         5.26        74.79        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AH 
       29.75        98.93        65.36       101.95        83.87        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AM TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H 
       61.84        52.77        62.56        17.23        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A250 
       73.02       101.52        87.22        53.36        50.96        56.15 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR 
       78.48        72.76        42.87         7.36        39.39        20.38 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IO 
       10.59        77.62       129.57       176.98        18.77       110.14 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WT 
      140.88       211.56        81.17       100.70       131.21       188.68 
TCGA-B6-A0WX TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV 
       21.47        73.51       139.17        54.28        49.94        38.79 
TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0BA TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BT 
       20.45        39.55        37.22        21.70        44.05        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0EB TCGA-BH-A0GZ 
       49.94        11.67        49.05        44.02        24.49        10.78 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0WA 
       23.08        41.00        52.96        13.61        51.32        23.05 
TCGA-BH-A18I TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F2 
        7.23         7.36        91.99        42.28        17.69        31.53 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A202 
       97.48        24.66       114.15        36.92        45.63         0.72 
TCGA-BH-A208 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A132 
       57.83        11.93        11.77        12.66        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
        0.69        11.34        12.03         2.30         3.25         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y 
        0.23         0.36        12.20         0.99         0.23        11.90 
TCGA-D8-A142 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF 
       13.97        14.17        17.49        18.71        15.78        12.03 
TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1X5 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ 
       12.03        18.97        18.58        18.15        15.22        21.83 
TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A27F 
       14.50        16.41        12.99        15.16        15.32        16.04 
TCGA-D8-A27I TCGA-D8-A27M TCGA-D8-A27T TCGA-D8-A3Z6 TCGA-E2-A10C TCGA-E2-A14N 
       14.43        13.48        13.08        18.51        40.11        47.15 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       38.60        33.30        28.60        17.03        25.41        27.12 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15F TCGA-E2-A15P TCGA-E2-A1IE TCGA-E2-A1IH 
       25.05        23.34        21.63        19.56        38.30        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       28.44        22.19        27.42        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N6 
        8.75         7.20        34.92        19.89        19.00        13.48 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R7 
       12.59        20.05         9.86         0.62         2.10        21.21 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22B 
       20.81        40.24         6.58        34.59        34.13        22.75 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A2JS TCGA-E9-A3HO 
       12.89        23.51         0.69         1.94        17.75        26.07 
TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1J6 TCGA-EW-A1OW 
        0.62         0.23        14.70        15.39        28.77        22.82 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A2FS TCGA-EW-A2FV 
       29.82        23.11         7.86        18.90        52.73        25.91 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A3XL 
        7.40       109.87        53.52        43.04        62.33        69.30 
TCGA-JL-A3YX TCGA-LD-A7W5 TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Z 
       11.57         4.08        15.32        14.47        11.57         4.50 
TCGA-LL-A8F5 TCGA-OL-A5RW TCGA-OL-A66I TCGA-OL-A66P TCGA-OL-A6VO TCGA-PL-A8LV 
        6.21        36.36        23.47        14.07        28.21         0.23 
TCGA-PL-A8LX TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-Z7-A8R6 
        0.16         6.81         8.65         5.56       105.04 

$`DEL PEAK 20(10Q23.31) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SQ TCGA-A2-A04N 
       47.24        20.88        31.79         7.96        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X 
       18.02        41.95        82.16        22.06        63.12        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       36.13       136.73        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 
      107.93        63.45        64.04        56.81        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ 
       28.77       101.72        89.36        80.28       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX 
       74.40        37.05        35.05        34.29        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.16        99.19        54.64        44.88        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
       17.13         8.38        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK 
       32.55        25.28        15.42        21.67        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ 
       48.46        31.73        23.77        23.47        17.36        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C 
       20.25        19.56        16.47        52.47       107.70        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU 
       18.15        91.92        10.59        20.88        39.65        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RY 
       32.75        49.48        38.40        34.98        31.99        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       23.21        21.14        21.90        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A26F 
       35.47        37.45        33.11        31.73        23.61        24.26 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       23.80        21.73        20.61        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SF TCGA-A7-A5ZV 
       11.28        13.41        14.70        11.97        17.92        12.10 
TCGA-A7-A5ZW TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T 
       10.72        10.42        13.02        13.02         1.02        53.06 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B 
       31.00        26.01         1.02        17.03         9.01        43.00 
TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       18.97        14.01        12.00        17.03         9.99        10.98 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 
        7.99        24.99         9.99        28.04        18.05        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J 
       13.02         0.99        38.01        28.96        19.96        37.05 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z 
       31.00        31.00         0.99        33.01        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C 
       33.01        30.97        17.95        41.98         9.99         1.02 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W 
       50.04        29.98         1.02        25.02        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E 
       14.01        12.00        13.02         0.99        13.02         2.37 
TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
       10.85         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3BB TCGA-AC-A3HN 
       36.99        38.79        26.04        50.70         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX 
       24.79         1.55         0.07         1.12         1.18         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.68         1.74         1.32         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AM 
        0.33         0.62         2.96         1.78         1.71         0.16 
TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         6.44         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO 
        7.17         6.28         6.02         0.33         0.33        12.33 
TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03R 
        0.33         0.33         5.33        80.28        81.63        68.75 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB 
       21.40        24.16        20.32        22.36        53.03        50.70 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
       71.80        99.25       108.72       106.78        90.58        77.56 
TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
       57.30        28.37        14.73        82.62        61.87        70.39 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
        0.53        17.79       130.09         5.65        15.62        32.52 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
        2.56       111.32        49.32        64.83        55.86        76.14 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO 
      114.02        85.97        51.25        48.82        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       39.98        43.07        37.81        76.21        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       62.14        50.89        96.89        78.51        84.20         0.85 
TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 
       76.01        85.35        83.77        79.00        73.18        58.92 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM TCGA-AR-A2LN 
       93.83       128.65        20.25        62.86        40.04        38.17 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 
       40.54        54.74        16.04        20.45       143.38       149.59 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
       12.13       220.90        50.70        65.72       146.50       112.37 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       110.93        68.45       189.01       234.28 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       78.02       172.96       162.05       102.77       140.48        89.46 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ 
      157.41        97.48        79.63        17.98       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
      129.70       186.48        28.27        68.94        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
      101.52       170.17        85.35       103.63        55.00        24.53 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 
       25.55        28.50        46.95        40.83        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       56.94        56.98        51.68        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR 
       24.85        61.68        35.67        48.69        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       53.95        41.75        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       23.44        38.01        22.13        13.91        48.23        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       15.65         3.22         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       16.27         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 
       46.19        32.65        31.00        24.43        30.35        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       37.78        35.51        24.56        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
        2.50        36.85        12.89        27.25        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G 
       23.93        24.95        42.35        44.81         8.81         2.01 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
       20.12        90.84        26.66        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       55.63        37.55        66.05        51.39        51.16        69.93 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 
      113.82        82.85        12.00        55.69        49.58        25.81 
TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FJ 
       89.16       120.62        33.17        74.73       122.89        63.35 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 
       55.00        72.07       144.59        72.07         6.90        38.60 
TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       83.31       130.16        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
      109.28         8.94        11.77        12.66        11.77         0.07 
TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 
       12.66        12.66         3.12         1.78         0.62         3.85 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HL 
        3.75        12.33        10.92        11.34         0.16        10.42 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        0.43         8.28         9.67         0.03         0.03         0.03 
TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 
        0.03        20.88        13.25        20.58        14.17        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH 
       21.14        19.20        16.50        18.15        18.90        14.01 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP 
       20.09        20.12        20.09        19.40        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XL 
       23.90        27.58         2.66        17.16        14.73        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XW 
       17.69         7.96        15.85        16.31         6.35        12.66 
TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       16.54        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P 
       13.45        13.05         9.44        16.41         4.80         0.76 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 
       10.09        12.53        12.26        14.50         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E 
       34.42        27.52        46.59        40.41        37.51        28.44 
TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U 
       28.87        44.68        40.96        38.24        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 
       34.26        32.02        31.96        23.24        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G 
       23.87        14.79        22.82        17.29        20.71        18.21 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       12.92        17.42        19.40         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       13.02        17.06        14.07        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       53.03        29.95        32.35        28.50        16.47        17.10 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       37.41        32.78        33.70        22.65         3.88        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
       28.90        43.04        16.93         5.52        15.72        30.61 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
        9.21        19.20        36.82        12.00        13.12        36.56 
TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 
       39.55        35.77        21.57        11.90        14.30         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG 
        1.38         2.76        32.09         0.66        34.65        21.27 
TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22H 
       35.64         0.79        12.53        13.32        39.09        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
       17.06         0.85        27.22         0.95        24.56         0.72 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FL TCGA-E9-A5UO 
        0.76        18.41        15.72        12.33         0.26        13.81 
TCGA-E9-A5UP TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       14.40        12.20        39.72         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OY 
       13.25        16.57        15.68        25.94        29.95        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 
       40.41        41.13        39.78        52.96        18.48        30.08 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       19.99         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       19.96        55.00        22.09        21.27        17.49        10.16 
TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH 
       10.59        59.57       194.27        53.13        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       61.91        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       38.20        43.73        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       11.84        21.24         6.67         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP 
       11.44        10.95         7.59        17.06        14.70        14.79 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        2.63         3.88         4.14         4.50         5.59         3.22 
TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        7.36        27.91         2.79         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
       31.99        58.62        27.65        34.92        16.87        24.72 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       22.32        20.38        26.70        65.62        33.57        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       26.04         7.23        19.73         0.26         3.95        16.50 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         7.92         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        5.29         9.60         9.14       100.01 

  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                           0.16                            0.03 
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE 
                          21.21                           23.54 
[1] "0.2 - 211.6 (21.2)" "0.0 - 234.3 (23.5)"
[1] "hr=" "1.1"
D49V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 20(10Q23.31) MUTATED        24       19        1        3        97
  DEL PEAK 20(10Q23.31) WILD-TYPE      59       61        8        2       245
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 20(10Q23.31) MUTATED          65         1         49         13
  DEL PEAK 20(10Q23.31) WILD-TYPE       169         1         93         16
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 20(10Q23.31) MUTATED           25        6         0       4
  DEL PEAK 20(10Q23.31) WILD-TYPE         38       12         1      12
D49V3, multiclass
            clus
vv           DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  STAGE I                               24                              59
  STAGE IA                              19                              61
  STAGE IB                               1                               8
  STAGE II                               3                               2
  STAGE IIA                             97                             245
  STAGE IIB                             65                             169
  STAGE III                              1                               1
  STAGE IIIA                            49                              93
  STAGE IIIB                            13                              16
  STAGE IIIC                            25                              38
  STAGE IV                               6                              12
  STAGE TIS                              0                               1
  STAGE X                                4                              12
[1] 13  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(10Q23.31) MUTATED    69 184  34  20
  DEL PEAK 20(10Q23.31) WILD-TYPE 196 410  90  19
D49V4, multiclass
    clus
vv   DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  T1                            69                             196
  T2                           184                             410
  T3                            34                              90
  T4                            20                              19
[1] 4 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  N3
  DEL PEAK 20(10Q23.31) MUTATED   138  96  41  28
  DEL PEAK 20(10Q23.31) WILD-TYPE 343 243  72  46
D49V5, multiclass
    clus
vv   DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  N0                           138                             343
  N1                            96                             243
  N2                            41                              72
  N3                            28                              46
[1] 4 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                              CM0 (I+)  M0  M1  MX
  DEL PEAK 20(10Q23.31) MUTATED          1 265   6  36
  DEL PEAK 20(10Q23.31) WILD-TYPE        4 589  13 111
D49V6, multiclass
          clus
vv         DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  CM0 (I+)                             1                               4
  M0                                 265                             589
  M1                                   6                              13
  MX                                  36                             111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V7, binary
                                 cls
clus                                0   1
  DEL PEAK 20(10Q23.31) MUTATED   307   1
  DEL PEAK 20(10Q23.31) WILD-TYPE 707  10
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(10Q23.31) MUTATED    307    1
  DEL PEAK 20(10Q23.31) WILD-TYPE  707   10
        clus
vv       DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  FEMALE                           307                             707
  MALE                               1                              10
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 20(10Q23.31) MUTATED                            0
  DEL PEAK 20(10Q23.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 20(10Q23.31) MUTATED                             242
  DEL PEAK 20(10Q23.31) WILD-TYPE                           512
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 20(10Q23.31) MUTATED                               35
  DEL PEAK 20(10Q23.31) WILD-TYPE                            140
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 20(10Q23.31) MUTATED                     5
  DEL PEAK 20(10Q23.31) WILD-TYPE                   1
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 20(10Q23.31) MUTATED                                  8
  DEL PEAK 20(10Q23.31) WILD-TYPE                               21
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 20(10Q23.31) MUTATED                    1             16
  DEL PEAK 20(10Q23.31) WILD-TYPE                 14             28
D49V8, multiclass
                                  clus
vv                                 DEL PEAK 20(10Q23.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              242
  INFILTRATING LOBULAR CARCINOMA                              35
  MEDULLARY CARCINOMA                                          5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             8
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              16
                                  clus
vv                                 DEL PEAK 20(10Q23.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                512
  INFILTRATING LOBULAR CARCINOMA                               140
  MEDULLARY CARCINOMA                                            1
  MIXED HISTOLOGY (PLEASE SPECIFY)                              21
  MUCINOUS CARCINOMA                                            14
  OTHER  SPECIFY                                                28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V9, binary
                                 cls
clus                                0   1
  DEL PEAK 20(10Q23.31) MUTATED    93 215
  DEL PEAK 20(10Q23.31) WILD-TYPE 189 528
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(10Q23.31) MUTATED     93  215
  DEL PEAK 20(10Q23.31) WILD-TYPE  189  528
     clus
vv    DEL PEAK 20(10Q23.31) MUTATED DEL PEAK 20(10Q23.31) WILD-TYPE
  NO                             93                             189
  YES                           215                             528
[1] 2 2
[1] FALSE
D49V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 20(10Q23.31) MUTATED                                  0    18
  DEL PEAK 20(10Q23.31) WILD-TYPE                                1    38
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(10Q23.31) MUTATED                          58   204
  DEL PEAK 20(10Q23.31) WILD-TYPE                       100   513
D49V11, multiclass
                                  clus
vv                                 DEL PEAK 20(10Q23.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       18
  BLACK OR AFRICAN AMERICAN                                   58
  WHITE                                                      204
                                  clus
vv                                 DEL PEAK 20(10Q23.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         38
  BLACK OR AFRICAN AMERICAN                                    100
  WHITE                                                        513
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V12, binary
                                 cls
clus                                0   1
  DEL PEAK 20(10Q23.31) MUTATED     5 258
  DEL PEAK 20(10Q23.31) WILD-TYPE  31 568
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(10Q23.31) MUTATED      5  258
  DEL PEAK 20(10Q23.31) WILD-TYPE   31  568
                        clus
vv                       DEL PEAK 20(10Q23.31) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           258
                        clus
vv                       DEL PEAK 20(10Q23.31) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             568
[1] 2 2
[1] FALSE

Clustering(50) Variable = DEL PEAK 21(10Q26.3) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 21(10Q26.3) MUTATED   264  40
  DEL PEAK 21(10Q26.3) WILD-TYPE 622  79
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                           304                            701 
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                            40                             79 
$`DEL PEAK 21(10Q26.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T 
        0.39        31.79        39.32        19.20        18.02        73.84 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D2 
       75.55        75.25         5.19        64.04        21.14        33.76 
TCGA-A2-A0D4 TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YG 
       25.22        27.12        17.52        18.71        18.21        21.90 
TCGA-A2-A0YJ TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS 
       18.61        17.36        36.79        19.20        16.31        33.93 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CJ 
       83.01        29.98         7.30        24.39        26.96        30.61 
TCGA-A7-A0DA TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A2KD TCGA-A7-A4SB 
       35.67        10.72        12.72        31.36        22.32        13.74 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY 
       14.50        21.17        14.73        10.29        10.42         8.75 
TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A076 TCGA-A8-A07G TCGA-A8-A07I 
        1.02        29.03        31.00        53.98        18.97        14.01 
TCGA-A8-A07L TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J 
       17.03         8.98        15.06        33.01        12.00        37.05 
TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A09A 
        9.99        31.00         0.99        43.00        12.00         9.99 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A7 TCGA-A8-A0AB 
       49.05        45.07         8.98        19.04         0.99        17.03 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       38.04         0.95         2.66         1.02         0.92         2.27 
TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A04D 
       19.79         1.12         1.81         0.69         1.12         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FJ 
        8.02         7.36         6.51         0.16         0.33         7.96 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XS 
        0.33         0.36         0.33         0.33         0.30         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03T TCGA-AO-A03U 
        0.33         5.59        47.84        66.77        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JL 
       29.13        52.18        21.53        50.70        72.00        55.33 
TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       64.04        48.36        17.79        24.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
        5.65        32.91         9.99         5.26        74.79        29.75 
TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH 
       98.93        55.86        65.36        83.87        85.97        75.55 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H 
       52.77        51.25        43.07        17.23        20.22       109.58 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A251 
      101.52        87.22        53.36        50.96        56.15        78.48 
TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QN 
       93.83        42.87         7.36        39.39        20.38        16.04 
TCGA-AR-A5QQ TCGA-B6-A0IK TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL 
       10.59        18.77       140.88       211.56        68.45        81.17 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A1KI TCGA-B6-A1KN 
       89.46       131.21        21.47       186.48        73.51       139.17 
TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B7 
       54.28        49.94        38.79        20.45        39.55        56.98 
TCGA-BH-A0BA TCGA-BH-A0BJ TCGA-BH-A0BP TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       37.22        21.70        48.69        49.94        11.67        49.05 
TCGA-BH-A0C1 TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 
       44.02        24.49        31.00        10.78        23.08        41.00 
TCGA-BH-A0HA TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18Q 
       52.96        51.32        50.79        23.05         7.23        55.63 
TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 
        7.36        91.99        42.28        31.53        97.48        24.66 
TCGA-BH-A1FC TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 
      114.15        36.92        45.63        72.07         0.72        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12U 
       57.83       130.16        11.93        11.77        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HM 
       12.66         1.45         0.69        11.34        12.03         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A27A TCGA-C8-A3M8 
        3.25         0.30         0.23         0.43        12.20         0.23 
TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB 
       11.90        13.97        19.20        14.17        17.49        18.71 
TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL 
       15.78        12.03        12.03        18.97        20.12        20.09 
TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK 
       21.01        18.58        18.15        15.22        21.83        14.50 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27I 
       12.99        15.16        15.32        16.04        13.05        14.43 
TCGA-D8-A27T TCGA-E2-A108 TCGA-E2-A10C TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14W 
       13.08        27.52        40.11        38.60        33.30        32.02 
TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15E 
       28.60        25.41        27.12        14.79        25.05        20.71 
TCGA-E2-A15F TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1IE TCGA-E2-A1IN 
       21.63        19.56        17.06        14.07        38.30        22.19 
TCGA-E2-A1L7 TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A56Z 
       27.42        40.47        18.87       106.75       102.61         7.20 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI 
       34.92        19.89        39.55        12.59        20.05         9.86 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RH 
        0.62         2.10        21.21        40.24         6.58        34.59 
TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A2JS 
       34.13        12.89         0.69        27.22         1.94        17.75 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1J6 TCGA-EW-A1OW 
       26.07         0.62         0.23        14.70        28.77        22.82 
TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A2FS 
       40.41        29.82        23.11         7.86         6.15        52.73 
TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A3XL 
       25.91        17.49       109.87        43.04        62.33        69.30 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Z 
       11.84        11.57        15.32        14.47        11.57         4.50 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5RW TCGA-OL-A66I TCGA-OL-A6VO TCGA-PL-A8LV 
        6.21        27.91        36.36        23.47        28.21         0.23 
TCGA-PL-A8LX TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA17 
        0.16         6.81         8.65         3.91 

$`DEL PEAK 21(10Q26.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88        13.68         7.96        28.01        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       41.95        82.16        22.06        63.12        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       36.13       136.73        64.57        24.79       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D3 
       88.60       107.93        63.45        56.81        34.55        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
      101.72        89.36        80.28       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       37.05        35.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.16        99.19        54.64        44.88        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
       17.13         8.38        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK 
       32.55        25.28        15.42        21.67        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 
       48.46        31.73        23.77        23.47        22.45        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D 
       19.56        16.47        52.47       107.70        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XV TCGA-A2-A3XW 
       91.92        10.59        20.88        39.65        32.75        49.48 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RY TCGA-A2-A4S0 
       38.40        34.98        31.99        38.37        21.30        23.21 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       21.14        21.90        38.30        35.31        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F 
       37.45        33.11        31.73        23.61        29.56        24.26 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.74        23.80        21.73        20.61        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.29        11.28        13.41        14.70        11.97        14.93 
TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A8-A06O 
       17.92        12.10        10.72        11.05         9.37        13.02 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
       13.02        17.98        53.06        26.01         1.02        17.03 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07J TCGA-A8-A07O 
        9.01        43.00        19.99        18.97        12.00         9.99 
TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
       10.98         7.99        24.99         9.99        28.04        18.05 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G 
       36.95        13.02         0.99        38.01        28.96        19.96 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       31.00        33.01        93.04        40.01        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       17.95        41.98         9.99        12.00         1.02        50.04 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W 
       29.98        33.07         1.02        25.02        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 
       14.01        12.00        19.04        13.02        21.04        13.02 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB 
        2.37        10.85         1.48        38.53        38.20        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3BB 
       55.43        36.99        38.79        26.04        50.70         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3YI 
        0.69        14.83        22.19         1.12        16.57        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
       24.79         1.55         0.07         1.18         0.43         1.68 
TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        1.74         1.32         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD 
        0.62         2.96         1.78         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        4.64         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XT 
        0.33         0.33         0.33        12.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 
        5.33        80.28        81.63        84.69        68.75        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       21.40        24.16        37.48        20.32        22.36        53.03 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       71.80       102.58        99.25       108.72       106.78        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       90.58        77.56        57.30        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       82.62        61.87        70.39         0.53        15.62        32.52 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TZ 
        2.56       111.32        49.32        86.66        64.83        76.14 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
      101.95       114.02        61.84        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       43.56        39.98        37.81        76.21        61.28        63.62 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       62.14        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A252 
        0.85        76.01        85.35        83.77        79.00        73.18 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LM 
       72.76        58.92       128.65        20.25        62.86        40.04 
TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 
       38.17        40.54        54.74        20.45        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      146.50       112.37       176.98       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO 
      110.93       189.01       234.28        78.02       172.96       162.05 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      102.77       140.48       100.70       157.41        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
       79.63        17.98       113.79       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88        43.59       101.52       170.17        85.35 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
      103.63        55.00        24.53        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BC 
       40.83        39.16        48.36        56.94        51.68        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        24.85        44.05        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0C3 
       27.19        53.69        53.95        45.57        41.75        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       42.90        45.83        31.17        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       13.91        48.23        17.26        15.65         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
       38.47        45.17        47.41        16.27         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI 
       14.30         9.63        44.81        46.19        32.65        24.43 
TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB 
       30.35        15.16        37.78        35.51        24.56        26.50 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU 
       20.38         5.85         2.50        13.61        36.85        12.89 
TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       27.25         5.59        23.93        24.95        42.35        44.81 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
        8.81         2.01        20.12        90.84        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V 
       37.74        30.28        37.55        66.05        51.39        51.16 
TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX 
       69.93       113.82        82.85        12.00        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE 
       17.69        25.81        89.16       120.62        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
      122.89        63.35        55.00       144.59        72.07         6.90 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       83.31        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X 
        8.94        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        3.12         1.78         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26X TCGA-C8-A26Z 
       10.92        11.34         0.16        10.42         0.36         8.28 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 
        9.67         0.03         0.03         0.03         0.99         0.03 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
       20.88        13.25        20.58        14.17        13.48        21.14 
TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JM 
       16.50        18.15        18.90        14.01        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 
       20.38        12.20        13.32        14.70        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG 
       25.74        23.90        27.58         2.66        17.16        14.73 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       19.92        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
        6.35        12.66        16.54        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       14.14        17.42        13.45         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
        4.80         0.76        10.09        12.53        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A 
       18.51         7.33        43.00        34.42        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       37.51        28.44        28.87        47.15        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Z 
       38.24        33.17        43.33        34.26        31.96        17.03 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C 
       23.24        19.43        21.04        23.87        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       17.29        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       20.58         7.73        13.02        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       53.03        29.95        32.35        28.50        16.47        17.10 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       37.41        32.78        33.73        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
        3.88        20.98        11.08        54.18        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 
       24.59        28.90         8.75        43.04        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 
       15.72        30.61        19.00         9.21        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NG 
       13.48        12.00        13.12        36.56        35.77        21.57 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA 
       11.90        14.30         6.12         1.38         2.76        32.09 
TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A227 
       20.81         0.66        34.65        21.27        35.64         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A22H 
       12.53        13.32        39.09        22.75        23.51        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT 
       17.06         0.85         0.95        24.56         0.72         0.76 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP 
       18.41        15.72        12.33         0.26        13.81        14.40 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
       15.39        12.20        39.72         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OY 
       13.25        16.57        15.68        25.94        29.95        29.85 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       41.13        39.78        52.96        18.48        30.08        18.90 
TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
       19.99        13.94        10.52        14.43        34.55        19.96 
TCGA-EW-A2FR TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 
       55.00        22.09        21.27        10.16        10.59         7.40 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DH 
       59.57       194.27        53.13        53.52        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       61.91        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       38.20        43.73        66.38        72.03        13.55        18.12 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP 
       11.44        10.95         7.59        17.06        14.70        14.79 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        2.63         3.88         4.14         4.50         5.59         3.22 
TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        7.36         2.79         2.10        12.66        46.55        31.99 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       58.62        27.65        34.92        16.87        24.72        22.32 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       20.38        26.70        65.62        33.57        31.07        26.04 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
        7.23        14.07        19.73         0.26         3.95        16.50 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
       10.59         7.92         5.56         8.52         7.17         6.87 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                          0.16                           0.03 
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE 
                         20.86                          23.61 
[1] "0.2 - 211.6 (20.9)" "0.0 - 234.3 (23.6)"
[1] "hr=" "1.4"
D50V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 21(10Q26.3) MUTATED        23       16        2        2        97
  DEL PEAK 21(10Q26.3) WILD-TYPE      60       64        7        3       245
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 21(10Q26.3) MUTATED          68         1         55         11
  DEL PEAK 21(10Q26.3) WILD-TYPE       166         1         87         18
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 21(10Q26.3) MUTATED           19        8         0       4
  DEL PEAK 21(10Q26.3) WILD-TYPE         44       10         1      12
D50V3, multiclass
            clus
vv           DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  STAGE I                              23                             60
  STAGE IA                             16                             64
  STAGE IB                              2                              7
  STAGE II                              2                              3
  STAGE IIA                            97                            245
  STAGE IIB                            68                            166
  STAGE III                             1                              1
  STAGE IIIA                           55                             87
  STAGE IIIB                           11                             18
  STAGE IIIC                           19                             44
  STAGE IV                              8                             10
  STAGE TIS                             0                              1
  STAGE X                               4                             12
[1] 13  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(10Q26.3) MUTATED    65 186  38  17
  DEL PEAK 21(10Q26.3) WILD-TYPE 200 408  86  22
D50V4, multiclass
    clus
vv   DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  T1                           65                            200
  T2                          186                            408
  T3                           38                             86
  T4                           17                             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 21(10Q26.3) MUTATED   136 100  44  21
  DEL PEAK 21(10Q26.3) WILD-TYPE 345 239  69  53
D50V5, multiclass
    clus
vv   DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  N0                          136                            345
  N1                          100                            239
  N2                           44                             69
  N3                           21                             53
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 21(10Q26.3) MUTATED          2 260   8  37
  DEL PEAK 21(10Q26.3) WILD-TYPE        3 594  11 110
D50V6, multiclass
          clus
vv         DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                260                            594
  M1                                  8                             11
  MX                                 37                            110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V7, binary
                                cls
clus                               0   1
  DEL PEAK 21(10Q26.3) MUTATED   305   2
  DEL PEAK 21(10Q26.3) WILD-TYPE 709   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(10Q26.3) MUTATED    305    2
  DEL PEAK 21(10Q26.3) WILD-TYPE  709    9
        clus
vv       DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  FEMALE                          305                            709
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 21(10Q26.3) MUTATED                            0
  DEL PEAK 21(10Q26.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 21(10Q26.3) MUTATED                             251
  DEL PEAK 21(10Q26.3) WILD-TYPE                           503
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 21(10Q26.3) MUTATED                               29
  DEL PEAK 21(10Q26.3) WILD-TYPE                            146
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 21(10Q26.3) MUTATED                     5
  DEL PEAK 21(10Q26.3) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 21(10Q26.3) MUTATED                                  7
  DEL PEAK 21(10Q26.3) WILD-TYPE                               22
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 21(10Q26.3) MUTATED                    1             13
  DEL PEAK 21(10Q26.3) WILD-TYPE                 14             31
D50V8, multiclass
                                  clus
vv                                 DEL PEAK 21(10Q26.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             251
  INFILTRATING LOBULAR CARCINOMA                             29
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            7
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             13
                                  clus
vv                                 DEL PEAK 21(10Q26.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               503
  INFILTRATING LOBULAR CARCINOMA                              146
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             22
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V9, binary
                                cls
clus                               0   1
  DEL PEAK 21(10Q26.3) MUTATED    90 217
  DEL PEAK 21(10Q26.3) WILD-TYPE 192 526
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(10Q26.3) MUTATED     90  217
  DEL PEAK 21(10Q26.3) WILD-TYPE  192  526
     clus
vv    DEL PEAK 21(10Q26.3) MUTATED DEL PEAK 21(10Q26.3) WILD-TYPE
  NO                            90                            192
  YES                          217                            526
[1] 2 2
[1] FALSE
D50V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 21(10Q26.3) MUTATED                                  0    21
  DEL PEAK 21(10Q26.3) WILD-TYPE                                1    35
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(10Q26.3) MUTATED                          55   202
  DEL PEAK 21(10Q26.3) WILD-TYPE                       103   515
D50V11, multiclass
                                  clus
vv                                 DEL PEAK 21(10Q26.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      21
  BLACK OR AFRICAN AMERICAN                                  55
  WHITE                                                     202
                                  clus
vv                                 DEL PEAK 21(10Q26.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        35
  BLACK OR AFRICAN AMERICAN                                   103
  WHITE                                                       515
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V12, binary
                                cls
clus                               0   1
  DEL PEAK 21(10Q26.3) MUTATED     4 256
  DEL PEAK 21(10Q26.3) WILD-TYPE  32 570
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(10Q26.3) MUTATED      4  256
  DEL PEAK 21(10Q26.3) WILD-TYPE   32  570
                        clus
vv                       DEL PEAK 21(10Q26.3) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          256
                        clus
vv                       DEL PEAK 21(10Q26.3) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            570
[1] 2 2
[1] FALSE

Clustering(51) Variable = DEL PEAK 22(11P15.5) MUTATION ANALYSIS
D51V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 22(11P15.5) MUTATED   254  39
  DEL PEAK 22(11P15.5) WILD-TYPE 632  80
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                           293                            712 
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                            39                             80 
$`DEL PEAK 22(11P15.5) MUTATED`
TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CO TCGA-A2-A0CX 
       28.01        18.02        73.84        22.06       112.08        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0SU 
       21.14        34.55        79.76        35.05        24.16        54.64 
TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0YG TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT 
       50.43        17.52        21.90        18.61        31.73        23.77 
TCGA-A2-A25B TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3Y0 
       16.31        91.92        33.93        83.01        38.40        38.37 
TCGA-A2-A4RW TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
        7.30        35.31        35.67        31.73        10.72        12.72 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A56D 
       31.36        24.26        21.73        14.93        14.50        14.73 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R 
       10.29         9.37        10.42         8.75        13.02        17.98 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07G 
       29.03        31.00         1.02        17.03        19.99        18.97 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08F 
        8.98        24.99        36.95        13.02         0.99        33.01 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X 
       12.00        37.05         9.99        31.00         0.99        43.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09T 
        9.99        12.00         1.02        45.07        33.07        19.04 
TCGA-A8-A0A2 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FG 
       19.04        17.03         2.37        38.53        38.20        36.99 
TCGA-AC-A2QH TCGA-AC-A3W5 TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C 
        1.02        16.57         1.12         0.23         2.96         1.78 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FZ 
        6.51         0.16         0.33         6.02         0.36         0.33 
TCGA-AN-A0XN TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03M TCGA-AO-A03P 
        0.33         0.33         0.33         0.33        47.84        84.69 
TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JB 
       47.87        32.78        52.18        20.32        53.03        50.70 
TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KS TCGA-AQ-A04J 
       72.00        55.33        48.36        41.62         0.53        26.93 
TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX 
       15.62         2.56       111.32        86.66        29.75        64.83 
TCGA-AR-A0U0 TCGA-AR-A1AI TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q 
       65.36        61.84        63.62       109.58        73.02       101.52 
TCGA-AR-A24T TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LO 
       76.01        79.00        78.48        93.83         7.36        39.39 
TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IE TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IO 
      143.38        12.13        65.72       176.98        18.77       110.14 
TCGA-B6-A0RG TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A1KF 
       68.45       100.70       131.21        17.98        21.47       101.52 
TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
      139.17        54.28        49.94        38.79        20.45        25.55 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.55        39.16        48.36        56.94        37.22        32.02 
TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C1 
       25.71        44.05        48.69        53.69        41.75        44.02 
TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DZ 
       48.13        31.17        22.13        13.91        48.23        16.27 
TCGA-BH-A0EE TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A18L 
       31.00        52.96        26.50        27.25        50.79        26.66 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EY 
       55.63         7.36        51.39        51.16        69.93        17.69 
TCGA-BH-A1FC TCGA-BH-A1FH TCGA-BH-A203 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M 
      114.15        36.92        38.60         0.99        11.93        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A132 
       11.77         0.07        12.66        12.66         3.12         1.45 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK 
        0.62         3.75        10.92        11.34         0.16        12.03 
TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y 
        3.25         0.36         0.43         0.03        12.20        11.90 
TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 
       20.88        13.97        14.17        13.48        14.17        17.49 
TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JK TCGA-D8-A1JP TCGA-D8-A1X6 TCGA-D8-A1X8 
       15.78        18.90        20.12        21.01        17.79        25.74 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XW 
       21.83        14.50        16.41        16.31        12.99        12.66 
TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A10C 
       15.32        16.04        13.05        10.09        12.26        40.11 
TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A158 
       38.60        31.96        17.03        25.41        27.12        14.79 
TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15M TCGA-E2-A1AZ TCGA-E2-A1BD 
       25.05        20.71        18.21         7.73        60.53        17.10 
TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LE TCGA-E2-A1LH 
       38.30        33.73        27.42        39.62        28.90       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N9 
      102.61         8.75        43.04         9.21        36.82        13.12 
TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1R2 TCGA-E9-A1RF TCGA-E9-A1RG 
       36.56        12.59        20.05         0.62         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 
       34.59        12.53        22.75        12.89        23.51         0.69 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A5UO TCGA-E9-A5UP 
        0.72        17.75        26.07         0.62        13.81        14.40 
TCGA-EW-A1J1 TCGA-EW-A1OZ TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD 
       18.90        40.41         7.86        18.90         6.15        13.94 
TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 
       14.43        19.96        55.00        17.49         7.40       109.87 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A3XL TCGA-LD-A7W5 
       43.04        42.71        61.91        90.84        69.30         4.08 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7T0 
       15.32        14.70        14.79         2.63         3.88         3.22 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5D6 TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K 
        6.21        27.91        12.66        20.38        23.47        33.57 
TCGA-OL-A6VO TCGA-PL-A8LV TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-Z7-A8R5 
       28.21         0.23        16.50         6.81       100.01 

$`DEL PEAK 22(11P15.5) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN 
       47.24        20.88        13.68        31.79         7.96        39.32 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V 
       19.20        18.21       104.81        41.95        82.16        63.12 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       64.04        55.43        36.13       136.73        64.57        24.79 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
       92.48        88.60       107.93        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       63.45        64.04        33.76        28.77        25.22       101.72 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU 
       89.36        80.28       107.61        74.40        37.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       31.82        29.75        24.72        99.19        27.12        44.88 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.13         8.38        18.71        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF 
       18.90        20.75        32.55        25.28        18.21        15.42 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FW 
       21.67        14.50        19.33        48.46        23.47        17.36 
TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 
       36.79        22.45        20.25        19.20        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC 
       52.47       107.70        17.19        18.15        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ 
       39.65        29.98        32.75        49.48        34.98        31.99 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       24.39        21.30        23.21        26.96        21.14        21.90 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB 
       38.30        34.29        35.47        30.61        37.45        33.11 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD 
       23.61        29.56        23.74        23.80        20.61        22.32 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       11.34        10.59        10.29        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW 
       11.97        13.74        21.17        17.92        12.10        10.72 
TCGA-A7-A5ZX TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A076 
       11.05        13.02         1.02        53.06        26.01        53.98 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
        9.01        43.00        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
        9.99        10.98         7.99         9.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08S 
       15.06        38.01        28.96        19.96        31.00        33.01 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        40.01        33.01        30.97        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N 
       12.00         9.99        50.04        49.05        29.98         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
       25.02         8.98        15.02         0.99        14.01        12.00 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23C 
       13.02        21.04         0.99        13.02        38.04         0.95 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FK 
       10.85         2.66         1.48        40.57        55.43        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       26.04        50.70         0.92         2.27         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       14.83        22.19         1.12        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.55         0.07         1.12         1.81         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        0.43         1.68         1.74         1.32         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS 
        0.33         0.62         1.71         8.02         7.36         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         6.44         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL 
        7.17         6.28         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L 
       12.33         0.30         0.33         5.33         5.59        80.28 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 
       66.77        81.63        68.75        59.05        29.13        21.40 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JE 
       24.16        37.48        22.36        21.53        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 
       21.37        26.24        50.24        62.04        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       64.04        57.30        28.37        14.73        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       70.39        17.79        24.79       130.09         5.65        32.52 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TW 
       32.91         9.99        49.32         5.26        74.79        98.93 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       55.86        76.14       101.95        83.87       114.02        85.97 
TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       75.55        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       43.56        39.98        43.07        17.23        37.81        76.21 
TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N 
       61.28        62.14        20.22        50.89        96.89        78.51 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
       84.20         0.85        87.22        53.36        85.35        50.96 
TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       83.77        56.15        73.18        72.76        58.92       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ 
       20.25        62.86        42.87        40.04        38.17        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IH 
      149.59       220.90       129.57        50.70       146.50       112.37 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH 
      126.12        84.59       110.93       140.88       211.56       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
      234.28        81.17        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      140.48        89.46       157.41        97.48       188.68        79.63 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 
      113.79       129.57       129.70       186.48        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B 
       58.88        43.59        73.51       170.17        85.35       103.63 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B7 
       55.00        24.53        28.50        46.95        40.83        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       51.68        18.21        24.85        21.70        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ 
       27.19        53.95        45.57        49.94        11.67        49.05 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP 
       42.90        45.83        23.44        38.01        17.26        15.65 
TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 
        3.22         2.56        38.47        45.17        47.41         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       15.68        14.30         9.63        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       24.49        24.43        30.35        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK 
       35.51        24.56        23.08        41.00        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0RX 
        2.50        13.61        36.85        12.89        51.32         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
       23.93        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N 
        2.01         7.23        20.12        90.84        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       30.28        37.55        66.05        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 
       42.28        12.00        55.69        49.58        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE 
       89.16        97.48        24.66       120.62        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR 
      122.89        63.35        55.00        45.63        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
       72.07         6.90         0.72        83.31        57.83       130.16 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N 
       10.65         6.44        20.12       109.28         8.94        11.77 
TCGA-C8-A12O TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A137 
       12.66        12.66        12.66         1.78         0.69         3.85 
TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W 
       12.33        11.34        10.42         2.30         0.30         0.23 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27B TCGA-C8-A3M7 
        8.28         9.67         0.03         0.03         0.99         0.03 
TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA 
        0.23        13.25        20.58        21.14        19.20        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       18.71        18.15        12.03        12.03        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT 
       20.09        20.09        19.40        20.38        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB 
       14.70        18.58        16.73        23.90        27.58        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM 
        2.66        17.16        15.22        14.73        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y0 
        7.96        15.85         6.35        15.16        16.54        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I 
        3.81        14.24        14.14        17.42        13.45        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
        9.44        16.41        13.48         4.80         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 
       12.53        14.50        18.51         7.33        43.00        34.42 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       27.52        46.59        40.41        37.51        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T 
       47.15        44.68        40.96        38.24        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A153 TCGA-E2-A154 
       43.33        34.26        32.02        28.60        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       21.04        23.87        23.34        22.82        17.29        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O 
       12.92        17.42        19.40         9.04        20.58        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 
       19.56        17.06        14.07        14.99        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IF TCGA-E2-A1IG 
       29.95        32.35        28.50        16.47        37.41        32.78 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO 
       33.70        28.44        22.65         3.88        22.19        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LG 
       11.08        54.18        19.66        24.59        40.47        18.87 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 
       16.93         5.52        15.72         7.20        30.61        34.92 
TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC 
       19.89        19.00        19.20        13.48        12.00        39.55 
TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R3 
       35.77        21.57         9.86        11.90        14.30         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        6.12         1.38         2.76        21.21        32.09        20.81 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
       40.24         0.66        34.65        35.64        34.13         0.79 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 
       13.32        39.09        24.10        17.06         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 
        1.94         0.95        24.56         0.76        18.41        15.72 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW 
       12.33         0.23        14.70         0.26        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       39.72         8.48        18.21        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 
       28.77        25.94        22.82        29.95        29.85        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       39.78        52.96        29.82        23.11        18.48        30.08 
TCGA-EW-A1PB TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       19.99        10.52        34.55        52.73        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB 
       21.27        10.16        10.59        59.57       194.27        53.13 
TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       53.52        42.28        62.33        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       18.12        11.84        11.57        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.75         9.53        11.44        10.95         7.59        17.06 
TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
       14.47        11.57         4.14         4.50         4.50         5.59 
TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
        7.36         2.79         2.10        46.55        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        34.92        36.36        16.87        24.72        22.32 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       26.70        65.62        31.07        26.04         7.23        14.07 
TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA0Z 
       19.73         0.16         0.26         3.95         8.65        10.59 
TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
        7.92         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R6 
        5.29         9.60         9.14       105.04 

  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                        176.98                         234.28 
  DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE 
                        21.010                         23.225 
[1] "0.0 - 177.0 (21.0)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.5"
D51V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 22(11P15.5) MUTATED        19       15        0        1       104
  DEL PEAK 22(11P15.5) WILD-TYPE      64       65        9        4       238
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 22(11P15.5) MUTATED          69         0         47         10
  DEL PEAK 22(11P15.5) WILD-TYPE       165         2         95         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 22(11P15.5) MUTATED           21        3         1       6
  DEL PEAK 22(11P15.5) WILD-TYPE         42       15         0      10
D51V3, multiclass
            clus
vv           DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  STAGE I                              19                             64
  STAGE IA                             15                             65
  STAGE IB                              0                              9
  STAGE II                              1                              4
  STAGE IIA                           104                            238
  STAGE IIB                            69                            165
  STAGE III                             0                              2
  STAGE IIIA                           47                             95
  STAGE IIIB                           10                             19
  STAGE IIIC                           21                             42
  STAGE IV                              3                             15
  STAGE TIS                             1                              0
  STAGE X                               6                             10
[1] 13  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(11P15.5) MUTATED    56 194  31  14
  DEL PEAK 22(11P15.5) WILD-TYPE 209 400  93  25
D51V4, multiclass
    clus
vv   DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  T1                           56                            209
  T2                          194                            400
  T3                           31                             93
  T4                           14                             25
[1] 4 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  N3
  DEL PEAK 22(11P15.5) MUTATED   138  92  39  23
  DEL PEAK 22(11P15.5) WILD-TYPE 343 247  74  51
D51V5, multiclass
    clus
vv   DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  N0                          138                            343
  N1                           92                            247
  N2                           39                             74
  N3                           23                             51
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 22(11P15.5) MUTATED          0 258   3  35
  DEL PEAK 22(11P15.5) WILD-TYPE        5 596  16 112
D51V6, multiclass
          clus
vv         DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                258                            596
  M1                                  3                             16
  MX                                 35                            112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V7, binary
                                cls
clus                               0   1
  DEL PEAK 22(11P15.5) MUTATED   292   4
  DEL PEAK 22(11P15.5) WILD-TYPE 722   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(11P15.5) MUTATED    292    4
  DEL PEAK 22(11P15.5) WILD-TYPE  722    7
        clus
vv       DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  FEMALE                          292                            722
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 22(11P15.5) MUTATED                            0
  DEL PEAK 22(11P15.5) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 22(11P15.5) MUTATED                             242
  DEL PEAK 22(11P15.5) WILD-TYPE                           512
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 22(11P15.5) MUTATED                               28
  DEL PEAK 22(11P15.5) WILD-TYPE                            147
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 22(11P15.5) MUTATED                     4
  DEL PEAK 22(11P15.5) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 22(11P15.5) MUTATED                                 10
  DEL PEAK 22(11P15.5) WILD-TYPE                               19
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 22(11P15.5) MUTATED                    2             10
  DEL PEAK 22(11P15.5) WILD-TYPE                 13             34
D51V8, multiclass
                                  clus
vv                                 DEL PEAK 22(11P15.5) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             242
  INFILTRATING LOBULAR CARCINOMA                             28
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           10
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 22(11P15.5) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               512
  INFILTRATING LOBULAR CARCINOMA                              147
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             19
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V9, binary
                                cls
clus                               0   1
  DEL PEAK 22(11P15.5) MUTATED    86 210
  DEL PEAK 22(11P15.5) WILD-TYPE 196 533
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(11P15.5) MUTATED     86  210
  DEL PEAK 22(11P15.5) WILD-TYPE  196  533
     clus
vv    DEL PEAK 22(11P15.5) MUTATED DEL PEAK 22(11P15.5) WILD-TYPE
  NO                            86                            196
  YES                          210                            533
[1] 2 2
[1] FALSE
D51V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 22(11P15.5) MUTATED                                  0    19
  DEL PEAK 22(11P15.5) WILD-TYPE                                1    37
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(11P15.5) MUTATED                          60   186
  DEL PEAK 22(11P15.5) WILD-TYPE                        98   531
D51V11, multiclass
                                  clus
vv                                 DEL PEAK 22(11P15.5) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      19
  BLACK OR AFRICAN AMERICAN                                  60
  WHITE                                                     186
                                  clus
vv                                 DEL PEAK 22(11P15.5) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        37
  BLACK OR AFRICAN AMERICAN                                    98
  WHITE                                                       531
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V12, binary
                                cls
clus                               0   1
  DEL PEAK 22(11P15.5) MUTATED     7 232
  DEL PEAK 22(11P15.5) WILD-TYPE  29 594
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(11P15.5) MUTATED      7  232
  DEL PEAK 22(11P15.5) WILD-TYPE   29  594
                        clus
vv                       DEL PEAK 22(11P15.5) MUTATED
  HISPANIC OR LATINO                                7
  NOT HISPANIC OR LATINO                          232
                        clus
vv                       DEL PEAK 22(11P15.5) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            594
[1] 2 2
[1] FALSE

Clustering(52) Variable = DEL PEAK 23(11Q23.3) MUTATION ANALYSIS
D52V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 23(11Q23.3) MUTATED   452  58
  DEL PEAK 23(11Q23.3) WILD-TYPE 434  61
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                           510                            495 
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                            58                             61 
$`DEL PEAK 23(11Q23.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM 
        0.39        14.37        43.43        47.24        13.68         7.96 
TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04R 
       39.32        28.01        19.20        18.21        18.02        82.16 
TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       73.84        63.12        55.43       136.73        64.57        24.79 
TCGA-A2-A0CO TCGA-A2-A0CR TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D4 
      112.08       107.93        75.25        64.04        56.81        25.22 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ET TCGA-A2-A0EW TCGA-A2-A0SU TCGA-A2-A0SX 
       79.76        74.40        35.05        29.75        54.64        50.43 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YC 
       44.28        17.13        18.71        20.52        20.75        32.55 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YM TCGA-A2-A0YT 
       18.21        15.42        14.50        19.33        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G4 TCGA-A2-A25B TCGA-A2-A25C 
       23.47        17.36        36.79        19.56        16.31        17.19 
TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3Y0 
       91.92        20.88        39.65        49.48        38.40        38.37 
TCGA-A2-A4RW TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ 
        7.30        26.96        21.14        21.90        35.31        30.61 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26J 
       31.73        10.72        12.72        29.56        31.36        20.61 
TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD 
       22.32        10.59        11.28        14.93        13.74        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW 
       21.17        17.92        14.73        12.10        10.29         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
       10.42         8.75        13.02        53.06        29.03        31.00 
TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07L 
        1.02         9.01        43.00        19.99        14.01        17.03 
TCGA-A8-A07P TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
       10.98         9.99        18.05        36.95        13.02         0.99 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       33.01        19.96        12.00        37.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 
       31.00        33.01        43.00        33.01        17.95        12.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
        9.99        12.00         1.02        50.04        49.05        45.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A0A1 
       29.98        33.07         8.98        19.04         0.99        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23C 
       19.04        13.02        21.04        13.02        17.03         0.95 
TCGA-AC-A23E TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FG 
        2.37         1.48        38.53        38.20        40.57        36.99 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04        50.70         1.02         0.92         0.69        14.83 
TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
       16.57         0.07         1.18         0.69         0.43         1.74 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C 
        0.33         0.33         0.23         0.62         2.96         1.78 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FS TCGA-AN-A0FT 
        8.02         7.36         0.33         7.96         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        0.33         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O 
        0.33         0.33         5.59        80.28        47.84        81.63 
TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       84.69        47.87        29.13        21.40        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JE 
       37.48        20.32        53.03        21.53        72.00        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 
       21.37        26.24        55.33        71.80       102.58       108.72 
TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KQ TCGA-AO-A1KS 
       96.10        57.30        48.36        41.62        61.87         0.53 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54N 
       17.79        24.79        26.93         5.65        15.62         2.56 
TCGA-AQ-A54O TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TZ TCGA-AR-A0U0 
       32.91        86.66        29.75        98.93        76.14        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AK 
      101.95        83.87       114.02        85.97        61.84        51.25 
TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24H 
       62.56        39.98        76.21        61.28        63.62       109.58 
TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24Z 
       73.02       101.52        87.22        76.01        85.35        79.00 
TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LJ TCGA-AR-A2LK 
       56.15        72.76        58.92        93.83        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LO TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IG 
        7.36        40.04        39.39        12.13       129.57       146.50 
TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RO 
      176.98        18.77       126.12        68.45        81.17       162.05 
TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      100.70       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A0X7 TCGA-B6-A1KF 
       17.98        21.47       113.79       186.48        58.88       101.52 
TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AZ 
      139.17        54.28       103.63        24.53        38.79        28.50 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG 
       48.36        56.94        37.22        32.02        18.21        24.85 
TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 
       44.05        48.69        53.69        49.94        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       44.02        48.13        42.90        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DQ TCGA-BH-A0DZ TCGA-BH-A0E0 
       38.01        22.13        13.91         3.22        16.27         4.41 
TCGA-BH-A0E2 TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H7 
       14.30        31.00        24.43        10.78        15.16        23.08 
TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW 
       52.96        26.50         5.85        13.61        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18J 
       27.25        50.79        23.93        23.05         7.23        20.12 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18V TCGA-BH-A1EN 
       26.66        72.56        30.28        37.55        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F2 
       91.99       113.82        42.28        55.69        17.69        31.53 
TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A201 
       24.66       114.15        33.17        74.73        72.07         6.90 
TCGA-BH-A204 TCGA-BH-A28Q TCGA-BH-A42T TCGA-C8-A12M TCGA-C8-A12Q TCGA-C8-A12U 
       83.31         6.44         0.99        11.77         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
       12.66         1.45         0.62         3.85         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
       10.92        11.34        11.34         0.16        12.03        10.42 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A27A TCGA-C8-A27B 
        0.23         0.36         0.43         8.28        12.20         0.99 
TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A145 
        0.23        11.90        20.88        13.25        14.17        13.48 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       14.17        17.49        16.50        15.78        18.15        18.90 
TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X6 
       18.97        20.12        19.40        21.01        18.58        17.79 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XO TCGA-D8-A1XS 
       25.74        23.90        15.22        14.50         7.96        16.31 
TCGA-D8-A1XU TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27M 
       12.99        15.52        14.24        13.45        14.43        13.48 
TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 
        4.80        10.09        12.53        12.26        43.00        34.42 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A14O TCGA-E2-A14S TCGA-E2-A14V 
       46.59        40.41        28.44        44.68        33.17        34.26 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15E 
       25.41        27.12        21.04        14.79        23.34        20.71 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
       21.63        18.21         9.04         7.73        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG 
       17.06        14.07        14.99        17.10        38.30        32.78 
TCGA-E2-A1IH TCGA-E2-A1IU TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LL 
       33.73        11.08        27.42        39.62        24.59        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A576 TCGA-E2-A9RU 
       16.93         5.52         7.20        34.92        19.00         9.21 
TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF 
       36.82        12.00        13.12        36.56        39.55        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R7 TCGA-E9-A1RE 
       21.57         9.86        11.90         0.62        21.21        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22E 
        6.58        21.27        35.64        13.32        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A3HO 
       23.51        24.10        17.06        27.22         0.72        26.07 
TCGA-E9-A3QA TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW 
        0.62         0.26        13.81        14.40        15.39        12.20 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV 
       18.90        13.25        16.57        15.68        28.77        25.94 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1PA 
       29.95        29.85        40.41        29.82        23.11        18.90 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW 
        6.15        13.94        14.43        55.00        52.73        22.09 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DD TCGA-GM-A2DL TCGA-GM-A2DO 
       10.16        10.59        59.57        43.04        90.84        53.36 
TCGA-GM-A3NW TCGA-GM-A3XL TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A5YL TCGA-LL-A5YM 
      110.50        69.30        21.24         4.60        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR 
       14.70        14.47        14.79        11.57         2.63         3.88 
TCGA-LL-A73Z TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        4.50         5.59         3.22         6.21        27.91         2.10 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       31.99        58.62        36.36        24.72        22.32        20.38 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO 
       65.62        33.57        26.04         7.23        14.07        28.21 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z 
        0.23         0.16        16.50         6.81         8.65        10.59 
TCGA-S3-AA12 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        8.52         3.91         9.60         9.14       100.01       105.04 

$`DEL PEAK 23(11Q23.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A2-A04N 
        8.52        48.10        14.27        20.88        31.79       104.81 
TCGA-A2-A04Q TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CP TCGA-A2-A0CQ 
       41.95        22.06        64.04        36.13        92.48        88.60 
TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 
       75.55         5.19        63.45        21.14        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ES 
       28.77       101.72        89.36        80.28       107.61        37.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV 
       34.29        31.82        24.72        24.16        99.19        27.12 
TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD 
       44.88        17.52         8.38        17.46        18.90        25.28 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YL TCGA-A2-A1FZ TCGA-A2-A1G0 
       21.90        21.67        18.61        48.46        22.45        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D TCGA-A2-A25F 
       19.20        16.47        52.47       107.70        18.15        10.59 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ 
       33.93        83.01        29.98        32.75        34.98        31.99 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH 
       24.39        21.30        23.21        38.30        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A26F TCGA-A7-A26G 
       37.45        35.67        33.11        23.61        24.26        23.74 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 
       23.80        21.73        11.34        10.29        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R 
       11.97        10.72        11.05        13.02         1.02        17.98 
TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07J 
       26.01        17.03        53.98        18.97        18.97        12.00 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A084 
        9.99         8.98         7.99        24.99        28.04        15.06 
TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A092 
       38.01        28.96         0.99        93.04        40.01        30.97 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09X 
       41.98         9.99         1.02        25.02        15.02        14.01 
TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2FF TCGA-AC-A2FK 
        0.99        38.04        10.85         2.66        55.43        38.79 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI 
        2.27         0.99        22.19         1.12        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6NO TCGA-AC-A8OQ 
       24.79         1.55         1.12         1.81         1.68         1.12 
TCGA-AC-A8OR TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        1.32         0.33         1.71         6.51         0.16         0.33 
TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN 
        0.33         6.44         4.64         7.00         7.59         7.17 
TCGA-AN-A0FY TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XV 
        0.33        12.33         0.30         0.33         0.33         5.33 
TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J8 TCGA-AO-A0JB 
       66.77        68.75        59.05        32.78        22.36        50.70 
TCGA-AO-A0JC TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A 
       50.86        50.24        62.04        99.25       106.78        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR 
       77.56        64.04        28.37        14.73        82.62        70.39 
TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
      130.09        32.52         9.99       111.32        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL 
       74.79        64.83        55.86        75.55        52.77        48.82 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AX 
       43.73        43.56        43.07        17.23        37.81        62.14 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       20.22        50.89        96.89        78.51        84.20         0.85 
TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A2LE 
       53.36        50.96        83.77        78.48        73.18       128.65 
TCGA-AR-A2LH TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       20.25        38.17        40.54        20.38        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA 
       20.45        10.59        77.62       143.38       149.59       220.90 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
       50.70        65.72       112.37        84.59       110.14       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      140.88       211.56       189.01       234.28        78.02       172.96 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
      102.77       140.48        89.46       129.57       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 
       68.94        43.59        73.51       170.17        85.35        49.94 
TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       55.00        20.45        25.55        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM 
       39.16        56.98        51.68        25.71        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0DL 
       35.67        27.19        53.95        45.57        11.67        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       17.26        15.65         2.56        38.47        45.17        47.41 
TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       15.68         9.63        44.81        46.19        32.65        24.49 
TCGA-BH-A0GY TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HI 
       30.35        37.78        35.51        24.56        41.00        20.38 
TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
        2.50        36.85         5.59        24.95        42.35        44.81 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18S 
        8.81         2.01        90.84        37.74        55.63        66.05 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 
        7.36        51.39        82.85        12.00        49.58        25.81 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
       89.16        97.48       120.62       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A203 
       55.00        45.63       144.59        72.07         0.72        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
       57.83       130.16        10.65        20.12       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12X 
       11.93        11.77        12.66        11.77        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
        3.12         1.78         0.69         2.30         3.25         0.30 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A3M7 TCGA-D8-A141 
        9.67         0.03         0.03         0.03         0.03        20.58 
TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JG 
       13.97        21.14        19.20        18.71        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT 
       14.01        20.09        20.09        20.38        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       14.70        16.73        27.58        18.15         2.66        17.16 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XR 
       14.73        21.83        19.92        17.69        16.41        15.85 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y1 
        6.35        15.16        12.66        16.54        15.32         3.81 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L 
       14.14        17.42        16.04        13.05         9.44        16.41 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 
        0.76        13.08        14.50        18.51         7.33        27.52 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q 
       37.51        40.11        28.87        47.15        40.96        38.24 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       38.60        33.30        43.33        32.02        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15C 
       17.03        23.24        19.43        23.87        25.05        22.82 
TCGA-E2-A15D TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A1AZ 
       17.29        12.92        17.42        19.40        20.58        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       53.62        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1IF TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       37.41        33.70        28.44        22.65         3.88        22.19 
TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       20.98        54.18        19.66        40.47        28.90        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 
      106.75       102.61         8.75        15.72        30.61        19.89 
TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1R0 TCGA-E9-A1R3 
       19.20        13.48        12.59        35.77        14.30         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
        6.12         1.38         2.76        32.09        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22A 
        0.66        34.59        34.13         0.79        12.53        39.09 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS 
        0.69         0.85         1.94         0.95        24.56        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        18.41        15.72        12.33         0.23        14.70 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1OW TCGA-EW-A1P0 TCGA-EW-A1P1 
       39.72         8.48        18.21        22.82        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PE 
       52.96        18.48        30.08         7.86        19.99        10.52 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 
       34.55        19.96        25.91        21.27        17.49         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DH 
      109.87       194.27        53.13        53.52        42.71        42.28 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG 
       61.91        62.33        76.64        77.33        38.20        43.73 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        6.67         4.08         8.75         9.53        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OL-A5D6 
        7.59         4.14         4.50         7.36         2.79        12.66 
TCGA-OL-A5D7 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I 
       46.55        27.65        34.92        16.87        26.70        23.47 
TCGA-OL-A66L TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-AA10 TCGA-S3-AA11 
       31.07        19.73         0.26         3.95         7.92         5.56 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G 
        7.17         6.87         5.29 

  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                        188.68                         234.28 
  DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE 
                         21.32                          23.80 
[1] "0.1 - 188.7 (21.3)" "0.0 - 234.3 (23.8)"
[1] "hr=" "1.1"
D52V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 23(11Q23.3) MUTATED        34       33        4        4       167
  DEL PEAK 23(11Q23.3) WILD-TYPE      49       47        5        1       175
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 23(11Q23.3) MUTATED         132         1         81         16
  DEL PEAK 23(11Q23.3) WILD-TYPE       102         1         61         13
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 23(11Q23.3) MUTATED           27       12         0       9
  DEL PEAK 23(11Q23.3) WILD-TYPE         36        6         1       7
D52V3, multiclass
            clus
vv           DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  STAGE I                              34                             49
  STAGE IA                             33                             47
  STAGE IB                              4                              5
  STAGE II                              4                              1
  STAGE IIA                           167                            175
  STAGE IIB                           132                            102
  STAGE III                             1                              1
  STAGE IIIA                           81                             61
  STAGE IIIB                           16                             13
  STAGE IIIC                           27                             36
  STAGE IV                             12                              6
  STAGE TIS                             0                              1
  STAGE X                               9                              7
[1] 13  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(11Q23.3) MUTATED   114 313  71  22
  DEL PEAK 23(11Q23.3) WILD-TYPE 151 281  53  17
D52V4, multiclass
    clus
vv   DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  T1                          114                            151
  T2                          313                            281
  T3                           71                             53
  T4                           22                             17
[1] 4 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  N3
  DEL PEAK 23(11Q23.3) MUTATED   228 183  64  33
  DEL PEAK 23(11Q23.3) WILD-TYPE 253 156  49  41
D52V5, multiclass
    clus
vv   DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  N0                          228                            253
  N1                          183                            156
  N2                           64                             49
  N3                           33                             41
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 23(11Q23.3) MUTATED          3 421  13  83
  DEL PEAK 23(11Q23.3) WILD-TYPE        2 433   6  64
D52V6, multiclass
          clus
vv         DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  CM0 (I+)                            3                              2
  M0                                421                            433
  M1                                 13                              6
  MX                                 83                             64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V7, binary
                                cls
clus                               0   1
  DEL PEAK 23(11Q23.3) MUTATED   511   9
  DEL PEAK 23(11Q23.3) WILD-TYPE 503   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11Q23.3) MUTATED    511    9
  DEL PEAK 23(11Q23.3) WILD-TYPE  503    2
        clus
vv       DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  FEMALE                          511                            503
  MALE                              9                              2
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 23(11Q23.3) MUTATED                            1
  DEL PEAK 23(11Q23.3) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 23(11Q23.3) MUTATED                             387
  DEL PEAK 23(11Q23.3) WILD-TYPE                           367
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 23(11Q23.3) MUTATED                               90
  DEL PEAK 23(11Q23.3) WILD-TYPE                             85
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 23(11Q23.3) MUTATED                     5
  DEL PEAK 23(11Q23.3) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 23(11Q23.3) MUTATED                                 15
  DEL PEAK 23(11Q23.3) WILD-TYPE                               14
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 23(11Q23.3) MUTATED                    4             17
  DEL PEAK 23(11Q23.3) WILD-TYPE                 11             27
D52V8, multiclass
                                  clus
vv                                 DEL PEAK 23(11Q23.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             387
  INFILTRATING LOBULAR CARCINOMA                             90
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           15
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             17
                                  clus
vv                                 DEL PEAK 23(11Q23.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               367
  INFILTRATING LOBULAR CARCINOMA                               85
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             14
  MUCINOUS CARCINOMA                                           11
  OTHER  SPECIFY                                               27
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V9, binary
                                cls
clus                               0   1
  DEL PEAK 23(11Q23.3) MUTATED   143 377
  DEL PEAK 23(11Q23.3) WILD-TYPE 139 366
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11Q23.3) MUTATED    143  377
  DEL PEAK 23(11Q23.3) WILD-TYPE  139  366
     clus
vv    DEL PEAK 23(11Q23.3) MUTATED DEL PEAK 23(11Q23.3) WILD-TYPE
  NO                           143                            139
  YES                          377                            366
[1] 2 2
[1] FALSE
D52V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 23(11Q23.3) MUTATED                                  1    30
  DEL PEAK 23(11Q23.3) WILD-TYPE                                0    26
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(11Q23.3) MUTATED                          94   341
  DEL PEAK 23(11Q23.3) WILD-TYPE                        64   376
D52V11, multiclass
                                  clus
vv                                 DEL PEAK 23(11Q23.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      30
  BLACK OR AFRICAN AMERICAN                                  94
  WHITE                                                     341
                                  clus
vv                                 DEL PEAK 23(11Q23.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        26
  BLACK OR AFRICAN AMERICAN                                    64
  WHITE                                                       376
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V12, binary
                                cls
clus                               0   1
  DEL PEAK 23(11Q23.3) MUTATED    19 409
  DEL PEAK 23(11Q23.3) WILD-TYPE  17 417
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11Q23.3) MUTATED     19  409
  DEL PEAK 23(11Q23.3) WILD-TYPE   17  417
                        clus
vv                       DEL PEAK 23(11Q23.3) MUTATED
  HISPANIC OR LATINO                               19
  NOT HISPANIC OR LATINO                          409
                        clus
vv                       DEL PEAK 23(11Q23.3) WILD-TYPE
  HISPANIC OR LATINO                                 17
  NOT HISPANIC OR LATINO                            417
[1] 2 2
[1] FALSE

Clustering(53) Variable = DEL PEAK 24(12P13.1) MUTATION ANALYSIS
D53V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 24(12P13.1) MUTATED   150  25
  DEL PEAK 24(12P13.1) WILD-TYPE 736  94
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                           175                            830 
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                            25                             94 
$`DEL PEAK 24(12P13.1) MUTATED`
TCGA-A1-A0SI TCGA-A2-A04P TCGA-A2-A0CW TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EV 
       20.88        18.02        64.04        25.22        89.36        31.82 
TCGA-A2-A0T0 TCGA-A2-A0T7 TCGA-A2-A0YF TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25C 
       17.52        20.75        15.42        52.47        16.31        17.19 
TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CJ TCGA-A7-A0DA 
       83.01        38.40        24.39        26.96        30.61        35.67 
TCGA-A7-A26I TCGA-A7-A2KD TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A075 TCGA-A8-A07G 
       21.73        22.32        17.98        53.06        17.03        18.97 
TCGA-A8-A085 TCGA-A8-A08F TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A097 TCGA-A8-A09I 
       36.95        33.01        43.00        40.01        12.00        45.07 
TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09W TCGA-AC-A23H TCGA-AC-A2FM TCGA-AC-A2QI 
       25.02        19.04         0.99         2.66        26.04         0.92 
TCGA-AC-A2QJ TCGA-AC-A5XS TCGA-AC-A6IV TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ 
        2.27         1.55         1.18         0.62         2.96         8.02 
TCGA-AN-A0AL TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FV TCGA-AN-A0XN 
        6.51         6.44         4.64         7.59         0.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 
        0.33        80.28        81.63        68.75        47.87        32.78 
TCGA-AO-A0JL TCGA-AO-A12D TCGA-AQ-A54O TCGA-AR-A0TR TCGA-AR-A0TY TCGA-AR-A0TZ 
       55.33        64.04        32.91         5.26        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AR TCGA-AR-A24K 
       65.36        83.87        75.55        52.77        17.23        50.89 
TCGA-AR-A24M TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LL 
       96.89        78.48        73.18        72.76        93.83         7.36 
TCGA-AR-A2LM TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0RG 
       40.04       146.50       112.37       176.98        18.77        68.45 
TCGA-B6-A0RI TCGA-B6-A0RP TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A1KF TCGA-B6-A1KN 
      234.28       102.77       131.21       157.41       101.52       139.17 
TCGA-B6-A2IU TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B7 TCGA-BH-A0BP 
      170.17        28.50        40.83        39.55        56.98        48.69 
TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK 
       11.67        41.75        42.90        23.44        38.01        13.91 
TCGA-BH-A0DQ TCGA-BH-A0DZ TCGA-BH-A0E6 TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0HB 
        3.22        16.27         9.63        31.00        23.08        26.50 
TCGA-BH-A0WA TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1FG TCGA-BH-A1FM TCGA-BH-A1FN 
       23.05        69.93        12.00       122.89        45.63        72.07 
TCGA-BH-A1FU TCGA-BH-A202 TCGA-C8-A12U TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A1HG 
       72.07         0.72        12.66         1.78         0.69        11.34 
TCGA-C8-A1HI TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A 
       11.34         3.25         0.43         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-D8-A142 TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1X5 TCGA-D8-A1X9 
        0.99        13.97        18.90        12.03        18.58        23.90 
TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A27F 
       14.50        17.69        16.41         6.35        16.54        16.04 
TCGA-D8-A27N TCGA-E2-A10A TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14Z TCGA-E2-A155 
        4.80        40.41        38.24        38.60        17.03        21.04 
TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A1BD TCGA-E2-A1IO 
       25.05        20.71         7.73        19.56        17.10        20.98 
TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A9RU TCGA-E9-A1N6 
       39.62        24.59         8.75        43.04         9.21        13.48 
TCGA-E9-A1R4 TCGA-E9-A1RH TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A248 TCGA-E9-A3QA 
        6.12        34.59         0.79        13.32         1.94         0.62 
TCGA-E9-A3X8 TCGA-E9-A5UO TCGA-E9-A5UP TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P5 
       15.72        13.81        14.40        28.77        29.85        23.11 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FV TCGA-GM-A2DI TCGA-GM-A2DK TCGA-LL-A5YM 
        6.15        13.94        25.91        61.91        62.33        15.32 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RU 
       14.79         3.88         4.50         6.21        46.55        27.65 
TCGA-OL-A66K 
       33.57 

$`DEL PEAK 24(12P13.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO 
       47.24        13.68        31.79         7.96        39.32        28.01 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T 
       19.20        18.21       104.81        41.95        82.16        73.84 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       22.06        63.12        64.04        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 
       75.55        75.25         5.19        63.45        56.81        21.14 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EO TCGA-A2-A0EP 
       34.55        33.76        28.77       101.72        80.28       107.61 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW 
       79.76        74.40        37.05        35.05        34.29        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       24.72        24.16        99.19        54.64        27.12        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        44.28        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YG 
       17.46        18.90        32.55        25.28        18.21        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.67        14.50        18.61        19.33        48.46        31.73 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       23.77        23.47        17.36        36.79        22.45        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A25A TCGA-A2-A25D TCGA-A2-A25E 
       19.20        19.56        16.47       107.70        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV 
       10.59        20.88        39.65        33.93        29.98        32.75 
TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY 
       49.48        34.98        31.99        38.37         7.30        21.30 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       23.21        21.14        21.90        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       35.47        37.45        33.11        31.73        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       23.61        29.56        31.36        24.26        23.74        23.80 
TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF 
       20.61        11.34        10.59        10.29        11.28        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE 
       14.70        11.97        14.93        13.74        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       17.92        14.73        12.10        10.72        11.05        10.29 
TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q 
        9.37        10.42         8.75        13.02        13.02         1.02 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 
       29.03        31.00        26.01         1.02        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       43.00        19.99        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W 
        9.99        10.98         8.98         7.99        24.99         9.99 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B 
       28.04        18.05        15.06        13.02         0.99        38.01 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       28.96        19.96        12.00        37.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A091 TCGA-A8-A092 
       31.00         0.99        33.01        93.04        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       17.95        41.98         9.99         9.99        12.00         1.02 
TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       50.04        49.05        29.98        33.07         1.02         8.98 
TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
       15.02        14.01        12.00        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
        0.99        13.02        17.03        38.04         0.95         2.37 
TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
       10.85         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A3BB TCGA-AC-A3HN 
       36.99        38.79        50.70         1.02         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83        22.19         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A6IX 
       24.79         0.07         1.12         1.81         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y 
        1.68         1.74         1.12         1.32         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM 
        0.23         0.33         1.78         1.71         7.36         0.16 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN 
        0.33         0.33         0.33         7.96         7.00         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ 
        6.28         6.02         0.36         0.33         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        0.33        12.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03U 
        5.33         5.59        47.84        66.77        84.69        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       29.13        21.40        52.18        24.16        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
       22.36        53.03        21.53        50.70        50.86        72.00 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM 
       76.77        21.37        26.24        50.24        62.04        71.80 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
      102.58        99.25       108.72       106.78        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H 
       82.62        61.87        70.39         0.53        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       26.93       130.09         5.65        15.62        32.52         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99       111.32        49.32        74.79        86.66        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI 
       98.93        64.83       101.95       114.02        85.97        61.84 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       51.25        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.07        37.81        76.21        61.28        63.62        62.14 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       20.22       109.58        73.02        78.51        84.20         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
      101.52        87.22        76.01        53.36        85.35        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       83.77        79.00        56.15        58.92       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
       62.86        42.87        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      126.12        84.59       110.14       110.93       140.88       211.56 
TCGA-B6-A0RH TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ 
      189.01        81.17        78.02       172.96       162.05       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      100.70        89.46        97.48       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       21.47       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 
       68.94        58.88        43.59        73.51        85.35        54.28 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW 
       49.94       103.63        55.00        24.53        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 
       25.55        46.95        39.16        48.36        56.94        51.68 
TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       37.22        32.02        18.21        25.71        24.85        21.70 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       44.05        61.68        35.67        27.19        53.69        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD 
       45.57        49.94        49.05        44.02        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS 
       31.17        22.13        48.23        17.26        15.65         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       38.47        45.17        47.41         4.41        15.68        14.30 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        46.19        32.65        24.49        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       10.78        15.16        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
       12.89        51.32        27.25        50.79         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I 
       24.95        42.35        44.81         8.81         2.01         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
       20.12        90.84        26.66        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       55.63        37.55        66.05         7.36        51.39        51.16 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX 
       91.99       113.82        82.85        42.28        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       17.69        25.81        31.53        89.16        97.48        24.66 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FJ 
      120.62       114.15        33.17        74.73        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 
       55.00       144.59         6.90        38.60        83.31        57.83 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
      130.16        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
        8.94        11.93        11.77        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A132 
        0.07        12.66        12.66        12.66         3.12         1.45 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ 
        0.62         3.85         3.75        12.33        10.92         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
       12.03        10.42         2.30         0.30         0.23         0.36 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y 
        8.28         9.67         0.03         0.03         0.23        11.90 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
       20.88        13.25        20.58        14.17        13.48        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC 
       19.20        14.17        17.49        16.50        18.71        15.78 
TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.15        12.03        14.01        18.97        20.09        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.09        19.40        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB 
       14.70        17.79        16.73        25.74        27.58        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL 
        2.66        17.16        15.22        14.73        21.83        19.92 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
        7.96        15.85        16.31        12.99        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       15.32        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
        0.76        10.09        13.08        12.53        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 
       18.51         7.33        43.00        34.42        27.52        46.59 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O 
       37.51        40.11        28.44        28.87        47.15        44.68 
TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       40.96        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       31.96        28.60        25.41        27.12        23.24        19.43 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        23.34        22.82        17.29        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       18.21        12.92        17.42        19.40         9.04        20.58 
TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       13.02        17.06        14.07        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       53.03        29.95        32.35        28.50        16.47        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK 
       37.41        32.78        33.73        33.70        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
        3.88        22.19        11.08        54.18        27.42        19.66 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P5 
       40.47        28.90        18.87       106.75       102.61        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 
        5.52        15.72         7.20        30.61        34.92        19.89 
TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
       19.00        19.20        36.82        12.00        13.12        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       39.55        12.59        35.77        20.05        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R6 
       11.90        14.30         0.62         2.10         1.38         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
       21.21        32.09        20.81        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A22A 
        6.58        21.27        35.64        34.13        12.53        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
       22.75        12.89        23.51        24.10        17.06         0.69 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
        0.85        27.22         0.95        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        26.07        18.41        12.33         0.23        14.70 
TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.26        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW 
       18.90        13.25        16.57        15.68        25.94        22.82 
TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       29.95        40.41        41.13        39.78        52.96        29.82 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PE 
       18.48        30.08         7.86        18.90        19.99        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW 
       14.43        34.55        19.96        55.00        52.73        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 
       21.27        17.49        10.16        10.59         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
       59.57       194.27        53.13        53.52        43.04        42.71 
TCGA-GM-A2DH TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       42.28        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       18.12        11.84        11.57        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.60         8.75         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y 
       17.06        14.70        14.47        11.57         2.63         4.14 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         3.22         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RV TCGA-OL-A5RW 
        2.10        12.66        31.99        58.62        34.92        36.36 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       16.87        24.72        22.32        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO 
       65.62        31.07        26.04         7.23        14.07        28.21 
TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       19.73         0.23         0.16         0.26         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 
        6.81         8.65        10.59         7.92         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A 
        7.17         6.87         3.91         5.29         9.60         9.14 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                        234.28                         220.90 
  DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE 
                        22.320                         22.405 
[1] "0.0 - 234.3 (22.3)" "0.0 - 220.9 (22.4)"
[1] "hr=" "1.1"
D53V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 24(12P13.1) MUTATED        12       14        0        3        60
  DEL PEAK 24(12P13.1) WILD-TYPE      71       66        9        2       282
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 24(12P13.1) MUTATED          46         0         24         10
  DEL PEAK 24(12P13.1) WILD-TYPE       188         2        118         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 24(12P13.1) MUTATED            8        1         0       1
  DEL PEAK 24(12P13.1) WILD-TYPE         55       17         1      15
D53V3, multiclass
            clus
vv           DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  STAGE I                              12                             71
  STAGE IA                             14                             66
  STAGE IB                              0                              9
  STAGE II                              3                              2
  STAGE IIA                            60                            282
  STAGE IIB                            46                            188
  STAGE III                             0                              2
  STAGE IIIA                           24                            118
  STAGE IIIB                           10                             19
  STAGE IIIC                            8                             55
  STAGE IV                              1                             17
  STAGE TIS                             0                              1
  STAGE X                               1                             15
[1] 13  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(12P13.1) MUTATED    40 110  19  10
  DEL PEAK 24(12P13.1) WILD-TYPE 225 484 105  29
D53V4, multiclass
    clus
vv   DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  T1                           40                            225
  T2                          110                            484
  T3                           19                            105
  T4                           10                             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 24(12P13.1) MUTATED    85  59  20  10
  DEL PEAK 24(12P13.1) WILD-TYPE 396 280  93  64
D53V5, multiclass
    clus
vv   DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  N0                           85                            396
  N1                           59                            280
  N2                           20                             93
  N3                           10                             64
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 24(12P13.1) MUTATED          1 158   2  18
  DEL PEAK 24(12P13.1) WILD-TYPE        4 696  17 129
D53V6, multiclass
          clus
vv         DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                158                            696
  M1                                  2                             17
  MX                                 18                            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V7, binary
                                cls
clus                               0   1
  DEL PEAK 24(12P13.1) MUTATED   176   3
  DEL PEAK 24(12P13.1) WILD-TYPE 838   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(12P13.1) MUTATED    176    3
  DEL PEAK 24(12P13.1) WILD-TYPE  838    8
        clus
vv       DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  FEMALE                          176                            838
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 24(12P13.1) MUTATED                            0
  DEL PEAK 24(12P13.1) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 24(12P13.1) MUTATED                             152
  DEL PEAK 24(12P13.1) WILD-TYPE                           602
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 24(12P13.1) MUTATED                               15
  DEL PEAK 24(12P13.1) WILD-TYPE                            160
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 24(12P13.1) MUTATED                     1
  DEL PEAK 24(12P13.1) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 24(12P13.1) MUTATED                                  3
  DEL PEAK 24(12P13.1) WILD-TYPE                               26
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 24(12P13.1) MUTATED                    1              6
  DEL PEAK 24(12P13.1) WILD-TYPE                 14             38
D53V8, multiclass
                                  clus
vv                                 DEL PEAK 24(12P13.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             152
  INFILTRATING LOBULAR CARCINOMA                             15
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            3
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                              6
                                  clus
vv                                 DEL PEAK 24(12P13.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               602
  INFILTRATING LOBULAR CARCINOMA                              160
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             26
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V9, binary
                                cls
clus                               0   1
  DEL PEAK 24(12P13.1) MUTATED    55 124
  DEL PEAK 24(12P13.1) WILD-TYPE 227 619
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(12P13.1) MUTATED     55  124
  DEL PEAK 24(12P13.1) WILD-TYPE  227  619
     clus
vv    DEL PEAK 24(12P13.1) MUTATED DEL PEAK 24(12P13.1) WILD-TYPE
  NO                            55                            227
  YES                          124                            619
[1] 2 2
[1] FALSE
D53V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 24(12P13.1) MUTATED                                  0    13
  DEL PEAK 24(12P13.1) WILD-TYPE                                1    43
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(12P13.1) MUTATED                          26   124
  DEL PEAK 24(12P13.1) WILD-TYPE                       132   593
D53V11, multiclass
                                  clus
vv                                 DEL PEAK 24(12P13.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  26
  WHITE                                                     124
                                  clus
vv                                 DEL PEAK 24(12P13.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                   132
  WHITE                                                       593
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V12, binary
                                cls
clus                               0   1
  DEL PEAK 24(12P13.1) MUTATED     6 144
  DEL PEAK 24(12P13.1) WILD-TYPE  30 682
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(12P13.1) MUTATED      6  144
  DEL PEAK 24(12P13.1) WILD-TYPE   30  682
                        clus
vv                       DEL PEAK 24(12P13.1) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          144
                        clus
vv                       DEL PEAK 24(12P13.1) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            682
[1] 2 2
[1] FALSE

Clustering(54) Variable = DEL PEAK 25(12Q23.1) MUTATION ANALYSIS
D54V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 25(12Q23.1) MUTATED   163  25
  DEL PEAK 25(12Q23.1) WILD-TYPE 723  94
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                           188                            817 
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                            25                             94 
$`DEL PEAK 25(12Q23.1) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SP TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CL 
       48.10        13.68        19.20        73.84        22.06        64.57 
TCGA-A2-A0D1 TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A3XS 
       34.55        17.52        18.21        31.73        23.77        33.93 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S3 
       38.40        34.98        38.37        24.39        26.96        21.90 
TCGA-A7-A0CE TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A4SD 
       35.31        31.73        10.72        24.26        21.73        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06Z 
       21.17        17.92        10.29         9.37        10.42         1.02 
TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08L TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A09D 
       38.01        33.01         9.99         0.99        43.00        50.04 
TCGA-A8-A09Q TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2FO TCGA-AC-A2QJ 
       25.02         0.99        13.02         2.37        50.70         2.27 
TCGA-AC-A3W5 TCGA-AC-A8OQ TCGA-AN-A04C TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FJ 
       16.57         1.12         1.78         0.16         0.33         7.96 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AO-A03O TCGA-AO-A0J2 
        7.00         7.59         0.33        12.33        81.63        32.78 
TCGA-AO-A0J4 TCGA-AO-A0JB TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12F 
       52.18        50.70        55.33       102.58        96.10        48.36 
TCGA-AO-A1KQ TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AR-A0TS TCGA-AR-A0TX 
       61.87        24.79        26.93       130.09        74.79        64.83 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AP TCGA-AR-A1AQ 
       65.36       101.95        61.84        52.77        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A24K TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LL 
       17.23        50.89        78.48        73.18        93.83         7.36 
TCGA-AR-A2LN TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0RE TCGA-B6-A0RH 
       38.17       146.50       112.37       176.98       211.56       189.01 
TCGA-B6-A0RP TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A1KF TCGA-B6-A402 TCGA-B6-A408 
      102.77       131.21        21.47       101.52        54.28        49.94 
TCGA-BH-A0AV TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR 
       38.79        40.83        56.98        44.05        48.69        53.69 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E2 
       41.75        44.02        42.90        47.41         4.41        14.30 
TCGA-BH-A0EE TCGA-BH-A0H9 TCGA-BH-A0HY TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO 
       31.00        41.00        50.79        51.16        69.93        91.99 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F6 TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A208 
       12.00        55.69        97.48        72.07        72.07        57.83 
TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A1HG 
       11.77        12.66         3.12         1.78         0.62        11.34 
TCGA-C8-A26Y TCGA-C8-A275 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 
        0.43         0.03        12.20        11.90        13.25        13.97 
TCGA-D8-A143 TCGA-D8-A1X5 TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A27F 
       14.17        18.58        14.73        21.83        14.50        16.04 
TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A10C TCGA-E2-A14T TCGA-E2-A150 TCGA-E2-A159 
       13.08        12.53        40.11        33.30        25.41        25.05 
TCGA-E2-A1AZ TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1IO TCGA-E2-A1L7 
       60.53        32.35        17.10        33.73        20.98        27.42 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A573 
      106.75       102.61         8.75        43.04        16.93        34.92 
TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1RE 
       19.89         9.21        13.12        36.56        12.59        34.65 
TCGA-E9-A1RG TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UP 
       21.27        12.89        23.51         0.62        15.72        14.40 
TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A3U0 
       29.85        29.82         7.86         6.15        19.96        17.49 
TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DI TCGA-GM-A3NY 
       10.16         7.40       109.87        59.57        61.91        38.20 
TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A5YP TCGA-LL-A6FP 
       69.30        11.84         6.67         4.08        14.79        11.57 
TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66K 
        4.50         6.21        46.55        36.36        20.38        33.57 
TCGA-OL-A6VO TCGA-W8-A86G 
       28.21         5.29 

$`DEL PEAK 25(12Q23.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ 
       20.88        31.79         7.96        39.32        28.01        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W 
      104.81        18.02        41.95        82.16        63.12        64.04 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       55.43        36.13       136.73        24.79       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV 
       88.60       107.93        75.55        75.25         5.19        63.45 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
       64.04        56.81        21.14        33.76        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
      101.72        89.36        80.28       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
       37.05        35.05        34.29        31.82        29.75        24.72 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       24.16        99.19        54.64        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.13         8.38        18.71        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       18.90        20.75        32.55        25.28        15.42        21.90 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV 
       21.67        14.50        18.61        19.33        48.46        23.47 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 
       17.36        36.79        22.45        20.25        19.20        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU 
       91.92        10.59        20.88        39.65        83.01        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 
       32.75        49.48        31.99         7.30        21.30        23.21 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.14        38.30        34.29        35.47        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       35.67        33.11        12.72        23.61        29.56        31.36 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.74        23.80        20.61        22.32        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.29        11.28        13.41        14.70        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY 
       13.74        14.73        12.10        10.72        11.05         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
       13.02        13.02         1.02        17.98        53.06        29.03 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       31.00        26.01        17.03        53.98         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       19.99        18.97        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W 
        9.99        10.98         8.98         7.99        24.99         9.99 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
       28.04        18.05        15.06        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P 
       28.96        19.96        12.00        37.05        31.00        31.00 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       33.01        93.04        40.01        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       41.98        12.00         9.99         9.99        12.00         1.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       49.05        45.07        29.98        33.07         1.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       19.04        15.02         0.99        14.01        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       13.02        21.04        17.03        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        2.66         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB 
       36.99        38.79        26.04         1.02         0.92         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.69        14.83        22.19         1.12        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       24.79         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X 
        0.69         0.43         1.68         1.74         1.32         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D 
        0.33         0.23         0.33         0.62         2.96         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        8.02         7.36         6.51         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        4.64         7.17         6.28         6.02         0.33         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33         0.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         5.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       47.84        66.77        84.69        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       29.13        21.40        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.86        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        50.24        62.04        71.80        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
      106.78        90.58        77.56        64.04        57.30        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       28.37        14.73        82.62        70.39         0.53        17.79 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
        5.65        15.62        32.52         2.56        32.91         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
      111.32        49.32         5.26        86.66        29.75        98.93 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       55.86        76.14        83.87       114.02        85.97        75.55 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AS 
       51.25        48.82        62.56        43.73        43.56        37.81 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
       76.21        61.28        63.62        62.14        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        96.89        78.51        84.20         0.85       101.52 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
       87.22        76.01        53.36        85.35        50.96        83.77 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       79.00        56.15        72.76        58.92       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
       62.86        42.87        40.04        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       54.74        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      149.59        12.13       220.90       129.57        50.70        65.72 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ 
       18.77       126.12        84.59       110.14       110.93       140.88 
TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO 
       68.45       234.28        81.17        78.02       172.96       162.05 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      140.48       100.70        89.46       157.41        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       79.63        17.98       113.79       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A1KN 
       28.27        68.94        58.88        43.59        73.51       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
      170.17        85.35       103.63        55.00        24.53        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       25.55        28.50        46.95        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       56.94        51.68        37.22        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS 
       24.85        21.70        61.68        35.67        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DD 
       45.57        49.94        11.67        49.05        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       31.17        23.44        38.01        22.13        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       17.26        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       16.27        15.68         9.63        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       24.49        24.43        30.35        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       35.51        24.56        23.08        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
        5.85         2.50        13.61        36.85        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       27.25         5.59        23.93        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       23.05         8.81         2.01         7.23        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       26.66        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       66.05         7.36        51.39       113.82        82.85        42.28 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 
       49.58        17.69        25.81        31.53        89.16        24.66 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
      120.62       114.15        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00        45.63       144.59         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       38.60        83.31       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A132 
       12.66         0.07        12.66        12.66        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI 
        0.69         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
        0.16        12.03        10.42         2.30         3.25         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A278 
        0.23         0.36         8.28         9.67         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A145 
        0.99         0.03         0.23        20.88        20.58        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       21.14        19.20        14.17        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       15.78        18.15        18.90        12.03        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       18.97        20.09        20.12        20.09        19.40        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 
       21.01        12.20        13.32        14.70        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       25.74        23.90        27.58        18.15         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       15.22        19.92        17.69         7.96        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY 
       16.31         6.35        12.99        15.16        12.66        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       15.32        15.52         3.81        14.24        14.14        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        4.80         0.76        10.09        12.26        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
        7.33        43.00        34.42        27.52        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       37.51        28.44        28.87        47.15        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.24        38.60        33.17        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       31.96        28.60        17.03        27.12        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        23.34        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       20.71        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B6 
       14.07        14.99        53.62        53.03        29.95        28.50 
TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ 
       16.47        38.30        37.41        32.78        33.70        28.44 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 
       22.65         3.88        22.19        11.08        54.18        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A2P6 
       19.66        24.59        40.47        28.90        18.87         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 
       15.72         7.20        30.61        19.00        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       13.48        12.00        39.55        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
        9.86        11.90        14.30         0.62         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
        1.38         2.76        21.21        32.09        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
        0.66         6.58        34.59        35.64        34.13         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 
       12.53        13.32        39.09        22.75        24.10        17.06 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
        0.69         0.85        27.22         1.94         0.95        24.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54X 
        0.72        17.75         0.76        26.07        18.41        12.33 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
        0.23        14.70         0.26        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 
       39.72         8.48        18.21        18.90        13.25        16.57 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ 
       15.68        28.77        25.94        22.82        29.95        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       41.13        39.78        52.96        23.11        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       18.90        19.99        13.94        10.52        14.43        34.55 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 
       55.00        52.73        25.91        22.09        21.27        10.59 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
      194.27        53.13        53.52        43.04        42.71        42.28 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       62.33        90.84        76.64        77.33        53.36       110.50 
TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       43.73        66.38        72.03        13.55        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
       21.24         4.60         8.75         9.53        11.44        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ 
        7.59        17.06        15.32        14.70        14.47         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 
        3.88         4.14         4.50         5.59         3.22         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.79         2.10        12.66        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H 
       27.65        34.92        16.87        24.72        22.32        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       23.47        65.62        31.07        26.04         7.23        14.07 
TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       19.73         0.23         0.16         0.26         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 
        6.81         8.65        10.59         7.92         5.56         8.52 
TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        7.17         6.87         3.91         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE 
                        26.945                         21.670 
[1] "0.0 - 211.6 (26.9)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1"  
D54V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 25(12Q23.1) MUTATED        17        8        0        1        70
  DEL PEAK 25(12Q23.1) WILD-TYPE      66       72        9        4       272
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 25(12Q23.1) MUTATED          47         0         26          8
  DEL PEAK 25(12Q23.1) WILD-TYPE       187         2        116         21
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 25(12Q23.1) MUTATED           13        2         0       1
  DEL PEAK 25(12Q23.1) WILD-TYPE         50       16         1      15
D54V3, multiclass
            clus
vv           DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  STAGE I                              17                             66
  STAGE IA                              8                             72
  STAGE IB                              0                              9
  STAGE II                              1                              4
  STAGE IIA                            70                            272
  STAGE IIB                            47                            187
  STAGE III                             0                              2
  STAGE IIIA                           26                            116
  STAGE IIIB                            8                             21
  STAGE IIIC                           13                             50
  STAGE IV                              2                             16
  STAGE TIS                             0                              1
  STAGE X                               1                             15
[1] 13  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(12Q23.1) MUTATED    35 126  22  10
  DEL PEAK 25(12Q23.1) WILD-TYPE 230 468 102  29
D54V4, multiclass
    clus
vv   DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  T1                           35                            230
  T2                          126                            468
  T3                           22                            102
  T4                           10                             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 25(12Q23.1) MUTATED    97  58  23  13
  DEL PEAK 25(12Q23.1) WILD-TYPE 384 281  90  61
D54V5, multiclass
    clus
vv   DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  N0                           97                            384
  N1                           58                            281
  N2                           23                             90
  N3                           13                             61
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 25(12Q23.1) MUTATED          0 166   2  26
  DEL PEAK 25(12Q23.1) WILD-TYPE        5 688  17 121
D54V6, multiclass
          clus
vv         DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  CM0 (I+)                            0                              5
  M0                                166                            688
  M1                                  2                             17
  MX                                 26                            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V7, binary
                                cls
clus                               0   1
  DEL PEAK 25(12Q23.1) MUTATED   193   1
  DEL PEAK 25(12Q23.1) WILD-TYPE 821  10
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(12Q23.1) MUTATED    193    1
  DEL PEAK 25(12Q23.1) WILD-TYPE  821   10
        clus
vv       DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  FEMALE                          193                            821
  MALE                              1                             10
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 25(12Q23.1) MUTATED                            0
  DEL PEAK 25(12Q23.1) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 25(12Q23.1) MUTATED                             157
  DEL PEAK 25(12Q23.1) WILD-TYPE                           597
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 25(12Q23.1) MUTATED                               20
  DEL PEAK 25(12Q23.1) WILD-TYPE                            155
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 25(12Q23.1) MUTATED                     3
  DEL PEAK 25(12Q23.1) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 25(12Q23.1) MUTATED                                  4
  DEL PEAK 25(12Q23.1) WILD-TYPE                               25
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 25(12Q23.1) MUTATED                    0             10
  DEL PEAK 25(12Q23.1) WILD-TYPE                 15             34
D54V8, multiclass
                                  clus
vv                                 DEL PEAK 25(12Q23.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             157
  INFILTRATING LOBULAR CARCINOMA                             20
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            4
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 25(12Q23.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               597
  INFILTRATING LOBULAR CARCINOMA                              155
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             25
  MUCINOUS CARCINOMA                                           15
  OTHER  SPECIFY                                               34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V9, binary
                                cls
clus                               0   1
  DEL PEAK 25(12Q23.1) MUTATED    54 140
  DEL PEAK 25(12Q23.1) WILD-TYPE 228 603
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(12Q23.1) MUTATED     54  140
  DEL PEAK 25(12Q23.1) WILD-TYPE  228  603
     clus
vv    DEL PEAK 25(12Q23.1) MUTATED DEL PEAK 25(12Q23.1) WILD-TYPE
  NO                            54                            228
  YES                          140                            603
[1] 2 2
[1] FALSE
D54V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 25(12Q23.1) MUTATED                                  0    13
  DEL PEAK 25(12Q23.1) WILD-TYPE                                1    43
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(12Q23.1) MUTATED                          45   122
  DEL PEAK 25(12Q23.1) WILD-TYPE                       113   595
D54V11, multiclass
                                  clus
vv                                 DEL PEAK 25(12Q23.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  45
  WHITE                                                     122
                                  clus
vv                                 DEL PEAK 25(12Q23.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                   113
  WHITE                                                       595
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V12, binary
                                cls
clus                               0   1
  DEL PEAK 25(12Q23.1) MUTATED     6 163
  DEL PEAK 25(12Q23.1) WILD-TYPE  30 663
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(12Q23.1) MUTATED      6  163
  DEL PEAK 25(12Q23.1) WILD-TYPE   30  663
                        clus
vv                       DEL PEAK 25(12Q23.1) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          163
                        clus
vv                       DEL PEAK 25(12Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            663
[1] 2 2
[1] FALSE

Clustering(55) Variable = DEL PEAK 26(12Q24.31) MUTATION ANALYSIS
D55V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 26(12Q24.31) MUTATED   165  27
  DEL PEAK 26(12Q24.31) WILD-TYPE 721  92
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                            192                             813 
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                             27                              92 
$`DEL PEAK 26(12Q24.31) MUTATED`
TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T 
       43.43        48.10        13.68        19.20        18.02        73.84 
TCGA-A2-A04U TCGA-A2-A0CO TCGA-A2-A0D1 TCGA-A2-A0ES TCGA-A2-A0EY TCGA-A2-A0SV 
       22.06       112.08        34.55        37.05        24.16        27.12 
TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YT TCGA-A2-A3XS TCGA-A2-A3XX TCGA-A2-A3XY 
       17.52        18.21        23.77        33.93        38.40        34.98 
TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A13D 
       38.37        24.39        26.96        35.31        34.29        31.73 
TCGA-A7-A13E TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A4SA TCGA-A7-A4SD 
       10.72        29.56        24.26        21.73        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06Z 
       21.17        17.92        10.29         9.37        10.42         1.02 
TCGA-A8-A07R TCGA-A8-A08B TCGA-A8-A08L TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A09D 
        8.98        38.01         9.99         0.99        43.00        50.04 
TCGA-A8-A09Q TCGA-A8-A09X TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2FO 
       25.02        14.01         0.99        13.02         2.37        50.70 
TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A8OQ TCGA-AN-A04C TCGA-AN-A0AJ 
        2.27        16.57        19.79         1.12         1.78         8.02 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FT 
        0.33         0.33         7.96         7.00         7.59         6.02 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XU TCGA-AO-A03O TCGA-AO-A0J2 
        0.33         0.33        12.33         0.33        81.63        32.78 
TCGA-AO-A0J4 TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 
       52.18        50.70        72.00        55.33       102.58        96.10 
TCGA-AO-A12F TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A1AI 
       48.36        26.93       130.09        64.83        65.36        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A251 
       52.77        43.07        17.23        50.89       101.52        78.48 
TCGA-AR-A252 TCGA-AR-A2LL TCGA-AR-A2LN TCGA-B6-A0IH TCGA-B6-A0RE TCGA-B6-A0RP 
       73.18         7.36        38.17       112.37       211.56       102.77 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WX TCGA-B6-A1KF TCGA-B6-A402 TCGA-B6-A408 
      131.21       157.41        21.47       101.52        54.28        49.94 
TCGA-BH-A0AV TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0BL TCGA-BH-A0BP 
       38.79        46.95        40.83        56.98        44.05        48.69 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E2 
       41.75        44.02        42.90        47.41         4.41        14.30 
TCGA-BH-A0EE TCGA-BH-A0H9 TCGA-BH-A0HY TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO 
       31.00        41.00        50.79        51.16        69.93        91.99 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1FN TCGA-BH-A1FU 
       12.00        55.69        17.69        97.48        72.07        72.07 
TCGA-BH-A202 TCGA-BH-A208 TCGA-C8-A12U TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A135 
        0.72        57.83        12.66         1.78         1.45         0.62 
TCGA-C8-A1HG TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A142 
       11.34         0.43         0.03        12.20        11.90        13.97 
TCGA-D8-A143 TCGA-D8-A1JD TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1XJ TCGA-D8-A1XK 
       14.17        18.15        20.12        19.40        21.83        14.50 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A27M TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A10C 
        7.96        16.41        13.48        13.08        12.53        40.11 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15E 
       38.60        33.30        25.41        19.43        25.05        20.71 
TCGA-E2-A1AZ TCGA-E2-A1BD TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1LG TCGA-E2-A1LH 
       60.53        17.10        20.98        27.42        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A9RU 
      102.61         8.75        16.93        34.92        19.89         9.21 
TCGA-E9-A1N9 TCGA-E9-A1R2 TCGA-E9-A1RG TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A3QA 
       13.12         0.62        21.27        12.89         0.69         0.62 
TCGA-E9-A3X8 TCGA-E9-A5UP TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PH 
       15.72        14.40        29.85        29.82         7.86        19.96 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DI TCGA-GM-A3NY TCGA-GM-A3XL TCGA-JL-A3YW 
        7.40       109.87        61.91        38.20        69.30        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A5YP TCGA-LL-A73Z TCGA-OL-A5RZ 
       21.24         6.67         4.08        14.79         4.50        22.32 
TCGA-OL-A5S0 TCGA-OL-A66K TCGA-OL-A6VO TCGA-S3-AA10 TCGA-S3-AA17 TCGA-W8-A86G 
       20.38        33.57        28.21         7.92         3.91         5.29 

$`DEL PEAK 26(12Q24.31) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        0.39         8.52        14.37        14.27        47.24        20.88 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        39.32        28.01        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        82.16        63.12        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      136.73        64.57        24.79        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX 
       75.55        75.25         5.19        63.45        64.04        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       21.14        33.76        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ET TCGA-A2-A0EU 
       80.28       107.61        79.76        74.40        35.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW 
       31.82        29.75        24.72        99.19        54.64        44.88 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       50.43        44.28        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
       17.46        18.90        20.75        32.55        25.28        15.42 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       21.90        21.67        14.50        18.61        19.33        48.46 
TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       31.73        23.47        17.36        36.79        22.45        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B 
       19.20        19.56        16.47        52.47       107.70        16.31 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW 
       83.01        29.98        32.75        49.48        31.99         7.30 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CH 
       21.30        23.21        21.14        21.90        38.30        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G 
       30.61        37.45        35.67        33.11        12.72        23.61 
TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       31.36        23.74        23.80        20.61        22.32        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       10.59        10.29        11.28        13.41        14.70        11.97 
TCGA-A7-A4SB TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY 
       13.74        14.73        12.10        10.72        11.05         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
       13.02        13.02         1.02        17.98        53.06        29.03 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       31.00        26.01        17.03        53.98         9.01        43.00 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       19.99        18.97        18.97        14.01        12.00        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z 
        9.99        10.98         7.99        24.99         9.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C 
       18.05        15.06        36.95        13.02         0.99        28.96 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P 
       33.01        19.96        12.00        37.05        31.00        31.00 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       33.01        93.04        40.01        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C 
       41.98        12.00         9.99         9.99        12.00         1.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       49.05        45.07        29.98        33.07         1.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 
       19.04        15.02         0.99        12.00        19.04        13.02 
TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H 
       21.04        17.03        38.04         0.95        10.85         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        1.48        38.53        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        26.04         1.02         0.92         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
       14.83        22.19         1.12        23.24        24.79         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
        0.07         1.12         1.81         1.18         0.69         0.43 
TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.68         1.74         1.32         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL 
        0.33         0.62         2.96         1.71         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS 
        0.16         0.33         6.44         4.64         7.17         6.28 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XP 
        0.33         0.36         0.33         0.33         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         5.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
       47.84        66.77        84.69        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       29.13        21.40        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
       53.03        21.53        50.86        76.77        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       50.24        62.04        71.80        99.25       108.72       106.78 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H 
       90.58        77.56        64.04        57.30        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       14.73        82.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O 
       24.79         5.65        15.62        32.52         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
        9.99       111.32        49.32         5.26        74.79        86.66 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       29.75        98.93        55.86        76.14       101.95        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
      114.02        85.97        75.55        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       43.73        43.56        39.98        37.81        76.21        61.28 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M 
       63.62        62.14        20.22       109.58        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U 
       78.51        84.20         0.85        87.22        76.01        53.36 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 
       85.35        50.96        83.77        79.00        56.15        72.76 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       58.92        93.83       128.65        20.25        62.86        42.87 
TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        39.39        40.54        20.38        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       20.45        10.59        77.62       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IJ 
      220.90       129.57        50.70        65.72       146.50       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ 
       18.77       126.12        84.59       110.14       110.93       140.88 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
       68.45       189.01       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0WS TCGA-B6-A0WT 
      162.05       140.48       100.70        89.46        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       79.63        17.98       113.79       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A1KN 
       28.27        68.94        58.88        43.59        73.51       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
      170.17        85.35       103.63        55.00        24.53        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 
       25.55        28.50        39.55        39.16        48.36        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       51.68        37.22        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
       21.70        61.68        35.67        27.19        53.69        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DD 
       45.57        49.94        11.67        49.05        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       31.17        23.44        38.01        22.13        13.91        48.23 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       17.26        15.65         3.22         2.56        38.47        45.17 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       16.27        15.68         9.63        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       24.49        24.43        30.35        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       35.51        24.56        23.08        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
        5.85         2.50        13.61        36.85        12.89        51.32 
TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       27.25         5.59        23.93        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       23.05         8.81         2.01         7.23        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       26.66        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       66.05         7.36        51.39       113.82        82.85        42.28 
TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       49.58        25.81        31.53        89.16        24.66       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
      114.15        33.17        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 
       55.00        45.63       144.59         6.90        38.60        83.31 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
      130.16        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
        8.94        11.93        11.77        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A134 
        0.07        12.66        12.66        12.66         3.12         0.69 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ 
        3.85         3.75        12.33        10.92        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       12.03        10.42         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27B 
        0.36         8.28         9.67         0.03         0.03         0.99 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 
        0.03         0.23        20.88        13.25        20.58        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       21.14        19.20        14.17        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       15.78        18.90        12.03        12.03        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       20.09        20.09        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       14.70        18.58        17.79        16.73        25.74        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG 
       27.58        18.15         2.66        17.16        15.22        14.73 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU 
       19.92        17.69        15.85        16.31         6.35        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       15.16        12.66        16.54        15.32        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       14.24        14.14        17.42        16.04        13.45        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R 
       14.43         9.44        16.41         4.80         0.76        10.09 
TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 
       12.26        14.50        18.51         7.33        43.00        34.42 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       27.52        46.59        40.41        37.51        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U 
       47.15        44.68        40.96        38.24        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 
       34.26        32.02        31.96        28.60        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C 
       23.24        21.04        23.87        14.79        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       17.29        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.07        14.99        53.62        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       28.50        16.47        38.30        37.41        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       33.70        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       54.18        39.62        19.66        24.59        40.47        28.90 
TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 
       43.04         5.52        15.72         7.20        30.61        19.00 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.20        36.82        13.48        12.00        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       12.59        35.77        20.05        21.57         9.86        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
       14.30         2.10         6.12         1.38         2.76        21.21 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF 
       32.09        20.81        40.24         0.66        34.65         6.58 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.59        35.64        34.13         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
       39.09        22.75        23.51        24.10        17.06         0.85 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
       27.22         1.94         0.95        24.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        26.07        18.41        12.33         0.23        14.70 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26        13.81        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
       18.21        18.90        13.25        16.57        15.68        28.77 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       25.94        22.82        29.95        40.41        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB 
       52.96        23.11        18.48        30.08        18.90        19.99 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR 
        6.15        13.94        10.52        14.43        34.55        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       52.73        25.91        22.09        21.27        17.49        10.16 
TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
       10.59        59.57       194.27        53.13        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       42.71        42.28        62.33        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       53.36       110.50        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
       18.12        11.57         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
       10.95         7.59        17.06        15.32        14.70        14.47 
TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ 
       11.57         2.63         3.88         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        3.22         6.21         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       36.36        16.87        24.72        26.70        23.47        65.62 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV 
       31.07        26.04         7.23        14.07        19.73         0.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH 
        0.16         0.26         3.95        16.50         6.81         8.65 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-XX-A899 
       10.59         5.56         8.52         7.17         6.87         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE 
                          21.78                           22.75 
[1] "0.0 - 211.6 (21.8)" "0.0 - 234.3 (22.8)"
[1] "hr=" "1.3"
D55V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 26(12Q24.31) MUTATED        16       11        0        2        67
  DEL PEAK 26(12Q24.31) WILD-TYPE      67       69        9        3       275
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 26(12Q24.31) MUTATED          51         0         25          6
  DEL PEAK 26(12Q24.31) WILD-TYPE       183         2        117         23
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 26(12Q24.31) MUTATED           15        3         0       1
  DEL PEAK 26(12Q24.31) WILD-TYPE         48       15         1      15
D55V3, multiclass
            clus
vv           DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  STAGE I                               16                              67
  STAGE IA                              11                              69
  STAGE IB                               0                               9
  STAGE II                               2                               3
  STAGE IIA                             67                             275
  STAGE IIB                             51                             183
  STAGE III                              0                               2
  STAGE IIIA                            25                             117
  STAGE IIIB                             6                              23
  STAGE IIIC                            15                              48
  STAGE IV                               3                              15
  STAGE TIS                              0                               1
  STAGE X                                1                              15
[1] 13  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(12Q24.31) MUTATED    36 130  23   8
  DEL PEAK 26(12Q24.31) WILD-TYPE 229 464 101  31
D55V4, multiclass
    clus
vv   DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  T1                            36                             229
  T2                           130                             464
  T3                            23                             101
  T4                             8                              31
[1] 4 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  N3
  DEL PEAK 26(12Q24.31) MUTATED   101  58  22  15
  DEL PEAK 26(12Q24.31) WILD-TYPE 380 281  91  59
D55V5, multiclass
    clus
vv   DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  N0                           101                             380
  N1                            58                             281
  N2                            22                              91
  N3                            15                              59
[1] 4 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                              CM0 (I+)  M0  M1  MX
  DEL PEAK 26(12Q24.31) MUTATED          1 172   3  22
  DEL PEAK 26(12Q24.31) WILD-TYPE        4 682  16 125
D55V6, multiclass
          clus
vv         DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  CM0 (I+)                             1                               4
  M0                                 172                             682
  M1                                   3                              16
  MX                                  22                             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V7, binary
                                 cls
clus                                0   1
  DEL PEAK 26(12Q24.31) MUTATED   198   0
  DEL PEAK 26(12Q24.31) WILD-TYPE 816  11
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 26(12Q24.31) MUTATED    198    0
  DEL PEAK 26(12Q24.31) WILD-TYPE  816   11
        clus
vv       DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  FEMALE                           198                             816
  MALE                               0                              11
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 26(12Q24.31) MUTATED                            0
  DEL PEAK 26(12Q24.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 26(12Q24.31) MUTATED                             153
  DEL PEAK 26(12Q24.31) WILD-TYPE                           601
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 26(12Q24.31) MUTATED                               26
  DEL PEAK 26(12Q24.31) WILD-TYPE                            149
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 26(12Q24.31) MUTATED                     3
  DEL PEAK 26(12Q24.31) WILD-TYPE                   3
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 26(12Q24.31) MUTATED                                  6
  DEL PEAK 26(12Q24.31) WILD-TYPE                               23
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 26(12Q24.31) MUTATED                    0             10
  DEL PEAK 26(12Q24.31) WILD-TYPE                 15             34
D55V8, multiclass
                                  clus
vv                                 DEL PEAK 26(12Q24.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              153
  INFILTRATING LOBULAR CARCINOMA                              26
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             6
  MUCINOUS CARCINOMA                                           0
  OTHER  SPECIFY                                              10
                                  clus
vv                                 DEL PEAK 26(12Q24.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                601
  INFILTRATING LOBULAR CARCINOMA                               149
  MEDULLARY CARCINOMA                                            3
  MIXED HISTOLOGY (PLEASE SPECIFY)                              23
  MUCINOUS CARCINOMA                                            15
  OTHER  SPECIFY                                                34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V9, binary
                                 cls
clus                                0   1
  DEL PEAK 26(12Q24.31) MUTATED    54 144
  DEL PEAK 26(12Q24.31) WILD-TYPE 228 599
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 26(12Q24.31) MUTATED     54  144
  DEL PEAK 26(12Q24.31) WILD-TYPE  228  599
     clus
vv    DEL PEAK 26(12Q24.31) MUTATED DEL PEAK 26(12Q24.31) WILD-TYPE
  NO                             54                             228
  YES                           144                             599
[1] 2 2
[1] FALSE
D55V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 26(12Q24.31) MUTATED                                  0    11
  DEL PEAK 26(12Q24.31) WILD-TYPE                                1    45
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(12Q24.31) MUTATED                          41   131
  DEL PEAK 26(12Q24.31) WILD-TYPE                       117   586
D55V11, multiclass
                                  clus
vv                                 DEL PEAK 26(12Q24.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       11
  BLACK OR AFRICAN AMERICAN                                   41
  WHITE                                                      131
                                  clus
vv                                 DEL PEAK 26(12Q24.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         45
  BLACK OR AFRICAN AMERICAN                                    117
  WHITE                                                        586
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V12, binary
                                 cls
clus                                0   1
  DEL PEAK 26(12Q24.31) MUTATED     5 165
  DEL PEAK 26(12Q24.31) WILD-TYPE  31 661
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 26(12Q24.31) MUTATED      5  165
  DEL PEAK 26(12Q24.31) WILD-TYPE   31  661
                        clus
vv                       DEL PEAK 26(12Q24.31) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           165
                        clus
vv                       DEL PEAK 26(12Q24.31) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             661
[1] 2 2
[1] FALSE

Clustering(56) Variable = DEL PEAK 27(13Q14.2) MUTATION ANALYSIS
D56V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 27(13Q14.2) MUTATED   403  59
  DEL PEAK 27(13Q14.2) WILD-TYPE 483  60
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                           462                            543 
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                            59                             60 
$`DEL PEAK 27(13Q14.2) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SN 
       14.37        43.43        20.88        13.68        31.79        39.32 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T 
       28.01        19.20        18.21        41.95        82.16        73.84 
TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
       55.43        24.79       112.08        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 
       63.45        64.04        56.81        21.14        34.55        25.22 
TCGA-A2-A0EO TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0SV TCGA-A2-A0SW 
       80.28        74.40        34.29        31.82        27.12        44.88 
TCGA-A2-A0T4 TCGA-A2-A0YE TCGA-A2-A0YI TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       20.52        18.21        14.50        48.46        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A25E TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW 
       23.47        17.36        91.92        83.01        29.98        49.48 
TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S2 
       38.40        38.37         7.30        24.39        26.96        21.14 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       38.30        35.31        30.61        31.73        10.72        12.72 
TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A4SA 
       31.36        23.74        21.73        22.32        10.59        14.93 
TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       14.50        17.92        10.29         9.37        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y 
       13.02        17.98        53.06        29.03        31.00        26.01 
TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I 
        1.02        53.98         9.01        43.00        18.97        14.01 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A085 
       17.03         9.99        10.98         8.98         9.99        36.95 
TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08O 
       13.02        38.01        33.01        12.00         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B 
       31.00        33.01        30.97        41.98         9.99        12.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09W 
       45.07        29.98        33.07         1.02        25.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E 
       14.01        19.04        13.02        17.03        38.04         2.37 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3W5 
       38.53        38.20         1.02         2.27         0.99        16.57 
TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03X 
       19.79         1.12         1.81         0.69         1.74         0.33 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.33         2.96         1.78         1.71         8.02         6.51 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL 
        0.33         0.33         6.28         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33        12.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J3 
       80.28        66.77        81.63        68.75        47.87        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       52.18        37.48        76.77        26.24        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12E 
       55.33        71.80       102.58       108.72        96.10        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       48.36        41.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O 
       24.79        26.93       130.09        15.62         2.56        32.91 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TZ 
        9.99       111.32         5.26        29.75        64.83        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       65.36       101.95        83.87        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24K 
       52.77        51.25        17.23        63.62        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W 
       73.02        78.51       101.52        76.01        85.35        50.96 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 
       79.00        56.15        78.48        73.18        72.76        58.92 
TCGA-AR-A2LK TCGA-AR-A5QM TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IE 
       42.87        54.74        10.59        77.62       129.57        65.72 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RP TCGA-B6-A0RQ 
      140.88       211.56        68.45        81.17       102.77       140.48 
TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0X5 
      131.21        97.48        79.63        17.98        21.47        68.94 
TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       43.59       101.52        73.51       139.17       170.17        85.35 
TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       49.94        38.79        20.45        25.55        28.50        46.95 
TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.16        56.94        56.98        51.68        37.22        32.02 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW 
       21.70        44.05        48.69        53.69        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DH 
       49.05        41.75        44.02        42.90        45.83        38.01 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E6 
       13.91        48.23        15.65         3.22         4.41         9.63 
TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HB 
       46.19        31.00        10.78        15.16        23.08        26.50 
TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W7 TCGA-BH-A0WA 
       12.89        27.25         5.59        23.93        44.81        23.05 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       90.84        26.66        55.63        66.05         7.36        51.39 
TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 
       69.93        42.28        12.00        55.69        17.69        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FJ 
       24.66       114.15        33.17        74.73        36.92        63.35 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A209 TCGA-BH-A28Q TCGA-C8-A12M 
       72.07        72.07         0.72       130.16         6.44        11.77 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF 
       12.66        11.77        12.66         0.62         3.75        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HN TCGA-C8-A26V 
       11.34        11.34         0.16        12.03         3.25         0.30 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M8 
        0.36         0.43         0.03         0.03         0.99         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 
       11.90        20.88        13.25        13.97        14.17        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC 
       21.14        19.20        14.17        17.49        16.50        15.78 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL 
       18.15        18.90        12.03        18.97        20.12        20.09 
TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X9 
       19.40        21.01        13.32        18.58        17.79        23.90 
TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XR TCGA-D8-A1XU 
       27.58        17.16        14.50        19.92        15.85        12.99 
TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27F 
       16.54        15.52         3.81        14.24        14.14        16.04 
TCGA-D8-A27I TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A107 
       14.43         4.80        10.09        13.08        12.53        34.42 
TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14T TCGA-E2-A14V 
       46.59        40.11        47.15        44.68        33.30        34.26 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A155 TCGA-E2-A156 
       32.02        31.96        25.41        27.12        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15G TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
       14.79        25.05        18.21         7.73        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1II 
       17.06        14.07        60.53        38.30        32.78        33.70 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LG 
        3.88        22.19        20.98        39.62        24.59        18.87 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A576 TCGA-E9-A1N6 
        8.75        43.04        16.93         7.20        19.00        13.48 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NI TCGA-E9-A1R2 
       12.00        13.12        36.56        35.77         9.86         0.62 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG 
        2.76        32.09        20.81        40.24         0.66        21.27 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       12.89        23.51        24.10        27.22         1.94         0.95 
TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A5UP 
        0.72        26.07         0.62         0.23        13.81        14.40 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ 
       15.39        12.20        25.94        22.82        29.85        40.41 
TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC 
       52.96        23.11        30.08         7.86        18.90         6.15 
TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-GM-A2DC 
       14.43        19.96        52.73        17.49        53.13        53.52 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DL TCGA-GM-A3NW TCGA-GM-A3XL TCGA-GM-A5PX 
       43.04        42.71        90.84       110.50        69.30        18.12 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
       21.24         6.67         4.08        15.32        14.70        14.47 
TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 
       14.79        11.57         3.88         5.59         3.22        27.91 
TCGA-MS-A51U TCGA-OL-A5D7 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 
        2.79        46.55        58.62        36.36        22.32        20.38 
TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66N TCGA-OL-A66O TCGA-PL-A8LV TCGA-S3-A6ZG 
       23.47        33.57        26.04         7.23         0.23         6.81 
TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA14 TCGA-S3-AA17 TCGA-XX-A89A TCGA-Z7-A8R5 
        8.65         7.92         7.17         3.91         9.14       100.01 

$`DEL PEAK 27(13Q14.2) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SM 
        0.39         8.52        48.10        14.27        47.24         7.96 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y 
      104.81        18.02        22.06        63.12        64.04        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0D2 
      136.73        64.57        92.48        88.60       107.93        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ES 
       28.77       101.72        89.36       107.61        79.76        37.05 
TCGA-A2-A0ET TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU 
       35.05        29.75        24.72        24.16        99.19        54.64 
TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 
       50.43        44.28        17.52        17.13         8.38        18.71 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
       17.46        18.90        20.75        32.55        25.28        15.42 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A1FX TCGA-A2-A1FZ 
       21.90        21.67        18.61        19.33        36.79        22.45 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       20.25        19.20        19.56        16.47        52.47       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       16.31        17.19        18.15        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RY TCGA-A2-A4S0 
       33.93        32.75        34.98        31.99        21.30        23.21 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB 
       21.90        34.29        35.47        37.45        35.67        33.11 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY 
       23.61        29.56        24.26        23.80        20.61        11.34 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB 
       10.29        11.28        13.41        14.70        11.97        13.74 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06P 
       21.17        14.73        12.10        10.72        11.05        13.02 
TCGA-A8-A06Q TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07S 
        1.02        17.03        19.99        18.97        12.00         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08C 
       24.99        28.04        18.05        15.06         0.99        28.96 
TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       19.96        37.05         0.99        93.04        43.00        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D 
       33.01        17.95        12.00         9.99         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A4 
       49.05         8.98        19.04        15.02        12.00        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 
       21.04         0.99         0.95        10.85         2.66         1.48 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QI TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI 
        0.92         0.69        14.83        22.19         1.12        23.24 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
       24.79         1.55         0.07         1.18         0.43         1.68 
TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A0AK 
        1.12         1.32         0.33         0.23         0.62         7.36 
TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK 
        0.16         0.33         6.44         4.64         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FZ 
        7.59         7.17         6.02         0.33         0.36         0.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03U 
        0.30         0.33         0.33        47.84        84.69        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       29.13        32.78        24.16        20.32        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A125 
       21.53        50.70        50.86        72.00        21.37        99.25 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12H TCGA-AO-A1KO 
      106.78        90.58        77.56        64.04        28.37        14.73 
TCGA-AO-A1KP TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT 
       82.62         5.65        32.52        49.32        74.79        86.66 
TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U3 TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       98.93        55.86       114.02        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       43.56        39.98        43.07        37.81        76.21        61.28 
TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       62.14       109.58        96.89        84.20         0.85        87.22 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       53.36        83.77        93.83       128.65        20.25        62.86 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       16.04        20.45       143.38       149.59        12.13       220.90 
TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
       50.70       146.50       112.37       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM 
       84.59       110.14       110.93       189.01       234.28        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WT 
      172.96       162.05       100.70        89.46       157.41       188.68 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X7 
      113.79       129.57       129.70       186.48        28.27        58.88 
TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0B2 TCGA-BH-A0B3 
       54.28       103.63        55.00        24.53        40.83        39.55 
TCGA-BH-A0B5 TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO 
       48.36        18.21        25.71        24.85        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DG 
       27.19        53.95        45.57        48.13        31.17        23.44 
TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       22.13        17.26         2.56        38.47        45.17        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB 
       16.27        15.68        14.30        44.81        32.65        24.49 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 
       24.43        30.35        37.78        35.51        24.56        41.00 
TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18F TCGA-BH-A18G 
       51.32        50.79        24.95        42.35         8.81         2.01 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R 
        7.23        20.12        72.56        37.74        30.28        37.55 
TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1F0 
       51.16        91.99       113.82        82.85        49.58        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FG TCGA-BH-A1FL TCGA-BH-A1FM 
       31.53        89.16       120.62       122.89        55.00        45.63 
TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28O 
      144.59         6.90        38.60        83.31        57.83        10.65 
TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N 
       20.12         0.99       109.28         8.94        11.93        11.77 
TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 
        0.07        12.66        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HL TCGA-C8-A1HM 
        1.45         0.69         3.85        12.33        10.42         2.30 
TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 
        0.23         8.28         9.67         0.03        12.20         0.03 
TCGA-D8-A141 TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JN 
       20.58        18.71        12.03        14.01        20.09        20.38 
TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC 
       12.20        14.70        16.73        25.74        18.15         2.66 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       15.22        14.73        21.83        17.69         7.96        16.41 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A27E 
       16.31         6.35        15.16        12.66        15.32        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P 
       13.45        13.05         9.44        16.41        13.48         0.76 
TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 
       12.26        14.50        18.51         7.33        43.00        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q 
       40.41        37.51        28.44        28.87        40.96        38.24 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 
       38.60        33.17        43.33        28.60        17.03        23.24 
TCGA-E2-A154 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       19.43        23.34        22.82        17.29        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15T 
       12.92        17.42        19.40         9.04        20.58        14.99 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       53.62        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IU 
       17.10        37.41        33.73        28.44        22.65        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH 
       54.18        27.42        19.66        40.47        28.90       106.75 
TCGA-E2-A1LI TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 
      102.61         5.52        15.72        30.61        34.92        19.89 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
        9.21        19.20        36.82        39.55        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       21.57        11.90        14.30         2.10         6.12         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       21.21        34.65         6.58        34.59        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A243 
        0.79        12.53        13.32        39.09        22.75        17.06 
TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
        0.69         0.85        24.56        17.75         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1IX TCGA-EW-A1IY 
       15.72        12.33        14.70         0.26        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
       18.21        18.90        13.25        16.57        15.68        28.77 
TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1PB 
       29.95        41.13        39.78        29.82        18.48        19.99 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW 
       13.94        10.52        34.55        55.00        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 
       21.27        10.16        10.59         7.40       109.87        59.57 
TCGA-GM-A2DA TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN 
      194.27        42.28        61.91        62.33        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       53.36        38.20        43.73        66.38        72.03        13.55 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
       11.84        11.57         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z 
       10.95         7.59        17.06         2.63         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        4.50         6.21         7.36         2.10        12.66        31.99 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J 
       27.65        34.92        16.87        24.72        26.70        65.62 
TCGA-OL-A66L TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY 
       31.07        14.07        28.21        19.73         0.16         0.26 
TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 
        3.95        16.50        10.59         5.56         8.52         6.87 
TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R6 
        5.29         9.60       105.04 

  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE 
                         23.29                          22.06 
[1] "0.0 - 211.6 (23.3)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.3"
D56V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 27(13Q14.2) MUTATED        36       29        3        1       169
  DEL PEAK 27(13Q14.2) WILD-TYPE      47       51        6        4       173
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 27(13Q14.2) MUTATED         110         1         69         14
  DEL PEAK 27(13Q14.2) WILD-TYPE       124         1         73         15
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 27(13Q14.2) MUTATED           26        7         1       7
  DEL PEAK 27(13Q14.2) WILD-TYPE         37       11         0       9
D56V3, multiclass
            clus
vv           DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  STAGE I                              36                             47
  STAGE IA                             29                             51
  STAGE IB                              3                              6
  STAGE II                              1                              4
  STAGE IIA                           169                            173
  STAGE IIB                           110                            124
  STAGE III                             1                              1
  STAGE IIIA                           69                             73
  STAGE IIIB                           14                             15
  STAGE IIIC                           26                             37
  STAGE IV                              7                             11
  STAGE TIS                             1                              0
  STAGE X                               7                              9
[1] 13  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 27(13Q14.2) MUTATED   101 296  57  18
  DEL PEAK 27(13Q14.2) WILD-TYPE 164 298  67  21
D56V4, multiclass
    clus
vv   DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  T1                          101                            164
  T2                          296                            298
  T3                           57                             67
  T4                           18                             21
[1] 4 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  N3
  DEL PEAK 27(13Q14.2) MUTATED   227 150  58  32
  DEL PEAK 27(13Q14.2) WILD-TYPE 254 189  55  42
D56V5, multiclass
    clus
vv   DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  N0                          227                            254
  N1                          150                            189
  N2                           58                             55
  N3                           32                             42
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 27(13Q14.2) MUTATED          3 400   8  63
  DEL PEAK 27(13Q14.2) WILD-TYPE        2 454  11  84
D56V6, multiclass
          clus
vv         DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  CM0 (I+)                            3                              2
  M0                                400                            454
  M1                                  8                             11
  MX                                 63                             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"
D56V7, binary
                                cls
clus                               0   1
  DEL PEAK 27(13Q14.2) MUTATED   468   6
  DEL PEAK 27(13Q14.2) WILD-TYPE 546   5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(13Q14.2) MUTATED    468    6
  DEL PEAK 27(13Q14.2) WILD-TYPE  546    5
        clus
vv       DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  FEMALE                          468                            546
  MALE                              6                              5
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 27(13Q14.2) MUTATED                            0
  DEL PEAK 27(13Q14.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 27(13Q14.2) MUTATED                             380
  DEL PEAK 27(13Q14.2) WILD-TYPE                           374
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 27(13Q14.2) MUTATED                               59
  DEL PEAK 27(13Q14.2) WILD-TYPE                            116
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 27(13Q14.2) MUTATED                     5
  DEL PEAK 27(13Q14.2) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 27(13Q14.2) MUTATED                                 11
  DEL PEAK 27(13Q14.2) WILD-TYPE                               18
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 27(13Q14.2) MUTATED                    2             16
  DEL PEAK 27(13Q14.2) WILD-TYPE                 13             28
D56V8, multiclass
                                  clus
vv                                 DEL PEAK 27(13Q14.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             380
  INFILTRATING LOBULAR CARCINOMA                             59
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             16
                                  clus
vv                                 DEL PEAK 27(13Q14.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               374
  INFILTRATING LOBULAR CARCINOMA                              116
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             18
  MUCINOUS CARCINOMA                                           13
  OTHER  SPECIFY                                               28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V9, binary
                                cls
clus                               0   1
  DEL PEAK 27(13Q14.2) MUTATED   140 334
  DEL PEAK 27(13Q14.2) WILD-TYPE 142 409
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(13Q14.2) MUTATED    140  334
  DEL PEAK 27(13Q14.2) WILD-TYPE  142  409
     clus
vv    DEL PEAK 27(13Q14.2) MUTATED DEL PEAK 27(13Q14.2) WILD-TYPE
  NO                           140                            142
  YES                          334                            409
[1] 2 2
[1] FALSE
D56V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 27(13Q14.2) MUTATED                                  0    26
  DEL PEAK 27(13Q14.2) WILD-TYPE                                1    30
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 27(13Q14.2) MUTATED                          84   312
  DEL PEAK 27(13Q14.2) WILD-TYPE                        74   405
D56V11, multiclass
                                  clus
vv                                 DEL PEAK 27(13Q14.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      26
  BLACK OR AFRICAN AMERICAN                                  84
  WHITE                                                     312
                                  clus
vv                                 DEL PEAK 27(13Q14.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        30
  BLACK OR AFRICAN AMERICAN                                    74
  WHITE                                                       405
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V12, binary
                                cls
clus                               0   1
  DEL PEAK 27(13Q14.2) MUTATED    12 373
  DEL PEAK 27(13Q14.2) WILD-TYPE  24 453
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(13Q14.2) MUTATED     12  373
  DEL PEAK 27(13Q14.2) WILD-TYPE   24  453
                        clus
vv                       DEL PEAK 27(13Q14.2) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          373
                        clus
vv                       DEL PEAK 27(13Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            453
[1] 2 2
[1] FALSE

Clustering(57) Variable = DEL PEAK 28(14Q24.1) MUTATION ANALYSIS
D57V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 28(14Q24.1) MUTATED   282  48
  DEL PEAK 28(14Q24.1) WILD-TYPE 604  71
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                           330                            675 
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                            48                             71 
$`DEL PEAK 28(14Q24.1) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04U 
       31.79        28.01        19.20        18.02        73.84        22.06 
TCGA-A2-A04W TCGA-A2-A0CM TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D4 
       64.04        24.79         5.19        64.04        21.14        25.22 
TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0SX 
       79.76        35.05        34.29        24.16        27.12        50.43 
TCGA-A2-A0T0 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1G1 
       17.52        18.21        18.61        23.77        23.47        19.20 
TCGA-A2-A25B TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW 
       16.31        91.92        33.93        83.01        29.98        49.48 
TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E 
       38.40        38.37        35.31        35.67        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3J1 TCGA-A7-A4SB 
       12.72        23.74        21.73        22.32        11.28        13.74 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       14.50        21.17        12.10         9.37        10.42         8.75 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A07F 
        1.02        53.06        29.03        31.00         1.02        18.97 
TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A085 
       18.97        17.03         9.99         8.98         9.99        36.95 
TCGA-A8-A08G TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A099 TCGA-A8-A09A 
       19.96         9.99        31.00        31.00         9.99         9.99 
TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       50.04        45.07        29.98        33.07         1.02         8.98 
TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-AC-A23C TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2QH 
       21.04        17.03         0.95        38.53        38.20         1.02 
TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AN-A04C 
        2.27        16.57         1.12         0.69         1.12         1.78 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FT 
        1.71         7.36         0.33         6.44         7.96         6.02 
TCGA-AN-A0FX TCGA-AN-A0XN TCGA-AN-A0XT TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T 
        0.33         0.33         0.33        66.77        84.69        47.87 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 
       32.78        52.18        37.48        55.33       102.58        96.10 
TCGA-AO-A12F TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       48.36        61.87        70.39        24.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR 
        5.65         2.56        32.91         9.99       111.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH 
       86.66        29.75        65.36       101.95        85.97        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AQ 
       61.84        52.77        48.82        62.56        39.98        43.07 
TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
       76.21        62.14        20.22       109.58        50.89        73.02 
TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 
      101.52        85.35        79.00        56.15        78.48        58.92 
TCGA-AR-A256 TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM 
       93.83        77.62        12.13       112.37       176.98       126.12 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0WS 
       84.59       110.14       140.88       211.56        81.17        97.48 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI 
       17.98        21.47       113.79        43.59       101.52        73.51 
TCGA-B6-A1KN TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B3 
      139.17        24.53        38.79        20.45        28.50        39.55 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       48.36        56.98        51.68        25.71        24.85        21.70 
TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 
       44.05        48.69        53.69        11.67        49.05        44.02 
TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0H7 
       42.90        31.17         4.41        14.30         9.63        23.08 
TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18Q TCGA-BH-A18T 
       27.25         5.59        23.05         8.81        55.63         7.36 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 
       51.39        51.16        69.93        55.69        17.69        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A202 
       24.66       114.15        33.17        74.73        45.63         0.72 
TCGA-BH-A204 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12W TCGA-C8-A12X 
       83.31         0.99        11.93        11.77        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HM 
        1.45         0.69        10.92        11.34        12.03         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z 
        3.25         0.30         0.43         0.99        11.90        20.88 
TCGA-D8-A142 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JG TCGA-D8-A1JL 
       13.97        19.20        18.71        15.78        12.03        20.09 
TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XG 
       19.40        21.01        27.58        18.15        15.22        14.73 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW 
       14.50        19.92         7.96         6.35        12.99        12.66 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27I 
       16.54        15.32        15.52        14.14        16.04        14.43 
TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27T TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10F 
       13.48        10.09        13.08        27.52        40.41        28.87 
TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A150 
       38.60        33.30        34.26        32.02        17.03        25.41 
TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15F TCGA-E2-A15M 
       21.04        14.79        25.05        23.34        21.63         7.73 
TCGA-E2-A15P TCGA-E2-A1AZ TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1L7 
       19.56        60.53        38.30        33.73        33.70        27.42 
TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A56Z TCGA-E2-A573 
       24.59        28.90       106.75       102.61         7.20        34.92 
TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1QZ 
       19.89         9.21        13.48        12.00        13.12        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB 
        0.62         6.12         1.38         2.76        21.21        20.81 
TCGA-E9-A226 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 
       34.13        39.09        22.75        12.89        23.51         0.69 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-EW-A1IZ TCGA-EW-A1J6 TCGA-EW-A1OV 
       17.75        26.07         0.62        18.21        28.77        25.94 
TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR 
       22.82        29.82         7.86        14.43        19.96        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DC 
       52.73        25.91        10.16        10.59       109.87        53.52 
TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A3XL TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A7W5 
       42.28        62.33        69.30        18.12        11.57         4.08 
TCGA-LL-A441 TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RZ 
       11.44        14.79         3.22         6.21        46.55        22.32 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66N TCGA-OL-A6VO TCGA-PL-A8LX 
       20.38        23.47        33.57        26.04        28.21         0.16 
TCGA-S3-A6ZF TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA17 TCGA-XX-A899 TCGA-XX-A89A 
       16.50        10.59         7.92         3.91         9.60         9.14 

$`DEL PEAK 28(14Q24.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ 
       47.24        20.88        13.68         7.96        39.32        18.21 
TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y 
      104.81        41.95        82.16        63.12        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      136.73        64.57       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 
       75.55        75.25        63.45        56.81        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER 
       28.77       101.72        89.36        80.28       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU 
       37.05        31.82        29.75        24.72        99.19        54.64 
TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       44.88        44.28        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
       17.46        18.90        20.75        32.55        25.28        15.42 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.90        21.67        14.50        19.33        48.46        31.73 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       17.36        36.79        22.45        20.25        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC 
       52.47       107.70        17.19        18.15        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX 
       39.65        32.75        34.98        31.99         7.30        24.39 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
       21.30        23.21        26.96        21.14        21.90        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13G 
       34.29        35.47        30.61        37.45        33.11        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY 
       29.56        31.36        24.26        23.80        20.61        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.59        10.29        13.41        14.70        11.97        14.93 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A8-A06O 
       17.92        14.73        10.72        11.05        10.29        13.02 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       13.02        17.98        26.01        17.03        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07P TCGA-A8-A07S 
       43.00        19.99        14.01        12.00        10.98         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A 
       24.99        28.04        18.05        15.06        13.02         0.99 
TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08R 
       38.01        28.96        33.01        12.00        37.05         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       33.01        93.04        43.00        40.01        33.01        30.97 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       17.95        41.98        12.00        12.00         1.02        49.05 
TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
       25.02        19.04        15.02         0.99        14.01        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23E 
       19.04        13.02         0.99        13.02        38.04         2.37 
TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
       10.85         2.66         1.48        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        26.04        50.70         0.92         0.99         0.69 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       14.83        22.19         1.12        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
        1.55         0.07         1.81         1.18         0.43         1.68 
TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        1.74         1.32         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        0.62         2.96         8.02         6.51         0.16         0.33 
TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         4.64         7.00         7.59         7.17         6.28 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO 
        0.33         0.36         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.30         0.33         0.33         0.33         5.33         5.59 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A03V 
       80.28        47.84        81.63        68.75        59.05        29.13 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       21.40        24.16        20.32        22.36        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG 
       50.70        50.86        72.00        76.77        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       50.24        62.04        71.80        99.25       108.72       106.78 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H 
       90.58        77.56        64.04        57.30        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       14.73        82.62         0.53        17.79        15.62        32.52 
TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       49.32        74.79        98.93        64.83        55.86        76.14 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AR 
       83.87       114.02        51.25        43.73        43.56        17.23 
TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       37.81        61.28        63.62        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X 
        0.85        87.22        76.01        53.36        50.96        83.77 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK 
       73.18        72.76       128.65        20.25        62.86        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        38.17        39.39        40.54        20.38 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 
       54.74        16.04        20.45        10.59       143.38       149.59 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK 
      220.90       129.57        50.70        65.72       146.50        18.77 
TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      110.93        68.45       189.01       234.28        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU 
      162.05       102.77       140.48       100.70        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
      157.41       188.68        79.63       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 
       28.27        68.94        58.88       170.17        85.35        54.28 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 
       49.94       103.63        55.00        25.55        46.95        40.83 
TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BM 
       39.16        56.94        37.22        32.02        18.21        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C0 
       35.67        27.19        53.95        45.57        49.94        41.75 
TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       48.13        45.83        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       48.23        17.26        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0E9 
       45.17        47.41        16.27        15.68        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       32.65        24.49        31.00        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA 
       15.16        37.78        35.51        24.56        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       26.50        20.38         5.85         2.50        13.61        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       12.89        51.32        50.79        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
       44.81         2.01         7.23        20.12        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO 
       72.56        37.74        30.28        37.55        66.05        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 
      113.82        82.85        42.28        12.00        49.58        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
       31.53        89.16       120.62       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 
       55.00        72.07       144.59        72.07         6.90        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       57.83       130.16        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U 
        8.94        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
       12.66         3.12         1.78         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26W TCGA-C8-A26X 
       12.33        11.34         0.16        10.42         0.23         0.36 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A 
        8.28         9.67         0.03         0.03         0.03        12.20 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 
        0.03         0.23        13.25        20.58        14.17        13.48 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE 
       21.14        14.17        17.49        16.50        18.15        18.90 
TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JN 
       12.03        14.01        18.97        20.09        20.12        20.38 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 
       12.20        13.32        14.70        18.58        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XM 
       25.74        23.90         2.66        17.16        21.83        17.69 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       16.41        15.85        16.31        15.16         3.81        14.24 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N 
       17.42        13.45        13.05         9.44        16.41         4.80 
TCGA-D8-A27P TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        12.53        12.26        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       43.00        34.42        46.59        37.51        40.11        28.44 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U 
       47.15        44.68        40.96        38.24        33.17        43.33 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 
       31.96        28.60        27.12        23.24        19.43        23.87 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
       22.82        17.29        20.71        18.21        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S 
       19.40         9.04        20.58        13.02        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       14.99        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK 
       16.47        17.10        37.41        32.78        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 
        3.88        22.19        20.98        11.08        54.18        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 
       19.66        40.47        18.87         8.75        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A576 TCGA-E9-A1N4 TCGA-E9-A1N5 
        5.52        15.72        30.61        19.00        19.20        36.82 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       36.56        39.55        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD 
        9.86        14.30         2.10        32.09        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 
       34.65         6.58        21.27        34.59        35.64         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 
       12.53        13.32        24.10        17.06         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 
        1.94         0.95        24.56         0.72         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO 
       15.72        12.33         0.23        14.70         0.26        13.81 
TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1J1 
       14.40        15.39        12.20        39.72         8.48        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       13.25        16.57        15.68        29.95        29.85        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 
       41.13        39.78        52.96        23.11        18.48        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG 
       18.90        19.99         6.15        13.94        10.52        34.55 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        17.49         7.40        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        43.04        42.71        61.91        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN 
       77.33        53.36       110.50        38.20        43.73        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       72.03        13.55        11.84        21.24         6.67         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        8.75         9.53        10.95         7.59        17.06        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
       14.70        14.47        11.57         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         4.50         5.59         7.36        27.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        12.66        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L 
       36.36        16.87        24.72        26.70        65.62        31.07 
TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-PL-A8LZ 
        7.23        14.07        19.73         0.23         0.26         3.95 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
        6.81         8.65         5.56         8.52         7.17         6.87 
TCGA-W8-A86G TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29       100.01       105.04 

  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                          0.16                           0.03 
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE 
                        23.065                         22.130 
[1] "0.2 - 211.6 (23.1)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.5"
D57V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 28(14Q24.1) MUTATED        22       22        0        2       116
  DEL PEAK 28(14Q24.1) WILD-TYPE      61       58        9        3       226
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 28(14Q24.1) MUTATED          85         0         48          7
  DEL PEAK 28(14Q24.1) WILD-TYPE       149         2         94         22
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 28(14Q24.1) MUTATED           17        6         0       8
  DEL PEAK 28(14Q24.1) WILD-TYPE         46       12         1       8
D57V3, multiclass
            clus
vv           DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  STAGE I                              22                             61
  STAGE IA                             22                             58
  STAGE IB                              0                              9
  STAGE II                              2                              3
  STAGE IIA                           116                            226
  STAGE IIB                            85                            149
  STAGE III                             0                              2
  STAGE IIIA                           48                             94
  STAGE IIIB                            7                             22
  STAGE IIIC                           17                             46
  STAGE IV                              6                             12
  STAGE TIS                             0                              1
  STAGE X                               8                              8
[1] 13  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 28(14Q24.1) MUTATED    64 226  33  10
  DEL PEAK 28(14Q24.1) WILD-TYPE 201 368  91  29
D57V4, multiclass
    clus
vv   DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  T1                           64                            201
  T2                          226                            368
  T3                           33                             91
  T4                           10                             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 28(14Q24.1) MUTATED   162 104  43  19
  DEL PEAK 28(14Q24.1) WILD-TYPE 319 235  70  55
D57V5, multiclass
    clus
vv   DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  N0                          162                            319
  N1                          104                            235
  N2                           43                             70
  N3                           19                             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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 28(14Q24.1) MUTATED          2 279   6  47
  DEL PEAK 28(14Q24.1) WILD-TYPE        3 575  13 100
D57V6, multiclass
          clus
vv         DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                279                            575
  M1                                  6                             13
  MX                                 47                            100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V7, binary
                                cls
clus                               0   1
  DEL PEAK 28(14Q24.1) MUTATED   330   4
  DEL PEAK 28(14Q24.1) WILD-TYPE 684   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 28(14Q24.1) MUTATED    330    4
  DEL PEAK 28(14Q24.1) WILD-TYPE  684    7
        clus
vv       DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  FEMALE                          330                            684
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 28(14Q24.1) MUTATED                            1
  DEL PEAK 28(14Q24.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 28(14Q24.1) MUTATED                             285
  DEL PEAK 28(14Q24.1) WILD-TYPE                           469
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 28(14Q24.1) MUTATED                               29
  DEL PEAK 28(14Q24.1) WILD-TYPE                            146
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 28(14Q24.1) MUTATED                     4
  DEL PEAK 28(14Q24.1) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 28(14Q24.1) MUTATED                                  3
  DEL PEAK 28(14Q24.1) WILD-TYPE                               26
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 28(14Q24.1) MUTATED                    1             10
  DEL PEAK 28(14Q24.1) WILD-TYPE                 14             34
D57V8, multiclass
                                  clus
vv                                 DEL PEAK 28(14Q24.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             285
  INFILTRATING LOBULAR CARCINOMA                             29
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            3
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 28(14Q24.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               469
  INFILTRATING LOBULAR CARCINOMA                              146
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             26
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V9, binary
                                cls
clus                               0   1
  DEL PEAK 28(14Q24.1) MUTATED   105 229
  DEL PEAK 28(14Q24.1) WILD-TYPE 177 514
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 28(14Q24.1) MUTATED    105  229
  DEL PEAK 28(14Q24.1) WILD-TYPE  177  514
     clus
vv    DEL PEAK 28(14Q24.1) MUTATED DEL PEAK 28(14Q24.1) WILD-TYPE
  NO                           105                            177
  YES                          229                            514
[1] 2 2
[1] FALSE
D57V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 28(14Q24.1) MUTATED                                  0    17
  DEL PEAK 28(14Q24.1) WILD-TYPE                                1    39
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 28(14Q24.1) MUTATED                          70   215
  DEL PEAK 28(14Q24.1) WILD-TYPE                        88   502
D57V11, multiclass
                                  clus
vv                                 DEL PEAK 28(14Q24.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      17
  BLACK OR AFRICAN AMERICAN                                  70
  WHITE                                                     215
                                  clus
vv                                 DEL PEAK 28(14Q24.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        39
  BLACK OR AFRICAN AMERICAN                                    88
  WHITE                                                       502
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V12, binary
                                cls
clus                               0   1
  DEL PEAK 28(14Q24.1) MUTATED    11 270
  DEL PEAK 28(14Q24.1) WILD-TYPE  25 556
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 28(14Q24.1) MUTATED     11  270
  DEL PEAK 28(14Q24.1) WILD-TYPE   25  556
                        clus
vv                       DEL PEAK 28(14Q24.1) MUTATED
  HISPANIC OR LATINO                               11
  NOT HISPANIC OR LATINO                          270
                        clus
vv                       DEL PEAK 28(14Q24.1) WILD-TYPE
  HISPANIC OR LATINO                                 25
  NOT HISPANIC OR LATINO                            556
[1] 2 2
[1] FALSE

Clustering(58) Variable = DEL PEAK 29(15Q13.1) MUTATION ANALYSIS
D58V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 29(15Q13.1) MUTATED   305  45
  DEL PEAK 29(15Q13.1) WILD-TYPE 581  74
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                           350                            655 
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                            45                             74 
$`DEL PEAK 29(15Q13.1) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04P 
       48.10        20.88        31.79        28.01        19.20        18.02 
TCGA-A2-A04Q TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CS 
       41.95        22.06        64.04        64.57        24.79        75.55 
TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D4 TCGA-A2-A0EN 
       75.25        64.04        56.81        21.14        25.22        89.36 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0SU TCGA-A2-A0SV 
       80.28        79.76        35.05        24.16        54.64        27.12 
TCGA-A2-A0SW TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A0YM 
       44.88        18.71        20.75        18.21        18.61        31.73 
TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3Y0 
       19.20        16.31        33.93        29.98        38.40        38.37 
TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D 
        7.30        21.90        35.31        37.45        35.67        31.73 
TCGA-A7-A13E TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3J1 
       10.72        29.56        31.36        21.73        22.32        11.28 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW 
       14.50        21.17        14.73        12.10        10.29         9.37 
TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A07B 
       17.98        31.00        26.01         1.02        53.98        43.00 
TCGA-A8-A07F TCGA-A8-A07L TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A084 TCGA-A8-A08G 
       18.97        17.03         8.98        24.99        15.06        19.96 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 
       12.00         9.99        31.00        43.00        30.97        17.95 
TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A0A7 TCGA-A8-A0AB 
        9.99         1.02        33.07         1.02         0.99        17.03 
TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QJ TCGA-AC-A3OD 
        2.37        38.53        38.20        26.04         2.27        14.83 
TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A04A TCGA-AN-A04D 
        1.12         0.69         1.74         1.12         2.96         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ 
        8.02         7.36         0.33         0.33         6.44         7.96 
TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        7.00         6.02         0.33         0.36         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33        12.33         0.33        80.28        47.84 
TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JB 
       84.69        29.13        37.48        20.32        53.03        50.70 
TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KQ 
       72.00        55.33       102.58        96.10        64.04        61.87 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A54N TCGA-AQ-A54O 
        0.53        17.79        24.79        26.93         2.56        32.91 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
        5.26        74.79        86.66        29.75        98.93        64.83 
TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       55.86       101.95        85.97        75.55        61.84        52.77 
TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H 
       43.73        43.07        17.23        63.62        20.22       109.58 
TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A255 
       87.22        85.35        50.96        79.00        78.48        58.92 
TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LR TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IH 
       93.83        42.87        20.38        77.62       129.57       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RP 
      176.98       140.88       211.56        68.45       162.05       102.77 
TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KF 
      100.70       131.21        79.63       113.79        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A402 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0B2 
       73.51        54.28        55.00        24.53        38.79        40.83 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BP TCGA-BH-A0BT 
       48.36        56.94        51.68        37.22        48.69        45.57 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DP 
       11.67        49.05        41.75        44.02        42.90        15.65 
TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0H7 TCGA-BH-A0H9 
       47.41         4.41         9.63        24.49        23.08        41.00 
TCGA-BH-A0HB TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
       26.50        13.61        12.89        27.25        50.79         5.59 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
       44.81        23.05         8.81        20.12        90.84        26.66 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES 
       55.63         7.36        51.39        69.93        91.99       113.82 
TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FH TCGA-BH-A1FM 
       12.00        31.53        97.48       114.15        36.92        45.63 
TCGA-BH-A203 TCGA-BH-A208 TCGA-C8-A12L TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12X 
       38.60        57.83        11.93        11.77        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ 
        3.12         0.69         0.62         3.75        10.92         0.16 
TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 
       12.03         2.30         3.25         0.43         0.03         0.03 
TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JE 
       20.88        13.97        21.14        14.17        17.49        18.90 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JP TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XK 
       12.03        12.03        21.01        18.15        15.22        14.50 
TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XY 
       19.92         7.96        16.41        16.31        12.99        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A27F TCGA-D8-A27M TCGA-E2-A109 TCGA-E2-A10C 
       15.32         3.81        16.04        13.48        46.59        40.11 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A14W 
       28.87        47.15        44.68        38.60        34.26        32.02 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15G TCGA-E2-A15H 
       25.41        27.12        19.43        25.05        18.21        12.92 
TCGA-E2-A1AZ TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1II TCGA-E2-A1IO 
       60.53        28.50        17.10        37.41        33.70        20.98 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LB TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       27.42        39.62        40.47       106.75       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N6 TCGA-E9-A1N8 
       16.93        34.92        19.89        19.00        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NI TCGA-E9-A1R4 TCGA-E9-A1RC 
       13.12        36.56        12.59         9.86         6.12        40.24 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       34.65         6.58        21.27        34.59        35.64        34.13 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       12.89        23.51         0.69        27.22         1.94         0.95 
TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FL TCGA-E9-A5UP 
        0.72        26.07         0.62        15.72         0.26        14.40 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 
       28.77        25.94        22.82        40.41        29.82         7.86 
TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 
        6.15        19.96        55.00        52.73        25.91        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DF TCGA-GM-A2DH 
       17.49        10.16        10.59       109.87        42.71        42.28 
TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP 
       69.30        11.57        11.44        14.70        14.79        11.57 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5S0 TCGA-OL-A66I 
        2.63         3.88         6.21        46.55        20.38        23.47 
TCGA-OL-A66K TCGA-OL-A6VO TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA10 TCGA-S3-AA17 
       33.57        28.21        16.50         6.81         7.92         3.91 
TCGA-W8-A86G TCGA-Z7-A8R5 
        5.29       100.01 

$`DEL PEAK 29(15Q13.1) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        14.37        43.43        14.27        47.24 
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04R 
       13.68         7.96        39.32        18.21       104.81        82.16 
TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO 
       73.84        63.12        55.43        36.13       136.73       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D1 
       92.48        88.60       107.93         5.19        63.45        34.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
       33.76        28.77       101.72       107.61        74.40        37.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SX 
       34.29        31.82        29.75        24.72        99.19        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52        17.13         8.38        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH 
       18.90        32.55        25.28        15.42        21.90        21.67 
TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
       14.50        19.33        48.46        23.77        23.47        17.36 
TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       36.79        22.45        20.25        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
      107.70        17.19        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ 
       39.65        83.01        32.75        49.48        34.98        31.99 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD 
       24.39        21.30        23.21        26.96        21.14        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G 
       34.29        35.47        30.61        33.11        12.72        23.61 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ 
       24.26        23.74        23.80        20.61        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       10.29        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O 
       17.92        10.72        11.05        10.42         8.75        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A075 TCGA-A8-A079 
       13.02         1.02        53.06        29.03        17.03         9.01 
TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07P 
       19.99        18.97        14.01        12.00         9.99        10.98 
TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 
        7.99         9.99        28.04        18.05        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08J TCGA-A8-A08P 
        0.99        38.01        28.96        33.01        37.05        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 
        0.99        33.01        93.04        40.01        33.01        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
       12.00         9.99        12.00        50.04        49.05        45.07 
TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       29.98        25.02         8.98        19.04        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 
       14.01        12.00        19.04        13.02        21.04        13.02 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB 
       38.04         0.95        10.85         2.66         1.48        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       55.43        36.99        38.79        50.70         1.02         0.92 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 
        0.99         0.69        22.19         1.12        16.57        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV 
       23.24        24.79         1.55         0.07         1.81         1.18 
TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        0.43         1.68         1.32         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS 
        0.33         0.62         1.78         6.51         0.16         0.33 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0XL TCGA-AN-A0XP 
        4.64         7.59         7.17         6.28         0.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N 
        0.33         0.33         0.33         5.33         5.59        66.77 
TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 
       81.63        68.75        47.87        59.05        32.78        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JE 
       52.18        24.16        22.36        21.53        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 
       21.37        26.24        50.24        62.04        71.80        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F 
      108.72       106.78        90.58        77.56        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AQ-A04L 
       41.62        28.37        14.73        82.62        70.39       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
        5.65        15.62        32.52         9.99       111.32        49.32 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AL 
       76.14        65.36        83.87       114.02        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       62.56        43.56        39.98        37.81        76.21        61.28 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       62.14        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 
        0.85       101.52        76.01        53.36        83.77        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL 
       73.18        72.76       128.65        20.25        62.86         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        38.17        39.39        40.54        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       20.45        10.59       143.38       149.59        12.13       220.90 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
       50.70        65.72       146.50        18.77       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      110.14       110.93       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      172.96       140.48        89.46       157.41        97.48       188.68 
TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       17.98        21.47       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 
       68.94        58.88       139.17       170.17        85.35        49.94 
TCGA-B6-A40B TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 
      103.63        20.45        25.55        28.50        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       39.16        56.98        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       21.70        44.05        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       53.95        49.94        48.13        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DQ 
       38.01        22.13        13.91        48.23        17.26         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 
        2.56        38.47        45.17        16.27        15.68        14.30 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        46.19        32.65        31.00        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA 
       10.78        15.16        37.78        35.51        24.56        52.96 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0W3 
       20.38         5.85         2.50        36.85        51.32        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18M TCGA-BH-A18N 
       24.95        42.35         2.01         7.23        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1ET TCGA-BH-A1EU 
       30.28        37.55        66.05        51.16        82.85        42.28 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F8 
       55.69        49.58        17.69        25.81        89.16        24.66 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL 
      120.62        33.17        74.73       122.89        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 
       72.07       144.59        72.07         6.90         0.72        83.31 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
      130.16        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12V 
        8.94        11.77        11.77        12.66         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HG 
       12.66         1.78         1.45         3.85        12.33        11.34 
TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z 
       11.34        10.42         0.30         0.23         0.36         8.28 
TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        9.67         0.03        12.20         0.99         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 
       11.90        13.25        20.58        14.17        13.48        19.20 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JH TCGA-D8-A1JI 
       16.50        18.71        15.78        18.15        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS 
       20.09        20.12        20.09        19.40        20.38        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       13.32        14.70        18.58        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ 
       23.90        27.58         2.66        17.16        14.73        21.83 
TCGA-D8-A1XM TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 
       17.69        15.85         6.35        15.16        12.66        15.52 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
       14.24        14.14        17.42        13.45        13.05        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T 
        9.44        16.41         4.80         0.76        10.09        13.08 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       12.53        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A14P 
       34.42        27.52        40.41        37.51        28.44        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y 
       38.24        33.17        33.30        43.33        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A 
       17.03        23.24        21.04        23.87        14.79        23.34 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15J 
       22.82        17.29        20.71        21.63        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.07        14.99        53.62        53.03        29.95        32.35 
TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK 
       16.47        38.30        32.78        33.73        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LA 
        3.88        22.19        11.08        54.18        19.66        24.59 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
       28.90        18.87        43.04         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC TCGA-E9-A1NE 
       30.61         9.21        19.20        36.82        39.55        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 
       20.05        21.57        11.90        14.30         0.62         2.10 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RD 
        1.38         2.76        21.21        32.09        20.81         0.66 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22H 
        0.79        12.53        13.32        39.09        22.75        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
       17.06         0.85        24.56        17.75         0.76        18.41 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       12.33         0.23        14.70        13.81        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 
       39.72         8.48        18.21        18.90        13.25        16.57 
TCGA-EW-A1J5 TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       15.68        29.95        29.85        41.13        39.78        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD 
       23.11        18.48        30.08        18.90        19.99        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FW TCGA-GI-A2C8 TCGA-GM-A2D9 
       10.52        14.43        34.55        22.09         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK 
      194.27        53.13        53.52        43.04        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       43.73        66.38        72.03        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A73Y 
       10.95         7.59        17.06        15.32        14.47         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A9Q3 TCGA-LQ-A4E4 
        4.50         4.50         5.59         3.22         7.36        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H 
       34.92        36.36        16.87        24.72        22.32        26.70 
TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VQ 
       65.62        31.07        26.04         7.23        14.07        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA0Z 
        0.23         0.16         0.26         3.95         8.65        10.59 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-XX-A899 TCGA-XX-A89A 
        5.56         8.52         7.17         6.87         9.60         9.14 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE 
                         24.66                          21.70 
[1] "0.0 - 211.6 (24.7)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.2"
D58V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 29(15Q13.1) MUTATED        26       21        2        0       135
  DEL PEAK 29(15Q13.1) WILD-TYPE      57       59        7        5       207
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 29(15Q13.1) MUTATED          81         1         56          6
  DEL PEAK 29(15Q13.1) WILD-TYPE       153         1         86         23
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 29(15Q13.1) MUTATED           16        8         0       4
  DEL PEAK 29(15Q13.1) WILD-TYPE         47       10         1      12
D58V3, multiclass
            clus
vv           DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  STAGE I                              26                             57
  STAGE IA                             21                             59
  STAGE IB                              2                              7
  STAGE II                              0                              5
  STAGE IIA                           135                            207
  STAGE IIB                            81                            153
  STAGE III                             1                              1
  STAGE IIIA                           56                             86
  STAGE IIIB                            6                             23
  STAGE IIIC                           16                             47
  STAGE IV                              8                             10
  STAGE TIS                             0                              1
  STAGE X                               4                             12
[1] 13  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 29(15Q13.1) MUTATED    70 235  40  11
  DEL PEAK 29(15Q13.1) WILD-TYPE 195 359  84  28
D58V4, multiclass
    clus
vv   DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  T1                           70                            195
  T2                          235                            359
  T3                           40                             84
  T4                           11                             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK 29(15Q13.1) MUTATED   182 105  48  19
  DEL PEAK 29(15Q13.1) WILD-TYPE 299 234  65  55
D58V5, multiclass
    clus
vv   DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  N0                          182                            299
  N1                          105                            234
  N2                           48                             65
  N3                           19                             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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 29(15Q13.1) MUTATED          1 303   8  45
  DEL PEAK 29(15Q13.1) WILD-TYPE        4 551  11 102
D58V6, multiclass
          clus
vv         DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                303                            551
  M1                                  8                             11
  MX                                 45                            102
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D58V7, binary
                                cls
clus                               0   1
  DEL PEAK 29(15Q13.1) MUTATED   353   4
  DEL PEAK 29(15Q13.1) WILD-TYPE 661   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(15Q13.1) MUTATED    353    4
  DEL PEAK 29(15Q13.1) WILD-TYPE  661    7
        clus
vv       DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  FEMALE                          353                            661
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 29(15Q13.1) MUTATED                            1
  DEL PEAK 29(15Q13.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 29(15Q13.1) MUTATED                             295
  DEL PEAK 29(15Q13.1) WILD-TYPE                           459
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 29(15Q13.1) MUTATED                               35
  DEL PEAK 29(15Q13.1) WILD-TYPE                            140
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 29(15Q13.1) MUTATED                     4
  DEL PEAK 29(15Q13.1) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 29(15Q13.1) MUTATED                                  8
  DEL PEAK 29(15Q13.1) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 29(15Q13.1) MUTATED                    1             12
  DEL PEAK 29(15Q13.1) WILD-TYPE                 14             32
D58V8, multiclass
                                  clus
vv                                 DEL PEAK 29(15Q13.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             295
  INFILTRATING LOBULAR CARCINOMA                             35
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             12
                                  clus
vv                                 DEL PEAK 29(15Q13.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               459
  INFILTRATING LOBULAR CARCINOMA                              140
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               32
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D58V9, binary
                                cls
clus                               0   1
  DEL PEAK 29(15Q13.1) MUTATED   111 246
  DEL PEAK 29(15Q13.1) WILD-TYPE 171 497
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(15Q13.1) MUTATED    111  246
  DEL PEAK 29(15Q13.1) WILD-TYPE  171  497
     clus
vv    DEL PEAK 29(15Q13.1) MUTATED DEL PEAK 29(15Q13.1) WILD-TYPE
  NO                           111                            171
  YES                          246                            497
[1] 2 2
[1] FALSE
D58V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 29(15Q13.1) MUTATED                                  0    22
  DEL PEAK 29(15Q13.1) WILD-TYPE                                1    34
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 29(15Q13.1) MUTATED                          67   238
  DEL PEAK 29(15Q13.1) WILD-TYPE                        91   479
D58V11, multiclass
                                  clus
vv                                 DEL PEAK 29(15Q13.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      22
  BLACK OR AFRICAN AMERICAN                                  67
  WHITE                                                     238
                                  clus
vv                                 DEL PEAK 29(15Q13.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        34
  BLACK OR AFRICAN AMERICAN                                    91
  WHITE                                                       479
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D58V12, binary
                                cls
clus                               0   1
  DEL PEAK 29(15Q13.1) MUTATED    12 292
  DEL PEAK 29(15Q13.1) WILD-TYPE  24 534
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(15Q13.1) MUTATED     12  292
  DEL PEAK 29(15Q13.1) WILD-TYPE   24  534
                        clus
vv                       DEL PEAK 29(15Q13.1) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          292
                        clus
vv                       DEL PEAK 29(15Q13.1) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            534
[1] 2 2
[1] FALSE

Clustering(59) Variable = DEL PEAK 30(16Q24.3) MUTATION ANALYSIS
D59V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 30(16Q24.3) MUTATED   565  74
  DEL PEAK 30(16Q24.3) WILD-TYPE 321  45
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                           639                            366 
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                            74                             45 
$`DEL PEAK 30(16Q24.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
       14.37        43.43        48.10        14.27        47.24        20.88 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04N TCGA-A2-A04R 
       31.79         7.96        39.32        28.01       104.81        82.16 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
       22.06        63.12       136.73       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX 
      107.93        75.55        75.25         5.19        63.45        56.81 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       21.14        34.55        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
       80.28        79.76        74.40        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SU TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 
       24.72        24.16        54.64        44.28        17.52        17.13 
TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD 
       20.52        17.46        18.90        20.75        32.55        25.28 
TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV 
       15.42        21.67        19.33        48.46        31.73        23.47 
TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D 
       36.79        20.25        19.56        52.47       107.70        18.15 
TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A4RY TCGA-A2-A4S3 
       91.92        20.88        39.65        83.01        21.30        21.90 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DA 
       38.30        35.31        34.29        35.47        30.61        35.67 
TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       33.11        31.73        12.72        23.61        29.56        31.36 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A4SA 
       21.73        20.61        10.59        11.28        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A8-A06O 
       13.74        21.17        10.72        11.05         9.37        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z 
       13.02         1.02        53.06        29.03        31.00         1.02 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       17.03         9.01        43.00        19.99        18.97        18.97 
TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A084 TCGA-A8-A085 
       12.00        17.03        10.98         7.99        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08L 
       13.02        38.01        28.96        33.01        19.96         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00        31.00        33.01        93.04        43.00        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       33.01        30.97        17.95        41.98        12.00         9.99 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q 
        9.99        12.00        29.98        33.07         1.02        25.02 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
        8.98        19.04        15.02         0.99        14.01        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
       19.04        13.02        21.04         0.99        13.02        17.03 
TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
       38.04         2.37        10.85         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI 
       40.57        55.43        36.99        26.04        50.70         0.92 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        0.99         0.69        14.83        22.19         1.12        16.57 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV 
       19.79        23.24         1.55         0.07         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X 
        0.69         0.43         1.68         1.74         1.12         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ 
        0.33         0.23         0.33         0.62         1.78         8.02 
TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW 
        7.36         0.33         7.00         7.17         6.28         0.36 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        0.33         0.33        80.28        66.77        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 
       68.75        29.13        21.40        24.16        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE 
       53.03        21.53        50.70        50.86        72.00        76.77 
TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 
       21.37        50.24        62.04        99.25       108.72        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ 
       90.58        77.56        57.30        41.62        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       70.39         0.53        17.79        15.62        32.52         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
        9.99        29.75        55.86        76.14        83.87       114.02 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       85.97        75.55        51.25        48.82        62.56        43.73 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H 
       39.98        43.07        17.23        63.62        62.14       109.58 
TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T 
       50.89        73.02        78.51        84.20         0.85        76.01 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 
       53.36        85.35        83.77        78.48        72.76        58.92 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM 
       93.83       128.65        62.86        42.87         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-B6-A0I5 TCGA-B6-A0IA 
       38.17        39.39        40.54        16.04       149.59       220.90 
TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0IQ 
      129.57        50.70       112.37       126.12       110.93       140.88 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      211.56        68.45       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RV TCGA-B6-A0WS 
      172.96       102.77       140.48       100.70       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X7 TCGA-B6-A1KC 
      188.68        17.98       129.57       129.70        58.88        43.59 
TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
       73.51       170.17        54.28        49.94       103.63        55.00 
TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       24.53        20.45        25.55        28.50        46.95        40.83 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        37.22        32.02 
TCGA-BH-A0BF TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS 
       25.71        61.68        35.67        48.69        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH 
       45.57        44.02        48.13        42.90        31.17        38.01 
TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       13.91        17.26        15.65         2.56        38.47        45.17 
TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       16.27         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0H0 
       46.19        32.65        24.49        31.00        30.35        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       37.78        35.51        24.56        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        2.50        13.61        36.85        12.89        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F 
       50.79        23.93        24.95        42.35        44.81         8.81 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
        7.23        20.12        90.84        26.66        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET 
       30.28         7.36        51.39        69.93        91.99        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 
       42.28        12.00        55.69        17.69        31.53        89.16 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       24.66       120.62       114.15        33.17        74.73       122.89 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 
       55.00        72.07         0.72        38.60        83.31        57.83 
TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42V 
      130.16        10.65         6.44        20.12         0.99         8.94 
TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12P TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
       11.93        11.77        11.77         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM TCGA-C8-A1HN 
       12.33        10.92        11.34        11.34         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 
        0.30         0.23         0.36         0.43         0.03         0.03 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 
        0.03         0.23        11.90        20.88        20.58        13.97 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD 
       13.48        21.14        14.17        17.49        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JN TCGA-D8-A1JP 
       18.90        12.03        18.97        20.09        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X8 
       12.20        13.32        14.70        18.58        17.79        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ 
       23.90        18.15        14.50        19.92         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 
       15.85        16.31        16.54        15.52         3.81        14.14 
TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T 
       13.45        14.43         9.44        16.41         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A109 
       12.53        14.50        18.51         7.33        34.42        46.59 
TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q 
       40.41        40.11        28.44        28.87        44.68        38.24 
TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z 
       33.17        43.33        34.26        32.02        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15A 
       23.24        19.43        21.04        23.87        25.05        23.34 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H 
       22.82        17.29        20.71        21.63        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       17.42        19.40         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B4 TCGA-E2-A1B5 
       19.56        17.06        14.07        14.99        29.95        32.35 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II 
       16.47        17.10        38.30        37.41        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       28.44         3.88        20.98        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL 
       39.62        24.59        18.87       106.75         8.75        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 
       16.93         5.52        15.72        30.61        34.92        19.00 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1NF 
        9.21        19.20        36.82        12.00        39.55        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 
       21.57         9.86        11.90        14.30         0.62         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        6.12         1.38         2.76        21.21        32.09        20.81 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
        0.66        34.65        21.27        35.64        34.13         0.79 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       12.89        23.51        24.10        17.06         0.69        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO 
        1.94         0.95        24.56         0.72        17.75        26.07 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY 
       15.72         0.23        14.40        15.39        12.20         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
       18.21        18.90        13.25        16.57        15.68        28.77 
TCGA-EW-A1OV TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P8 
       25.94        40.41        52.96        23.11        18.48         7.86 
TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A423 
        6.15        10.52        34.55        52.73        21.27        10.16 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DH 
       10.59         7.40        59.57       194.27        53.52        42.28 
TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       61.91        90.84        77.33        53.36       110.50        38.20 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       66.38        72.03        13.55        18.12        11.57        21.24 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        6.67         4.60         8.75         7.59        17.06        14.70 
TCGA-LL-A6FP TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
       11.57         3.22        27.91         2.79         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       46.55        31.99        58.62        34.92        36.36        16.87 
TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P 
       20.38        65.62        33.57        31.07        26.04        14.07 
TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-AA0Z 
       28.21        19.73         0.23        16.50         6.81        10.59 
TCGA-S3-AA10 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        7.92         8.52         7.17         3.91         5.29         9.60 
TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        9.14       100.01       105.04 

$`DEL PEAK 30(16Q24.3) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SJ TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P 
        0.39         8.52        13.68        19.20        18.21        18.02 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CL 
       41.95        73.84        64.04        55.43        36.13        64.57 
TCGA-A2-A0CM TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0ET 
       24.79        64.04        33.76       107.61        37.05        35.05 
TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T2 TCGA-A2-A0T3 
       99.19        27.12        44.88        50.43         8.38        18.71 
TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW 
       18.21        21.90        14.50        18.61        23.77        17.36 
TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A1G6 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F 
       22.45        19.20        16.47        16.31        17.19        10.59 
TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       33.93        29.98        32.75        49.48        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 
       31.99        38.37         7.30        24.39        23.21        26.96 
TCGA-A2-A4S2 TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       21.14        37.45        10.72        24.26        23.74        23.80 
TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SD 
       22.32        11.34        10.29        13.41        14.70        14.50 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY 
       17.92        14.73        12.10        10.29        10.42         8.75 
TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07R 
       17.98        26.01        53.98        14.01         9.99         8.98 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A08A TCGA-A8-A08I 
       24.99         9.99        28.04        18.05         0.99        12.00 
TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
       37.05         0.99         1.02        50.04        49.05        45.07 
TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3YJ 
        0.95         2.66        38.79         1.02         2.27        24.79 
TCGA-AC-A62Y TCGA-AC-A8OR TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AM 
        1.81         1.32         2.96         1.71         6.51         0.16 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL 
        0.33         0.33         6.44         4.64         7.96         7.59 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XU TCGA-AN-A0XV 
        6.02         0.33         0.33         0.33         0.33         5.33 
TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J4 
        5.59        47.84        47.87        59.05        32.78        52.18 
TCGA-AO-A0J6 TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A128 
       37.48        26.24        55.33        71.80       102.58       106.78 
TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A04H TCGA-AQ-A04J 
       64.04        48.36        28.37        14.73        24.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
      130.09         5.65        32.91       111.32        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A0U1 
       74.79        86.66        98.93        64.83        65.36       101.95 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       61.84        52.77        43.56        37.81        76.21        61.28 
TCGA-AR-A1AY TCGA-AR-A24M TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24W TCGA-AR-A24Z 
       20.22        96.89       101.52        87.22        50.96        79.00 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A2LH TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP 
       56.15        73.18        20.25        20.38        54.74        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IE TCGA-B6-A0IG 
       10.59        77.62       143.38        12.13        65.72       146.50 
TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0RO TCGA-B6-A0RT 
      176.98        18.77        84.59       110.14       162.05        89.46 
TCGA-B6-A0RU TCGA-B6-A0WV TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A0X4 
      131.21        79.63        21.47       113.79       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A401 TCGA-BH-A0AV TCGA-BH-A0B3 
       68.94       101.52       139.17        85.35        38.79        39.55 
TCGA-BH-A0B9 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR 
       51.68        18.21        24.85        21.70        44.05        53.69 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0DD TCGA-BH-A0DG 
       49.94        11.67        49.05        41.75        45.83        23.44 
TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0DX TCGA-BH-A0EI TCGA-BH-A0GZ 
       22.13        48.23         3.22        47.41        24.43        10.78 
TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0RX TCGA-BH-A0WA TCGA-BH-A18G 
       23.08        41.00        52.96         5.59        23.05         2.01 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EX 
       55.63        37.55        66.05        51.16       113.82        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FR 
       25.81        97.48        36.92        63.35        45.63       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A42U TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12Q 
       72.07         6.90       109.28        11.77        12.66         0.07 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 
       12.66        12.66        12.66        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26Z 
        1.45         0.69         0.16        12.03        10.42         8.28 
TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A140 TCGA-D8-A143 
        9.67         0.03        12.20         0.99        13.25        14.17 
TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JK 
       19.20        16.50        18.71        12.03        14.01        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD 
       20.09        19.40        16.73        27.58         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XT TCGA-D8-A1XU 
       15.22        14.73        21.83        17.69         6.35        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F 
       15.16        12.66        15.32        14.24        17.42        16.04 
TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A105 
       13.05        13.48         4.80        10.09        12.26        43.00 
TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T 
       27.52        37.51        47.15        40.96        38.60        33.30 
TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A1AZ TCGA-E2-A1B0 
       31.96        25.41        27.12        14.79        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B6 TCGA-E2-A1IG TCGA-E2-A1IK TCGA-E2-A1IN TCGA-E2-A1L9 
       53.03        28.50        32.78        22.65        22.19        19.66 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N6 
       40.47        28.90       102.61         7.20        19.89        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1RC TCGA-E9-A1RF 
       13.12        36.56        12.59        35.77        40.24         6.58 
TCGA-E9-A1RH TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A245 
       34.59        12.53        13.32        39.09        22.75         0.85 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5FL 
        0.76        18.41         0.62        12.33        14.70         0.26 
TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 
       13.81        39.72        22.82        29.95        29.85        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD 
       39.78        29.82        30.08        18.90        19.99        13.94 
TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 
       14.43        19.96        55.00        25.91        22.09        17.49 
TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DK TCGA-GM-A2DM 
      109.87        53.13        43.04        42.71        62.33        76.64 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LD-A7W5 TCGA-LL-A440 TCGA-LL-A441 
       43.73        69.30        11.84         4.08         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR 
       10.95        15.32        14.47        14.79         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 
        4.14         4.50         4.50         5.59         6.21         7.36 
TCGA-OL-A5RU TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66O 
       27.65        24.72        22.32        26.70        23.47         7.23 
TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA11 TCGA-S3-AA15 
        0.16         0.26         3.95         8.65         5.56         6.87 

  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                        234.28                         186.48 
  DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE 
                        23.110                         22.255 
[1] "0.0 - 234.3 (23.1)" "0.0 - 186.5 (22.3)"
[1] "hr=" "1.1"
D59V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 30(16Q24.3) MUTATED        62       45        5        5       218
  DEL PEAK 30(16Q24.3) WILD-TYPE      21       35        4        0       124
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 30(16Q24.3) MUTATED         149         1         90         15
  DEL PEAK 30(16Q24.3) WILD-TYPE        85         1         52         14
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 30(16Q24.3) MUTATED           44        7         0      12
  DEL PEAK 30(16Q24.3) WILD-TYPE         19       11         1       4
D59V3, multiclass
            clus
vv           DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  STAGE I                              62                             21
  STAGE IA                             45                             35
  STAGE IB                              5                              4
  STAGE II                              5                              0
  STAGE IIA                           218                            124
  STAGE IIB                           149                             85
  STAGE III                             1                              1
  STAGE IIIA                           90                             52
  STAGE IIIB                           15                             14
  STAGE IIIC                           44                             19
  STAGE IV                              7                             11
  STAGE TIS                             0                              1
  STAGE X                              12                              4
[1] 13  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 30(16Q24.3) MUTATED   172 372  87  20
  DEL PEAK 30(16Q24.3) WILD-TYPE  93 222  37  19
D59V4, multiclass
    clus
vv   DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  T1                          172                             93
  T2                          372                            222
  T3                           87                             37
  T4                           20                             19
[1] 4 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  N3
  DEL PEAK 30(16Q24.3) MUTATED   312 210  69  52
  DEL PEAK 30(16Q24.3) WILD-TYPE 169 129  44  22
D59V5, multiclass
    clus
vv   DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  N0                          312                            169
  N1                          210                            129
  N2                           69                             44
  N3                           52                             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                             CM0 (I+)  M0  M1  MX
  DEL PEAK 30(16Q24.3) MUTATED          4 544   8  97
  DEL PEAK 30(16Q24.3) WILD-TYPE        1 310  11  50
D59V6, multiclass
          clus
vv         DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  CM0 (I+)                            4                              1
  M0                                544                            310
  M1                                  8                             11
  MX                                 97                             50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V7, binary
                                cls
clus                               0   1
  DEL PEAK 30(16Q24.3) MUTATED   646   7
  DEL PEAK 30(16Q24.3) WILD-TYPE 368   4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(16Q24.3) MUTATED    646    7
  DEL PEAK 30(16Q24.3) WILD-TYPE  368    4
        clus
vv       DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  FEMALE                          646                            368
  MALE                              7                              4
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 30(16Q24.3) MUTATED                            0
  DEL PEAK 30(16Q24.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 30(16Q24.3) MUTATED                             456
  DEL PEAK 30(16Q24.3) WILD-TYPE                           298
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 30(16Q24.3) MUTATED                              157
  DEL PEAK 30(16Q24.3) WILD-TYPE                             18
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 30(16Q24.3) MUTATED                     3
  DEL PEAK 30(16Q24.3) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 30(16Q24.3) MUTATED                                 20
  DEL PEAK 30(16Q24.3) WILD-TYPE                                9
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 30(16Q24.3) MUTATED                    1             16
  DEL PEAK 30(16Q24.3) WILD-TYPE                 14             28
D59V8, multiclass
                                  clus
vv                                 DEL PEAK 30(16Q24.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             456
  INFILTRATING LOBULAR CARCINOMA                            157
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           20
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             16
                                  clus
vv                                 DEL PEAK 30(16Q24.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               298
  INFILTRATING LOBULAR CARCINOMA                               18
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                              9
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V9, binary
                                cls
clus                               0   1
  DEL PEAK 30(16Q24.3) MUTATED   174 479
  DEL PEAK 30(16Q24.3) WILD-TYPE 108 264
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(16Q24.3) MUTATED    174  479
  DEL PEAK 30(16Q24.3) WILD-TYPE  108  264
     clus
vv    DEL PEAK 30(16Q24.3) MUTATED DEL PEAK 30(16Q24.3) WILD-TYPE
  NO                           174                            108
  YES                          479                            264
[1] 2 2
[1] FALSE
D59V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 30(16Q24.3) MUTATED                                  1    32
  DEL PEAK 30(16Q24.3) WILD-TYPE                                0    24
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 30(16Q24.3) MUTATED                          84   467
  DEL PEAK 30(16Q24.3) WILD-TYPE                        74   250
D59V11, multiclass
                                  clus
vv                                 DEL PEAK 30(16Q24.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      32
  BLACK OR AFRICAN AMERICAN                                  84
  WHITE                                                     467
                                  clus
vv                                 DEL PEAK 30(16Q24.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        24
  BLACK OR AFRICAN AMERICAN                                    74
  WHITE                                                       250
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V12, binary
                                cls
clus                               0   1
  DEL PEAK 30(16Q24.3) MUTATED    18 520
  DEL PEAK 30(16Q24.3) WILD-TYPE  18 306
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(16Q24.3) MUTATED     18  520
  DEL PEAK 30(16Q24.3) WILD-TYPE   18  306
                        clus
vv                       DEL PEAK 30(16Q24.3) MUTATED
  HISPANIC OR LATINO                               18
  NOT HISPANIC OR LATINO                          520
                        clus
vv                       DEL PEAK 30(16Q24.3) WILD-TYPE
  HISPANIC OR LATINO                                 18
  NOT HISPANIC OR LATINO                            306
[1] 2 2
[1] FALSE

Clustering(60) Variable = DEL PEAK 31(17P12) MUTATION ANALYSIS
D60V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 31(17P12) MUTATED   526  75
  DEL PEAK 31(17P12) WILD-TYPE 360  44
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                         601                          404 
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                          75                           44 
$`DEL PEAK 31(17P12) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ 
       14.37        43.43        48.10        47.24        20.88        13.68 
TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P 
       31.79        39.32        28.01        19.20        18.21        18.02 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        73.84        63.12        64.04        36.13       136.73 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CR TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV 
       24.79       112.08       107.93        75.25         5.19        63.45 
TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EN 
       64.04        56.81        21.14        34.55        25.22        89.36 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SV 
       80.28        79.76        31.82        24.72        24.16        27.12 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 
       44.88        50.43        44.28        17.13        18.71        20.52 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YK 
       20.75        32.55        18.21        21.90        21.67        19.33 
TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1G0 TCGA-A2-A1G1 
       48.46        23.77        23.47        17.36        20.25        19.20 
TCGA-A2-A1G4 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A3KD 
       19.56        52.47       107.70        16.31        18.15        39.65 
TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       83.01        32.75        49.48        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG 
        7.30        24.39        26.96        21.90        38.30        34.29 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13H 
       30.61        37.45        35.67        31.73        12.72        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD 
       31.36        24.26        23.74        23.80        21.73        22.32 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       14.93        13.74        14.50        21.17        17.92        14.73 
TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R 
       11.05         9.37        10.42         8.75        13.02        17.98 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       29.03        31.00         1.02        17.03        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O 
       43.00        19.99        18.97        14.01        17.03         9.99 
TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B 
        8.98         9.99        15.06        36.95        13.02        38.01 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       33.01        19.96        12.00        37.05         9.99        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 
        0.99        33.01        43.00        30.97        17.95        12.00 
TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N 
        9.99         1.02        45.07        29.98        33.07         1.02 
TCGA-A8-A09R TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
        8.98        14.01        19.04        13.02        21.04         0.99 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A2BM TCGA-AC-A2FB 
       17.03        38.04         0.95         2.37        38.20        40.57 
TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A3TN 
       26.04         0.92         2.27         0.99        14.83         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IX TCGA-AC-A8OP 
       16.57        19.79         1.12         1.81         0.43         1.74 
TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        1.12         0.23         0.33         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        8.02         6.51         0.16         0.33         0.33         6.44 
TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY 
        7.96         7.59         6.02         0.33         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O 
        0.33         0.33         5.59        47.84        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 
       84.69        68.75        47.87        29.13        32.78        21.40 
TCGA-AO-A0J4 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG 
       52.18        21.53        50.70        72.00        76.77        26.24 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D 
       62.04        71.80       102.58       108.72        96.10        64.04 
TCGA-AO-A12G TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J 
       41.62        61.87        70.39         0.53        24.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP 
      130.09         5.65        32.52         2.56        32.91       111.32 
TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
        5.26        86.66        98.93        55.86        76.14       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       83.87       114.02        85.97        75.55        61.84        52.77 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU 
       62.56        43.73        43.07        17.23        37.81        76.21 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24O TCGA-AR-A24P 
       62.14        20.22       109.58        73.02        84.20         0.85 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 
       87.22        76.01        53.36        85.35        79.00        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LJ 
       73.18        72.76        58.92        93.83       128.65        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A5QM TCGA-AR-A5QP TCGA-AR-A5QQ 
       42.87         7.36        40.04        54.74        20.45        10.59 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ 
       12.13       129.57        65.72       146.50       112.37       176.98 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE 
       18.77       126.12        84.59       110.14       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RT 
       68.45       189.01       234.28        81.17       100.70        89.46 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ 
      131.21       157.41        97.48        79.63       113.79       129.57 
TCGA-B6-A0X1 TCGA-B6-A0X7 TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV 
      186.48        58.88       139.17        54.28        49.94        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 
       20.45        25.55        46.95        40.83        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BF 
       48.36        56.94        51.68        37.22        32.02        25.71 
TCGA-BH-A0BM TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0BZ 
       61.68        48.69        27.19        53.69        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DI 
       41.75        44.02        42.90        45.83        31.17        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
       13.91        48.23        15.65        47.41        16.27         4.41 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H0 
       14.30         9.63        46.19        31.00        24.43        15.16 
TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HP TCGA-BH-A0HU 
       23.08        52.96        26.50         5.85        13.61        12.89 
TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
       51.32        50.79        24.95        44.81        23.05         8.81 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S 
        7.23        20.12        26.66        30.28        55.63        66.05 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU 
        7.36        51.39        51.16        91.99       113.82        42.28 
TCGA-BH-A1EV TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FD 
       12.00        17.69        31.53        97.48        24.66        33.17 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FN 
       74.73       122.89        36.92        63.35        45.63        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T 
        6.90         0.72        38.60        57.83       130.16         0.99 
TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A130 
       11.93        12.66        11.77         0.07        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
        1.78         1.45         0.69         0.62         3.85         3.75 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
       10.92        11.34        11.34         0.16        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y 
        2.30         3.25         0.30         0.23         0.36         0.43 
TCGA-C8-A26Z TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        8.28         0.03        12.20         0.99         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 
       11.90        20.88        13.48        21.14        19.20        14.17 
TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       17.49        16.50        18.71        15.78        18.15        18.90 
TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JT 
       12.03        20.09        20.12        20.38        21.01        13.32 
TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XF TCGA-D8-A1XJ 
       18.58        16.73        23.90        27.58        15.22        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT 
       14.50        19.92        17.69        16.41        16.31         6.35 
TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       12.99        16.54        15.32        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R 
       14.14        13.45        13.05        13.48         4.80        10.09 
TCGA-D8-A27T TCGA-E2-A105 TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q 
       13.08        43.00        40.11        28.87        44.68        38.24 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
       38.60        33.17        33.30        34.26        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 
       28.60        17.03        25.41        27.12        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G 
       23.87        14.79        25.05        23.34        20.71        18.21 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ 
       12.92        17.42         7.73        14.07        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       53.62        53.03        32.35        28.50        16.47        38.30 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IN TCGA-E2-A1IO 
       32.78        33.73        33.70        28.44        22.19        20.98 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
       27.42        39.62        24.59        28.90        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A56Z TCGA-E2-A573 
      102.61        43.04        16.93         5.52         7.20        34.92 
TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       19.00         9.21        36.82        13.48        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1QZ TCGA-E9-A1R0 
       36.56        39.55        12.59        20.05        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB 
        0.62         6.12         2.76        21.21        32.09        20.81 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       34.65         6.58        21.27        34.59        35.64        34.13 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A244 
       12.53        13.32        39.09        22.75        23.51         0.69 
TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 
       27.22         0.72        17.75        26.07         0.62        15.72 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE 
       12.33         0.23         0.26        13.81        14.40        15.39 
TCGA-EW-A1IW TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
       12.20        18.90        13.25        16.57        15.68        28.77 
TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 
       25.94        29.85        40.41        52.96        29.82        23.11 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
        7.86        18.90         6.15        13.94        10.52        14.43 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A423 TCGA-GI-A2C8 
       55.00        52.73        25.91        21.27        10.16         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
      109.87       194.27        53.13        53.52        43.04        42.71 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A3XL TCGA-JL-A3YW 
       42.28        61.91        62.33        90.84        69.30        11.84 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YO 
        6.67         4.08         8.75        11.44        15.32        14.47 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 
        4.50         4.50         5.59         3.22         6.21         7.36 
TCGA-LQ-A4E4 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW 
       27.91        12.66        46.55        31.99        58.62        36.36 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66O TCGA-PL-A8LV 
       24.72        22.32        20.38        23.47         7.23         0.23 
TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A89A 
       16.50         8.65         7.92         3.91         5.29         9.14 
TCGA-Z7-A8R6 
      105.04 

$`DEL PEAK 31(17P12) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SG TCGA-A1-A0SM TCGA-A2-A04N TCGA-A2-A04Q 
        0.39         8.52        14.27         7.96       104.81        41.95 
TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CL TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CS 
       22.06        55.43        64.57        92.48        88.60        75.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES 
       33.76        28.77       101.72       107.61        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0T0 
       35.05        34.29        29.75        99.19        54.64        17.52 
TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YI 
        8.38        17.46        18.90        25.28        15.42        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G6 TCGA-A2-A25C 
       18.61        31.73        36.79        22.45        16.47        17.19 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XX 
       91.92        10.59        20.88        33.93        29.98        38.40 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CH TCGA-A7-A0DB 
       21.30        23.21        21.14        35.31        35.47        33.11 
TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       10.72        23.61        20.61        11.34        10.59        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A5ZV TCGA-A7-A5ZW 
       11.28        13.41        14.70        11.97        12.10        10.72 
TCGA-A7-A6VV TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A07F 
       10.29        13.02         1.02        53.06        26.01        18.97 
TCGA-A8-A07J TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
       12.00        10.98         7.99        24.99        28.04        18.05 
TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08P TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 
        0.99        28.96        31.00        93.04        40.01        33.01 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09Q 
       41.98         9.99        12.00        50.04        49.05        25.02 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A9 TCGA-AC-A23G 
       19.04        15.02         0.99        12.00        13.02        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        2.66         1.48        38.53        55.43        36.99        38.79 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3YI TCGA-AC-A3YJ 
       50.70         1.02         0.69        22.19        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OR 
        1.55         0.07         1.18         0.69         1.68         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0FF 
        0.33         0.33         0.62         7.36         0.33         4.64 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0XS TCGA-AN-A0XV 
        7.00         7.17         6.28         0.36         0.33         5.33 
TCGA-AO-A03L TCGA-AO-A03U TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       80.28        59.05        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A125 
       53.03        50.86        21.37        50.24        55.33        99.25 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H 
      106.78        90.58        77.56        57.30        48.36        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A7U7 TCGA-AR-A0TQ 
       14.73        82.62        17.79        15.62         9.99        49.32 
TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A1AK TCGA-AR-A1AL 
       74.79        29.75        64.83        65.36        51.25        48.82 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24M 
       43.56        39.98        61.28        63.62        50.89        96.89 
TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A2LH 
       78.51       101.52        50.96        83.77        78.48        20.25 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QN TCGA-B6-A0I1 
       38.17        39.39        40.54        20.38        16.04        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IP TCGA-B6-A0RM 
      143.38       149.59       220.90        50.70       110.93        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0WT TCGA-B6-A0WW 
      172.96       162.05       102.77       140.48       188.68        17.98 
TCGA-B6-A0WX TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF 
       21.47       129.70        28.27        68.94        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
       73.51       170.17        85.35       103.63        55.00        24.53 
TCGA-BH-A0AZ TCGA-BH-A0B7 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
       28.50        56.98        18.21        24.85        21.70        44.05 
TCGA-BH-A0BO TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DG 
       35.67        53.95        45.57        49.94        48.13        23.44 
TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       38.01        17.26         3.22         2.56        38.47        45.17 
TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ 
       15.68        44.81        32.65        24.49        30.35        10.78 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HO 
       37.78        35.51        24.56        41.00        20.38         2.50 
TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W5 TCGA-BH-A18G 
       36.85        27.25         5.59        23.93        42.35         2.01 
TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18R TCGA-BH-A1EN TCGA-BH-A1ET 
       90.84        72.56        37.74        37.55        69.93        82.85 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC 
       55.69        49.58        25.81        89.16       120.62       114.15 
TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q 
       55.00       144.59        72.07        83.31        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12V 
       20.12       109.28         8.94        11.77        11.77        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A1HE TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
       12.66        12.66        12.33         9.67         0.03         0.03 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A1JF TCGA-D8-A1JH 
       13.25        20.58        13.97        14.17        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X6 
       18.97        20.09        19.40        12.20        14.70        17.79 
TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XO 
       25.74        18.15         2.66        17.16        14.73         7.96 
TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27I 
       15.85        15.16        12.66        17.42        16.04        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
        9.44        16.41         0.76        12.53        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
       18.51         7.33        34.42        27.52        46.59        40.41 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14U TCGA-E2-A154 
       37.51        28.44        47.15        40.96        43.33        19.43 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       22.82        17.29        21.63        19.40         9.04        20.58 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1B4 TCGA-E2-A1BD TCGA-E2-A1IF 
       13.02        19.56        17.06        29.95        17.10        37.41 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB 
       22.65         3.88        11.08        54.18        19.66        40.47 
TCGA-E2-A1LK TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1NE 
        8.75        15.72        30.61        19.89        19.20        35.77 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1RC TCGA-E9-A1RD 
       21.57         9.86         2.10         1.38        40.24         0.66 
TCGA-E9-A227 TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 
        0.79        12.89        24.10        17.06         0.85         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A5FK TCGA-EW-A1IX 
        0.95        24.56         0.76        18.41        14.70        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 
        8.48        18.21        22.82        29.95        41.13        39.78 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FW 
       18.48        30.08        19.99        34.55        19.96        22.09 
TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       17.49        10.59        59.57        76.64        77.33        53.36 
TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        43.73        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       18.12        11.57        21.24         4.60         9.53        10.95 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ 
        7.59        17.06        14.70        14.79        11.57         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5RU TCGA-OL-A5RV 
        3.88         4.14         2.79         2.10        27.65        34.92 
TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       16.87        26.70        65.62        33.57        31.07        26.04 
TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ 
       14.07        28.21        19.73         0.16         0.26         3.95 
TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 
        6.81        10.59         5.56         8.52         7.17         6.87 
TCGA-XX-A899 TCGA-Z7-A8R5 
        9.60       100.01 

  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                        0.03                         0.03 
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                      234.28                       220.90 
  DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE 
                      23.080                       22.075 
[1] "0.0 - 234.3 (23.1)" "0.0 - 220.9 (22.1)"
[1] "hr=" "1.1"
D60V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 31(17P12) MUTATED        50       44        2        4       197
  DEL PEAK 31(17P12) WILD-TYPE      33       36        7        1       145
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 31(17P12) MUTATED         147         1         89         15
  DEL PEAK 31(17P12) WILD-TYPE        87         1         53         14
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 31(17P12) MUTATED           41       12         1      10
  DEL PEAK 31(17P12) WILD-TYPE         22        6         0       6
D60V3, multiclass
            clus
vv           DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  STAGE I                            50                           33
  STAGE IA                           44                           36
  STAGE IB                            2                            7
  STAGE II                            4                            1
  STAGE IIA                         197                          145
  STAGE IIB                         147                           87
  STAGE III                           1                            1
  STAGE IIIA                         89                           53
  STAGE IIIB                         15                           14
  STAGE IIIC                         41                           22
  STAGE IV                           12                            6
  STAGE TIS                           1                            0
  STAGE X                            10                            6
[1] 13  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 31(17P12) MUTATED   142 372  77  21
  DEL PEAK 31(17P12) WILD-TYPE 123 222  47  18
D60V4, multiclass
    clus
vv   DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  T1                        142                          123
  T2                        372                          222
  T3                         77                           47
  T4                         21                           18
[1] 4 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  N3
  DEL PEAK 31(17P12) MUTATED   291 196  71  46
  DEL PEAK 31(17P12) WILD-TYPE 190 143  42  28
D60V5, multiclass
    clus
vv   DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  N0                        291                          190
  N1                        196                          143
  N2                         71                           42
  N3                         46                           28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                           CM0 (I+)  M0  M1  MX
  DEL PEAK 31(17P12) MUTATED          2 517  13  82
  DEL PEAK 31(17P12) WILD-TYPE        3 337   6  65
D60V6, multiclass
          clus
vv         DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  CM0 (I+)                          2                            3
  M0                              517                          337
  M1                               13                            6
  MX                               82                           65
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D60V7, binary
                              cls
clus                             0   1
  DEL PEAK 31(17P12) MUTATED   606   8
  DEL PEAK 31(17P12) WILD-TYPE 408   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 31(17P12) MUTATED    606    8
  DEL PEAK 31(17P12) WILD-TYPE  408    3
        clus
vv       DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  FEMALE                        606                          408
  MALE                            8                            3
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 31(17P12) MUTATED                            0
  DEL PEAK 31(17P12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 31(17P12) MUTATED                             474
  DEL PEAK 31(17P12) WILD-TYPE                           280
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 31(17P12) MUTATED                               87
  DEL PEAK 31(17P12) WILD-TYPE                             88
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 31(17P12) MUTATED                     5
  DEL PEAK 31(17P12) WILD-TYPE                   1
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 31(17P12) MUTATED                                 18
  DEL PEAK 31(17P12) WILD-TYPE                               11
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 31(17P12) MUTATED                    4             25
  DEL PEAK 31(17P12) WILD-TYPE                 11             19
D60V8, multiclass
                                  clus
vv                                 DEL PEAK 31(17P12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           474
  INFILTRATING LOBULAR CARCINOMA                           87
  MEDULLARY CARCINOMA                                       5
  MIXED HISTOLOGY (PLEASE SPECIFY)                         18
  MUCINOUS CARCINOMA                                        4
  OTHER  SPECIFY                                           25
                                  clus
vv                                 DEL PEAK 31(17P12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             280
  INFILTRATING LOBULAR CARCINOMA                             88
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                         11
  OTHER  SPECIFY                                             19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D60V9, binary
                              cls
clus                             0   1
  DEL PEAK 31(17P12) MUTATED   176 438
  DEL PEAK 31(17P12) WILD-TYPE 106 305
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 31(17P12) MUTATED    176  438
  DEL PEAK 31(17P12) WILD-TYPE  106  305
     clus
vv    DEL PEAK 31(17P12) MUTATED DEL PEAK 31(17P12) WILD-TYPE
  NO                         176                          106
  YES                        438                          305
[1] 2 2
[1] FALSE
D60V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 31(17P12) MUTATED                                  1    41
  DEL PEAK 31(17P12) WILD-TYPE                                0    15
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 31(17P12) MUTATED                          98   417
  DEL PEAK 31(17P12) WILD-TYPE                        60   300
D60V11, multiclass
                                  clus
vv                                 DEL PEAK 31(17P12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                    41
  BLACK OR AFRICAN AMERICAN                                98
  WHITE                                                   417
                                  clus
vv                                 DEL PEAK 31(17P12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      15
  BLACK OR AFRICAN AMERICAN                                  60
  WHITE                                                     300
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D60V12, binary
                              cls
clus                             0   1
  DEL PEAK 31(17P12) MUTATED    21 499
  DEL PEAK 31(17P12) WILD-TYPE  15 327
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 31(17P12) MUTATED     21  499
  DEL PEAK 31(17P12) WILD-TYPE   15  327
                        clus
vv                       DEL PEAK 31(17P12) MUTATED
  HISPANIC OR LATINO                             21
  NOT HISPANIC OR LATINO                        499
                        clus
vv                       DEL PEAK 31(17P12) WILD-TYPE
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          327
[1] 2 2
[1] FALSE

Clustering(61) Variable = DEL PEAK 32(17Q21.31) MUTATION ANALYSIS
D61V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 32(17Q21.31) MUTATED   297  43
  DEL PEAK 32(17Q21.31) WILD-TYPE 589  76
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                            340                             665 
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                             43                              76 
$`DEL PEAK 32(17Q21.31) MUTATED`
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP 
       20.88        13.68        31.79         7.96        39.32        19.20 
TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CR 
       18.02        73.84        64.04        55.43        24.79       107.93 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0EQ 
       63.45        64.04        56.81        21.14        34.55        79.76 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YG 
       44.88        50.43        44.28        18.71        18.21        21.90 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G1 
       18.61        19.33        48.46        23.77        17.36        19.20 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A3XT TCGA-A2-A3XY TCGA-A2-A3Y0 
       52.47       107.70        16.31        83.01        34.98        38.37 
TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CG TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D 
       24.39        26.96        34.29        30.61        35.67        31.73 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A426 TCGA-A7-A4SD 
       31.36        24.26        23.74        21.73        11.97        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       21.17        17.92        14.73        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A076 
        8.75         1.02        17.98        31.00        17.03        53.98 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A084 
        9.01        43.00        19.99        14.01        17.03        15.06 
TCGA-A8-A08B TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08X TCGA-A8-A09C 
       38.01        12.00        37.05         9.99        43.00         1.02 
TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09X TCGA-A8-A0A7 
       50.04        45.07        29.98         1.02        14.01         0.99 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
       38.04         0.95         2.66         1.48        38.53        38.20 
TCGA-AC-A2QH TCGA-AC-A3BB TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A62Y TCGA-AC-A6IX 
        1.02         0.99        16.57        19.79         1.81         0.43 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT 
        0.33         2.96         6.51         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        6.44         7.96         7.59         6.02         0.33         0.36 
TCGA-AN-A0FY TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         0.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 
       47.84        66.77        29.13        32.78        21.40        24.16 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM 
       21.53        50.70        72.00        26.24        55.33        71.80 
TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       96.10        64.04        70.39        26.93       130.09         5.65 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TX 
        2.56        32.91       111.32        49.32        86.66        64.83 
TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       55.86       101.95       114.02        85.97        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY 
       52.77        43.73        39.98        43.07        17.23        20.22 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A256 
      101.52        87.22        53.36        73.18        72.76        93.83 
TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IQ 
       12.13       129.57        65.72       112.37       176.98       140.88 
TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A1KF TCGA-B6-A1KN 
      211.56       189.01       131.21       157.41       101.52       139.17 
TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B5 
       49.94        38.79        20.45        25.55        46.95        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BF 
       56.94        56.98        51.68        37.22        32.02        25.71 
TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DG TCGA-BH-A0DK 
       48.69        53.69        41.75        44.02        23.44        13.91 
TCGA-BH-A0DL TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E6 
       48.23        47.41        16.27         4.41        14.30         9.63 
TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0HB TCGA-BH-A0HP TCGA-BH-A0HY TCGA-BH-A0W7 
       46.19        31.00        26.50        13.61        50.79        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18P 
       23.05         8.81         2.01         7.23        20.12        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EY 
       55.63        37.55        69.93       113.82        42.28        17.69 
TCGA-BH-A1F6 TCGA-BH-A1FD TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A1FU TCGA-BH-A203 
       97.48        33.17        36.92        45.63        72.07        38.60 
TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12P TCGA-C8-A12Q 
       57.83       130.16        11.93        11.77        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
       12.66         1.78         1.45         0.62         3.85         3.75 
TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26V 
       10.92        11.34         0.16        12.03        10.42         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B 
        0.23         0.36         9.67         0.03         0.03         0.99 
TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A145 TCGA-D8-A146 
        0.03        11.90        20.88        13.25        13.48        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK 
       14.17        17.49        16.50        12.03        20.09        20.12 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1X5 TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ 
       19.40        20.38        18.58        21.83        14.50        16.41 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
        6.35        12.99        15.32        16.04        13.45        13.05 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A14Q TCGA-E2-A14R 
       13.48         4.80        13.08        12.53        38.24        38.60 
TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       34.26        31.96        28.60        17.03        25.41        27.12 
TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       21.04        14.79        25.05        20.71        18.21        12.92 
TCGA-E2-A15M TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B5 TCGA-E2-A1II 
        7.73        60.53        53.62        53.03        32.35        33.70 
TCGA-E2-A1L7 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A573 
       27.42        40.47        28.90        43.04        16.93        34.92 
TCGA-E2-A9RU TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
        9.21        36.82        13.48        12.00        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RF TCGA-E9-A226 
       12.59        20.05        32.09        20.81         6.58        34.13 
TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A3QA TCGA-E9-A3X8 
       39.09        12.89        23.51         0.69         0.62        15.72 
TCGA-E9-A5FL TCGA-EW-A1J1 TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 
        0.26        18.90        29.95        40.41        29.82         7.86 
TCGA-EW-A1PA TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FV TCGA-GI-A2C8 TCGA-GI-A2C9 
       18.90        14.43        19.96        25.91         7.40       109.87 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DL TCGA-JL-A3YW 
      194.27        53.13        43.04        61.91        90.84        11.84 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A73Z 
        6.67         4.08        14.70        14.47        11.57         4.50 
TCGA-LL-A7SZ TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 
        5.59        12.66        46.55        36.36        22.32        20.38 
TCGA-OL-A66I TCGA-OL-A66O TCGA-S3-AA14 TCGA-XX-A89A 
       23.47         7.23         7.17         9.14 

$`DEL PEAK 32(17Q21.31) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R 
       47.24        28.01        18.21       104.81        41.95        82.16 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO 
       22.06        63.12        36.13       136.73        64.57       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0D2 
       92.48        88.60        75.55        75.25         5.19        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       28.77        25.22       101.72        89.36        80.28       107.61 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
       74.40        37.05        35.05        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0T0 
       24.72        24.16        99.19        54.64        27.12        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 
       17.13         8.38        20.52        17.46        18.90        20.75 
TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YM 
       32.55        25.28        15.42        21.67        14.50        31.73 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       23.47        36.79        22.45        20.25        19.56        16.47 
TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       17.19        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XZ 
       33.93        29.98        32.75        49.48        38.40        31.99 
TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
        7.30        21.30        23.21        21.14        21.90        38.30 
TCGA-A7-A0CE TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13F 
       35.31        35.47        37.45        33.11        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       23.61        29.56        23.80        20.61        22.32        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA 
       10.59        10.29        11.28        13.41        14.70        14.93 
TCGA-A7-A4SB TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P 
       13.74        12.10        10.72        11.05        13.02        13.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A07F TCGA-A8-A07G 
       53.06        29.03        26.01         1.02        18.97        18.97 
TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U 
       12.00         9.99        10.98         8.98         7.99        24.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.99        28.04        18.05        36.95        13.02         0.99 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       28.96        33.01        19.96        31.00        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       33.01        93.04        40.01        33.01        30.97        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E 
       41.98        12.00         9.99         9.99        12.00        49.05 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       33.07        25.02         8.98        19.04        15.02         0.99 
TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB 
       12.00        19.04        13.02        21.04        13.02        17.03 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK 
        2.37        10.85        40.57        55.43        36.99        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04        50.70         0.92         2.27         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
       22.19         1.12        23.24        24.79         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OQ 
        1.12         1.18         0.69         1.68         1.74         1.12 
TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C 
        1.32         0.33         0.33         0.23         0.62         1.78 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0FF TCGA-AN-A0FK 
        1.71         8.02         7.36         0.33         4.64         7.00 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        7.17         6.28         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AO-A03O TCGA-AO-A03P 
       12.33         0.30         0.33         5.33        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 
       68.75        47.87        59.05        52.18        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI 
       22.36        53.03        50.86        76.77        21.37        50.24 
TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       62.04       102.58        99.25       108.72       106.78        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A1H2 
       82.62        61.87         0.53        17.79        24.79        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW 
       32.52         9.99         5.26        74.79        29.75        98.93 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       76.14        65.36        83.87        51.25        48.82        62.56 
TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.56        37.81        76.21        61.28        63.62        62.14 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
      109.58        50.89        73.02        96.89        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
        0.85        76.01        85.35        50.96        83.77        79.00 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       56.15        78.48        58.92       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       42.87         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK 
      143.38       149.59       220.90        50.70       146.50        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RI 
      126.12        84.59       110.14       110.93        68.45       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      100.70        89.46        97.48       188.68        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       21.47       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 
       68.94        58.88        43.59        73.51       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B2 
       54.28       103.63        55.00        24.53        28.50        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
       39.55        39.16        18.21        24.85        21.70        44.05 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       61.68        35.67        27.19        53.95        45.57        49.94 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       11.67        49.05        48.13        42.90        45.83        31.17 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       38.01        22.13        17.26        15.65         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB 
       38.47        45.17        15.68        44.81        32.65        24.49 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.43        30.35        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK 
       24.56        23.08        41.00        52.96        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX 
        2.50        36.85        12.89        51.32        27.25         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
       23.93        24.95        42.35        90.84        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO 
       37.74        66.05         7.36        51.39        51.16        91.99 
TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 
       82.85        12.00        55.69        49.58        25.81        31.53 
TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        24.66       120.62       114.15        74.73       122.89 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 
       63.35        55.00        72.07       144.59         6.90         0.72 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       83.31        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
        8.94        11.77        12.66        12.66        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HM TCGA-C8-A1HN 
        3.12         0.69        12.33        11.34         2.30         3.25 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A141 
        0.43         8.28         0.03        12.20         0.23        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       13.97        14.17        19.20        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JP 
       18.90        12.03        14.01        18.97        20.09        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF 
       23.90        27.58        18.15         2.66        17.16        15.22 
TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS 
       14.73        19.92        17.69         7.96        15.85        16.31 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.16        12.66        16.54        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P 
       14.14        17.42        14.43         9.44        16.41         0.76 
TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       10.09        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
       34.42        27.52        46.59        40.41        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S 
       28.44        28.87        47.15        44.68        40.96        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 
       33.30        43.33        32.02        23.24        19.43        23.87 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15J 
       23.34        22.82        17.29        21.63        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
        9.04        20.58        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       14.99        29.95        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       37.41        32.78        33.73        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
       22.19        20.98        11.08        54.18        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P6 
       24.59        18.87       106.75       102.61         8.75         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 TCGA-E9-A1N4 
       15.72         7.20        30.61        19.89        19.00        19.20 
TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       13.12        35.77        21.57         9.86        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
        0.62         2.10         6.12         1.38         2.76        21.21 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI 
       40.24         0.66        34.65        21.27        34.59        35.64 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 
        0.79        12.53        13.32        22.75        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.85        27.22         1.94         0.95        24.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54X TCGA-E9-A54Y 
       17.75         0.76        26.07        18.41        12.33         0.23 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       14.70        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
        8.48        18.21        13.25        16.57        15.68        28.77 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       25.94        22.82        29.85        41.13        39.78        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       23.11        18.48        30.08        19.99         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 
       10.52        34.55        55.00        52.73        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DF 
       17.49        10.16        10.59        59.57        53.52        42.71 
TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       42.28        62.33        76.64        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        43.73        69.30        66.38        72.03        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       18.12        11.57        21.24         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP 
       11.44        10.95         7.59        17.06        15.32        14.79 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 
        2.63         3.88         4.14         4.50         3.22         6.21 
TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D8 TCGA-OL-A5DA 
        7.36        27.91         2.79         2.10        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J 
       27.65        34.92        16.87        24.72        26.70        65.62 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-OL-A6VO TCGA-OL-A6VQ 
       33.57        31.07        26.04        14.07        28.21        19.73 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZG 
        0.23         0.16         0.26         3.95        16.50         6.81 
TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 
        8.65        10.59         7.92         5.56         8.52         6.87 
TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        3.91         5.29         9.60       100.01       105.04 

  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE 
                          21.78                           22.75 
[1] "0.0 - 211.6 (21.8)" "0.0 - 234.3 (22.8)"
[1] "hr=" "1.1"
D61V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 32(17Q21.31) MUTATED        27       21        2        0       120
  DEL PEAK 32(17Q21.31) WILD-TYPE      56       59        7        5       222
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 32(17Q21.31) MUTATED          79         0         55          6
  DEL PEAK 32(17Q21.31) WILD-TYPE       155         2         87         23
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 32(17Q21.31) MUTATED           23        9         1       5
  DEL PEAK 32(17Q21.31) WILD-TYPE         40        9         0      11
D61V3, multiclass
            clus
vv           DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  STAGE I                               27                              56
  STAGE IA                              21                              59
  STAGE IB                               2                               7
  STAGE II                               0                               5
  STAGE IIA                            120                             222
  STAGE IIB                             79                             155
  STAGE III                              0                               2
  STAGE IIIA                            55                              87
  STAGE IIIB                             6                              23
  STAGE IIIC                            23                              40
  STAGE IV                               9                               9
  STAGE TIS                              1                               0
  STAGE X                                5                              11
[1] 13  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 32(17Q21.31) MUTATED    73 217  44  13
  DEL PEAK 32(17Q21.31) WILD-TYPE 192 377  80  26
D61V4, multiclass
    clus
vv   DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  T1                            73                             192
  T2                           217                             377
  T3                            44                              80
  T4                            13                              26
[1] 4 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  N3
  DEL PEAK 32(17Q21.31) MUTATED   162 105  49  27
  DEL PEAK 32(17Q21.31) WILD-TYPE 319 234  64  47
D61V5, multiclass
    clus
vv   DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  N0                           162                             319
  N1                           105                             234
  N2                            49                              64
  N3                            27                              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                              CM0 (I+)  M0  M1  MX
  DEL PEAK 32(17Q21.31) MUTATED          2 298   9  40
  DEL PEAK 32(17Q21.31) WILD-TYPE        3 556  10 107
D61V6, multiclass
          clus
vv         DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  CM0 (I+)                             2                               3
  M0                                 298                             556
  M1                                   9                              10
  MX                                  40                             107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D61V7, binary
                                 cls
clus                                0   1
  DEL PEAK 32(17Q21.31) MUTATED   347   2
  DEL PEAK 32(17Q21.31) WILD-TYPE 667   9
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 32(17Q21.31) MUTATED    347    2
  DEL PEAK 32(17Q21.31) WILD-TYPE  667    9
        clus
vv       DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  FEMALE                           347                             667
  MALE                               2                               9
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 32(17Q21.31) MUTATED                            0
  DEL PEAK 32(17Q21.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 32(17Q21.31) MUTATED                             283
  DEL PEAK 32(17Q21.31) WILD-TYPE                           471
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 32(17Q21.31) MUTATED                               33
  DEL PEAK 32(17Q21.31) WILD-TYPE                            142
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 32(17Q21.31) MUTATED                     4
  DEL PEAK 32(17Q21.31) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 32(17Q21.31) MUTATED                                 11
  DEL PEAK 32(17Q21.31) WILD-TYPE                               18
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 32(17Q21.31) MUTATED                    1             16
  DEL PEAK 32(17Q21.31) WILD-TYPE                 14             28
D61V8, multiclass
                                  clus
vv                                 DEL PEAK 32(17Q21.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              283
  INFILTRATING LOBULAR CARCINOMA                              33
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            11
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              16
                                  clus
vv                                 DEL PEAK 32(17Q21.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                471
  INFILTRATING LOBULAR CARCINOMA                               142
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              18
  MUCINOUS CARCINOMA                                            14
  OTHER  SPECIFY                                                28
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D61V9, binary
                                 cls
clus                                0   1
  DEL PEAK 32(17Q21.31) MUTATED   101 248
  DEL PEAK 32(17Q21.31) WILD-TYPE 181 495
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 32(17Q21.31) MUTATED    101  248
  DEL PEAK 32(17Q21.31) WILD-TYPE  181  495
     clus
vv    DEL PEAK 32(17Q21.31) MUTATED DEL PEAK 32(17Q21.31) WILD-TYPE
  NO                            101                             181
  YES                           248                             495
[1] 2 2
[1] FALSE
D61V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 32(17Q21.31) MUTATED                                  0    32
  DEL PEAK 32(17Q21.31) WILD-TYPE                                1    24
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 32(17Q21.31) MUTATED                          60   229
  DEL PEAK 32(17Q21.31) WILD-TYPE                        98   488
D61V11, multiclass
                                  clus
vv                                 DEL PEAK 32(17Q21.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       32
  BLACK OR AFRICAN AMERICAN                                   60
  WHITE                                                      229
                                  clus
vv                                 DEL PEAK 32(17Q21.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         24
  BLACK OR AFRICAN AMERICAN                                     98
  WHITE                                                        488
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D61V12, binary
                                 cls
clus                                0   1
  DEL PEAK 32(17Q21.31) MUTATED    12 281
  DEL PEAK 32(17Q21.31) WILD-TYPE  24 545
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 32(17Q21.31) MUTATED     12  281
  DEL PEAK 32(17Q21.31) WILD-TYPE   24  545
                        clus
vv                       DEL PEAK 32(17Q21.31) MUTATED
  HISPANIC OR LATINO                                12
  NOT HISPANIC OR LATINO                           281
                        clus
vv                       DEL PEAK 32(17Q21.31) WILD-TYPE
  HISPANIC OR LATINO                                  24
  NOT HISPANIC OR LATINO                             545
[1] 2 2
[1] FALSE

Clustering(62) Variable = DEL PEAK 33(18Q23) MUTATION ANALYSIS
D62V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 33(18Q23) MUTATED   284  43
  DEL PEAK 33(18Q23) WILD-TYPE 602  76
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                         327                          678 
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                          43                           76 
$`DEL PEAK 33(18Q23) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SI TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04U 
       14.37        20.88        28.01        18.02        41.95        22.06 
TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0EN 
       55.43        24.79         5.19        64.04        21.14        89.36 
TCGA-A2-A0EP TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY 
      107.61        34.29        31.82        27.12        50.43        44.28 
TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI 
       20.52        20.75        18.21        21.90        21.67        14.50 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       19.33        48.46        31.73        23.77        17.36        36.79 
TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A3XU TCGA-A2-A4S1 
       19.20        16.31        17.19        18.15        29.98        26.96 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26F 
       21.90        34.29        35.67        31.73        12.72        24.26 
TCGA-A7-A3J1 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       11.28        14.93        13.74        21.17        17.92        14.73 
TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06R TCGA-A8-A06U 
       12.10        10.29         9.37        10.42        17.98        29.03 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A07G TCGA-A8-A07P TCGA-A8-A07R 
       31.00        26.01        17.03        18.97        10.98         8.98 
TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08J 
        9.99        15.06        36.95        38.01        33.01        37.05 
TCGA-A8-A08R TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E 
        0.99        30.97         9.99        12.00        50.04        49.05 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-AC-A23C 
        1.02        25.02        14.01        19.04        21.04         0.95 
TCGA-AC-A23H TCGA-AC-A2FF TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3W5 TCGA-AC-A3W6 
        2.66        55.43         2.27         0.99        16.57        19.79 
TCGA-AC-A62V TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A03X TCGA-AN-A041 
        0.07         0.43         1.74         1.12         0.33         0.23 
TCGA-AN-A04A TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0FL TCGA-AN-A0FV 
        2.96         7.36         6.51         0.16         7.59         0.33 
TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XU TCGA-AO-A03L 
        0.36         0.33         0.33         0.30         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JA 
       66.77        32.78        52.18        37.48        20.32        21.53 
TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A12D TCGA-AO-A12E 
       50.70        72.00        62.04       102.58        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       48.36        17.79        24.79        26.93       130.09         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0U1 TCGA-AR-A1AP 
       15.62        32.91       111.32        86.66       101.95        39.98 
TCGA-AR-A1AV TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W 
       61.28       109.58        96.89        87.22        85.35        50.96 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A2LN TCGA-AR-A2LR 
       56.15        78.48        73.18        58.92        38.17        20.38 
TCGA-AR-A5QM TCGA-AR-A5QQ TCGA-B6-A0IK TCGA-B6-A0IO TCGA-B6-A0RE TCGA-B6-A0RG 
       54.74        10.59        18.77       110.14       211.56        68.45 
TCGA-B6-A0RL TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY 
       81.17       102.77       100.70        79.63        17.98       113.79 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A402 TCGA-BH-A0AZ TCGA-BH-A0B3 
      101.52        73.51       170.17        54.28        28.50        39.55 
TCGA-BH-A0B4 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BT 
       39.16        37.22        18.21        24.85        48.69        45.57 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DH TCGA-BH-A0DQ 
       11.67        49.05        41.75        42.90        38.01         3.22 
TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HU 
       30.35        23.08        41.00        52.96        20.38        12.89 
TCGA-BH-A0HX TCGA-BH-A0W3 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18K TCGA-BH-A18Q 
       27.25        23.93        23.05         8.81        90.84        55.63 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EY 
       51.39        51.16        69.93        91.99        12.00        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FM TCGA-BH-A201 TCGA-BH-A203 
       25.81        97.48        24.66        45.63         6.90        38.60 
TCGA-BH-A204 TCGA-BH-A209 TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W TCGA-C8-A130 
       83.31       130.16        11.77         0.07        12.66         3.12 
TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.69         0.62         3.75        12.33        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
       12.03         2.30         0.36         0.43         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 
        0.03         0.03         0.03        12.20         0.99         0.03 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 
       11.90        20.88        13.97        21.14        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       16.50        15.78        18.90        12.03        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X9 
       20.09        20.09        20.38        21.01        18.58        23.90 
TCGA-D8-A1XA TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y3 
       27.58        21.83        19.92        12.99        16.54        14.14 
TCGA-D8-A27F TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A3Z6 TCGA-E2-A107 
       16.04        13.48         4.80        10.09        18.51        34.42 
TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R 
       46.59        40.11        28.44        44.68        38.24        38.60 
TCGA-E2-A14V TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15A 
       34.26        25.41        27.12        19.43        25.05        23.34 
TCGA-E2-A15E TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1LE 
       20.71        17.10        33.73        22.19        20.98        28.90 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A573 
      106.75       102.61         8.75        43.04         5.52        34.92 
TCGA-E2-A574 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NF 
       19.89         9.21        19.20        36.56        12.59        20.05 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A22E TCGA-E9-A248 
        6.58        21.27        34.59        35.64        12.89         1.94 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5FL TCGA-EW-A1IW 
        0.72        17.75         0.62         0.23         0.26        12.20 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 
       18.21        18.90        22.82        29.85        40.41        52.96 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PF TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A423 
        7.86        18.90        14.43        55.00        25.91        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DL TCGA-JL-A3YW TCGA-LD-A74U TCGA-LD-A9QF 
        7.40       109.87        90.84        11.84         6.67         8.75 
TCGA-LL-A441 TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP 
       11.44        17.06        15.32        14.47        14.79        11.57 
TCGA-LL-A6FR TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OL-A5D6 TCGA-OL-A5RW TCGA-OL-A5S0 
        3.88         7.36        27.91        12.66        36.36        20.38 
TCGA-OL-A66N TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LZ 
       26.04        28.21        19.73         0.23         0.16         3.95 
TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-XX-A89A 
       16.50         8.65         9.14 

$`DEL PEAK 33(18Q23) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        0.39         8.52        43.43        48.10        14.27        47.24 
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       13.68        31.79         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y 
      104.81        82.16        73.84        63.12        64.04        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      136.73        64.57       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 
       75.55        75.25        63.45        56.81        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER 
       28.77        25.22       101.72        80.28        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST 
       37.05        35.05        29.75        24.72        24.16        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 
       54.64        44.88        17.52        17.13         8.38        18.71 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YJ 
       17.46        18.90        32.55        25.28        15.42        18.61 
TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
       23.47        22.45        20.25        19.56        16.47        52.47 
TCGA-A2-A25A TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
      107.70        91.92        10.59        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       83.01        32.75        49.48        38.40        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       38.37         7.30        24.39        21.30        23.21        21.14 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB 
       38.30        35.31        35.47        30.61        37.45        33.11 
TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H 
       10.72        23.61        29.56        31.36        23.74        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       21.73        20.61        22.32        11.34        10.59        10.29 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A5ZW TCGA-A7-A5ZX 
       13.41        14.70        11.97        14.50        10.72        11.05 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Z 
        8.75        13.02        13.02         1.02        53.06         1.02 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I 
       53.98         9.01        43.00        19.99        18.97        14.01 
TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z 
       12.00        17.03         9.99         7.99        24.99        28.04 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I 
       18.05        13.02         0.99        28.96        19.96        12.00 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X 
        9.99        31.00        31.00        33.01        93.04        43.00 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       40.01        33.01        17.95        41.98        12.00         9.99 
TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T 
        1.02        45.07        29.98        33.07         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 
       15.02         0.99        12.00        13.02         0.99        13.02 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK 
       17.03        38.04         2.37        10.85         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       38.20        40.57        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        1.02         0.92         0.69        14.83        22.19         1.12 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       23.24        24.79         1.55         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6NO TCGA-AC-A8OR TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 
        0.69         1.68         1.32         0.33         0.33         0.62 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT 
        1.78         1.71         8.02         0.33         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        6.44         4.64         7.96         7.00         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XR 
        6.02         0.33         0.33         0.33        12.33         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03O 
        0.33         0.33         5.33         5.59        47.84        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 
       84.69        68.75        47.87        59.05        29.13        21.40 
TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       24.16        22.36        53.03        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        50.24        55.33        71.80        99.25       108.72 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12G TCGA-AO-A12H 
      106.78        96.10        90.58        77.56        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A1H3 
       14.73        82.62        61.87        70.39         0.53        32.52 
TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
        2.56         9.99        49.32         5.26        74.79        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
       98.93        64.83        55.86        76.14        65.36        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
      114.02        85.97        75.55        61.84        52.77        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR 
       48.82        62.56        43.73        43.56        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K 
       37.81        76.21        63.62        62.14        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T 
       73.02        78.51        84.20         0.85       101.52        76.01 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE 
       53.36        83.77        79.00        72.76        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LO 
       20.25        62.86        42.87         7.36        40.04        39.39 
TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 
       40.54        16.04        20.45        77.62       143.38       149.59 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
       12.13       220.90       129.57        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ 
      112.37       176.98       126.12        84.59       110.93       140.88 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ 
      189.01       234.28        78.02       172.96       162.05       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX 
       89.46       131.21       157.41        97.48       188.68        21.47 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
      129.57       129.70       186.48        28.27        68.94        58.88 
TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
       43.59       139.17        85.35        49.94       103.63        55.00 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 
       24.53        38.79        20.45        25.55        46.95        40.83 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BF 
       48.36        56.94        56.98        51.68        32.02        25.71 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       21.70        44.05        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       53.95        49.94        44.02        48.13        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       23.44        22.13        13.91        48.23        17.26        15.65 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
        2.56        38.47        45.17        47.41        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       15.68        14.30         9.63        44.81        46.19        32.65 
TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       24.49        31.00        24.43        10.78        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       35.51        24.56        26.50         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        51.32        50.79         5.59        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M 
       44.81         2.01         7.23        20.12        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1ES 
       37.74        30.28        37.55        66.05         7.36       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1F5 
       82.85        42.28        55.69        49.58        31.53        89.16 
TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
      120.62       114.15        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 
       63.35        55.00        72.07       144.59        72.07         0.72 
TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       57.83        10.65         6.44        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U 
        8.94        11.93        11.77        11.77        12.66        12.66 
TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A1HF 
       12.66        12.66         1.78         1.45         3.85        10.92 
TCGA-C8-A1HG TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A3M8 
       11.34        10.42         3.25         0.30         0.23         0.23 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1JB 
       13.25        20.58        14.17        13.48        19.20        18.71 
TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JS TCGA-D8-A1JT 
       18.15        12.03        20.12        19.40        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC 
       14.70        17.79        16.73        25.74        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO 
       17.16        15.22        14.73        14.50        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW 
       16.41        15.85        16.31         6.35        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G 
       15.32        15.52         3.81        14.24        17.42        13.45 
TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T 
       13.05        14.43         9.44        16.41         0.76        13.08 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 
       12.53        12.26        14.50         7.33        43.00        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14S 
       40.41        37.51        28.87        47.15        40.96        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       33.30        43.33        32.02        31.96        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15D 
       23.24        21.04        23.87        14.79        22.82        17.29 
TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       21.63        18.21        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
       20.58         7.73        13.02        19.56        17.06        14.07 
TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.99        60.53        53.62        53.03        29.95        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1II 
       28.50        16.47        38.30        37.41        32.78        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       28.44        22.65         3.88        11.08        54.18        27.42 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A2P5 
       39.62        19.66        24.59        40.47        18.87        16.93 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A576 TCGA-E9-A1N5 TCGA-E9-A1N6 
       15.72         7.20        30.61        19.00        36.82        13.48 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI 
       12.00        13.12        39.55        35.77        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       11.90        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD 
        2.76        21.21        32.09        20.81        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       34.65        34.13         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 
       22.75        23.51        24.10        17.06         0.69         0.85 
TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       27.22         0.95        24.56         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE 
       15.72        12.33        14.70        13.81        14.40        15.39 
TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
       39.72         8.48        13.25        16.57        15.68        28.77 
TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 
       25.94        29.95        41.13        39.78        29.82        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       18.48        30.08        19.99         6.15        13.94        10.52 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
       34.55        19.96        52.73        22.09        21.27        17.49 
TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
       10.59        59.57       194.27        53.13        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN 
       42.71        42.28        61.91        62.33        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN 
       53.36       110.50        38.20        43.73        69.30        66.38 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A7W5 
       72.03        13.55        18.12        11.57        21.24         4.08 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A6FQ 
        4.60         9.53        10.95         7.59        14.70         2.63 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 
        4.14         4.50         4.50         5.59         3.22         6.21 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        46.55        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       34.92        16.87        24.72        22.32        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-PL-A8LY 
       65.62        33.57        31.07         7.23        14.07         0.26 
TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        6.81        10.59         7.92         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        6.87         3.91         5.29         9.60       100.01       105.04 

  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                        0.03                         0.23 
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                      211.56                       234.28 
  DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE 
                      20.380                       24.275 
[1] "0.0 - 211.6 (20.4)" "0.2 - 234.3 (24.3)"
[1] "hr=" "1.5"
D62V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 33(18Q23) MUTATED        22       27        0        0       108
  DEL PEAK 33(18Q23) WILD-TYPE      61       53        9        5       234
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 33(18Q23) MUTATED          72         0         54         15
  DEL PEAK 33(18Q23) WILD-TYPE       162         2         88         14
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 33(18Q23) MUTATED           28        5         0       5
  DEL PEAK 33(18Q23) WILD-TYPE         35       13         1      11
D62V3, multiclass
            clus
vv           DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  STAGE I                            22                           61
  STAGE IA                           27                           53
  STAGE IB                            0                            9
  STAGE II                            0                            5
  STAGE IIA                         108                          234
  STAGE IIB                          72                          162
  STAGE III                           0                            2
  STAGE IIIA                         54                           88
  STAGE IIIB                         15                           14
  STAGE IIIC                         28                           35
  STAGE IV                            5                           13
  STAGE TIS                           0                            1
  STAGE X                             5                           11
[1] 13  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 33(18Q23) MUTATED    71 205  41  19
  DEL PEAK 33(18Q23) WILD-TYPE 194 389  83  20
D62V4, multiclass
    clus
vv   DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  T1                         71                          194
  T2                        205                          389
  T3                         41                           83
  T4                         19                           20
[1] 4 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  N3
  DEL PEAK 33(18Q23) MUTATED   151 103  47  29
  DEL PEAK 33(18Q23) WILD-TYPE 330 236  66  45
D62V5, multiclass
    clus
vv   DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  N0                        151                          330
  N1                        103                          236
  N2                         47                           66
  N3                         29                           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                           CM0 (I+)  M0  M1  MX
  DEL PEAK 33(18Q23) MUTATED          1 281   5  50
  DEL PEAK 33(18Q23) WILD-TYPE        4 573  14  97
D62V6, multiclass
          clus
vv         DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  CM0 (I+)                          1                            4
  M0                              281                          573
  M1                                5                           14
  MX                               50                           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"
D62V7, binary
                              cls
clus                             0   1
  DEL PEAK 33(18Q23) MUTATED   332   5
  DEL PEAK 33(18Q23) WILD-TYPE 682   6
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(18Q23) MUTATED    332    5
  DEL PEAK 33(18Q23) WILD-TYPE  682    6
        clus
vv       DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  FEMALE                        332                          682
  MALE                            5                            6
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 33(18Q23) MUTATED                            1
  DEL PEAK 33(18Q23) WILD-TYPE                          0
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 33(18Q23) MUTATED                             268
  DEL PEAK 33(18Q23) WILD-TYPE                           486
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 33(18Q23) MUTATED                               45
  DEL PEAK 33(18Q23) WILD-TYPE                            130
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 33(18Q23) MUTATED                     3
  DEL PEAK 33(18Q23) WILD-TYPE                   3
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 33(18Q23) MUTATED                                  8
  DEL PEAK 33(18Q23) WILD-TYPE                               21
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 33(18Q23) MUTATED                    0             11
  DEL PEAK 33(18Q23) WILD-TYPE                 15             33
D62V8, multiclass
                                  clus
vv                                 DEL PEAK 33(18Q23) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           268
  INFILTRATING LOBULAR CARCINOMA                           45
  MEDULLARY CARCINOMA                                       3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          8
  MUCINOUS CARCINOMA                                        0
  OTHER  SPECIFY                                           11
                                  clus
vv                                 DEL PEAK 33(18Q23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             486
  INFILTRATING LOBULAR CARCINOMA                            130
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           21
  MUCINOUS CARCINOMA                                         15
  OTHER  SPECIFY                                             33
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D62V9, binary
                              cls
clus                             0   1
  DEL PEAK 33(18Q23) MUTATED   104 233
  DEL PEAK 33(18Q23) WILD-TYPE 178 510
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(18Q23) MUTATED    104  233
  DEL PEAK 33(18Q23) WILD-TYPE  178  510
     clus
vv    DEL PEAK 33(18Q23) MUTATED DEL PEAK 33(18Q23) WILD-TYPE
  NO                         104                          178
  YES                        233                          510
[1] 2 2
[1] FALSE
D62V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 33(18Q23) MUTATED                                  0    27
  DEL PEAK 33(18Q23) WILD-TYPE                                1    29
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 33(18Q23) MUTATED                          53   225
  DEL PEAK 33(18Q23) WILD-TYPE                       105   492
D62V11, multiclass
                                  clus
vv                                 DEL PEAK 33(18Q23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    27
  BLACK OR AFRICAN AMERICAN                                53
  WHITE                                                   225
                                  clus
vv                                 DEL PEAK 33(18Q23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      29
  BLACK OR AFRICAN AMERICAN                                 105
  WHITE                                                     492
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D62V12, binary
                              cls
clus                             0   1
  DEL PEAK 33(18Q23) MUTATED    11 275
  DEL PEAK 33(18Q23) WILD-TYPE  25 551
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(18Q23) MUTATED     11  275
  DEL PEAK 33(18Q23) WILD-TYPE   25  551
                        clus
vv                       DEL PEAK 33(18Q23) MUTATED
  HISPANIC OR LATINO                             11
  NOT HISPANIC OR LATINO                        275
                        clus
vv                       DEL PEAK 33(18Q23) WILD-TYPE
  HISPANIC OR LATINO                               25
  NOT HISPANIC OR LATINO                          551
[1] 2 2
[1] FALSE

Clustering(63) Variable = DEL PEAK 34(19P13.3) MUTATION ANALYSIS
D63V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 34(19P13.3) MUTATED   289  48
  DEL PEAK 34(19P13.3) WILD-TYPE 597  71
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                           337                            668 
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                            48                             71 
$`DEL PEAK 34(19P13.3) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SD TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SQ TCGA-A2-A04P 
        0.39        14.37        13.68        31.79        18.21        18.02 
TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CW TCGA-A2-A0D0 
       73.84        22.06        55.43        24.79        64.04        21.14 
TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0SX TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE 
       25.22        80.28        50.43        18.71        20.75        18.21 
TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G0 
       21.90        21.67        18.61        23.77        17.36        20.25 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 
       18.15        91.92        83.01        38.40        31.99        38.37 
TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E 
       26.96        21.90        35.31        35.67        31.73        10.72 
TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A4SD TCGA-A7-A4SE 
       23.74        21.73        22.32        10.59        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       17.92        14.73        12.10        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
        8.75         1.02        17.98        53.06        29.03        31.00 
TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L 
        1.02        17.03        53.98         9.01        18.97        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A085 TCGA-A8-A08F 
        9.99        10.98         8.98         9.99        36.95        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08R TCGA-A8-A08S 
       19.96        12.00        37.05        31.00         0.99        33.01 
TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09K 
       30.97        12.00         9.99         1.02        45.07        29.98 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM 
       33.07        25.02         1.48        38.53        38.20        26.04 
TCGA-AC-A2QH TCGA-AC-A3OD TCGA-AC-A62V TCGA-AC-A6IX TCGA-AC-A8OQ TCGA-AN-A041 
        1.02        14.83         0.07         0.43         1.12         0.23 
TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS 
        1.78         8.02         7.36         6.51         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV 
        0.33         6.44         7.96         7.59         6.02         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N 
        0.33         0.33         0.33         5.59        47.84        66.77 
TCGA-AO-A03P TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0JD TCGA-AO-A0JM 
       84.69        32.78        21.40        52.18        72.00        71.80 
TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KR TCGA-AO-A1KT 
       96.10        64.04        48.36        41.62        70.39        17.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ 
       26.93       130.09         5.65         2.56       111.32        49.32 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 
       74.79        86.66        98.93       101.95        83.87       114.02 
TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AQ TCGA-AR-A1AW TCGA-AR-A1AX 
       75.55        52.77        51.25        43.07        63.62        62.14 
TCGA-AR-A24H TCGA-AR-A24R TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LK 
      109.58        87.22        56.15        73.18        93.83        42.87 
TCGA-AR-A2LR TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0IB TCGA-B6-A0IJ 
       20.38        10.59        77.62       143.38       129.57       176.98 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RL TCGA-B6-A0RO 
      126.12        84.59       110.14       140.88        81.17       162.05 
TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WY TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A402 
      100.70       131.21       113.79       101.52       139.17        54.28 
TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 
       49.94        24.53        38.79        25.55        39.55        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR 
       51.68        25.71        24.85        44.05        48.69        53.69 
TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0EB 
       45.57        11.67         3.22         4.41         9.63        24.49 
TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY 
       15.16        23.08        12.89        51.32        27.25        50.79 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
       23.05         8.81         7.23        20.12        90.84        26.66 
TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EV 
       55.63        66.05        51.39        51.16        69.93        12.00 
TCGA-BH-A1EW TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FN 
       55.69        24.66       114.15        63.35        45.63        72.07 
TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12M 
       72.07        83.31        57.83       130.16        11.93        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A135 
        0.07        12.66        12.66         3.12         1.45         0.62 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
        3.75        10.92         0.16        12.03        10.42         2.30 
TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-D8-A13Y 
        3.25         0.43         8.28         9.67        12.20        11.90 
TCGA-D8-A140 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ 
       13.25        19.20        15.78        12.03        18.97        20.09 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XJ 
       20.09        19.40        18.58        23.90        27.58        21.83 
TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y2 
       19.92        16.41         6.35        16.54        15.32        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W 
       14.14        13.45        13.48         4.80        10.09        12.26 
TCGA-E2-A109 TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14Y TCGA-E2-A150 
       46.59        44.68        40.96        38.60        28.60        25.41 
TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15H 
       27.12        14.79        25.05        23.34        20.71        12.92 
TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1IH 
        7.73        19.56        14.07        60.53        53.03        33.73 
TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A573 TCGA-E2-A9RU 
       33.70        22.19        18.87        43.04        34.92         9.21 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       13.48        12.00        13.12        39.55        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1RB 
       21.57         9.86        11.90         0.62         2.10        20.81 
TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A22B 
       40.24        21.27        34.59        35.64        34.13        22.75 
TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA 
       23.51         0.69         1.94         0.72        17.75         0.62 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
       14.70        13.81        18.90        28.77        25.94        22.82 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PC 
       29.95        29.85        40.41        29.82         7.86         6.15 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GM-A2DA 
       19.96        55.00        52.73        17.49        10.16       194.27 
TCGA-GM-A2DC TCGA-GM-A2DH TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FR 
       53.52        42.28        14.70        14.79        11.57         3.88 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A6VO 
        3.22         6.21        46.55        36.36        20.38        28.21 
TCGA-PL-A8LV TCGA-PL-A8LX TCGA-PL-A8LZ TCGA-S3-A6ZF TCGA-S3-A6ZH TCGA-S3-AA14 
        0.23         0.16         3.95        16.50         8.65         7.17 
TCGA-XX-A89A 
        9.14 

$`DEL PEAK 34(19P13.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        43.43        48.10        14.27        47.24        20.88 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04Q 
        7.96        39.32        28.01        19.20       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       82.16        63.12        64.04        36.13       136.73        64.57 
TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT 
      112.08        92.48        88.60       107.93        75.55        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
        5.19        63.45        56.81        34.55        33.76        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
      101.72        89.36       107.61        79.76        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       35.05        34.29        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        27.12        44.88        44.28        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
       17.13         8.38        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       25.28        15.42        14.50        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 
       23.47        36.79        22.45        19.20        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F TCGA-A2-A3KC 
       52.47       107.70        16.31        17.19        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY 
       39.65        33.93        29.98        32.75        49.48        34.98 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30        24.39        21.30        23.21        21.14        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13F 
       34.29        35.47        30.61        37.45        33.11        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J 
       23.61        29.56        31.36        24.26        23.80        20.61 
TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       11.34        10.29        11.28        13.41        14.70        11.97 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P 
       14.93        13.74        10.72        11.05        13.02        13.02 
TCGA-A8-A06Y TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J 
       26.01        43.00        19.99        18.97        14.01        12.00 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A086 
        7.99        24.99        28.04        18.05        15.06        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08T 
        0.99        38.01        28.96         9.99        31.00        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 
       43.00        40.01        33.01        17.95        41.98         9.99 
TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       12.00        50.04        49.05         1.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 
       15.02         0.99        14.01        12.00        19.04        13.02 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       21.04         0.99        13.02        17.03        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        2.37        10.85         2.66        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79        50.70         0.92         2.27         0.99         0.69 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6NO 
        1.55         1.12         1.81         1.18         0.69         1.68 
TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 
        1.74         1.32         0.33         0.33         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN 
        2.96         1.71         0.16         4.64         7.00         7.17 
TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        6.28         0.36         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L 
        0.30         0.33         0.33         0.33         5.33        80.28 
TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J5 
       81.63        68.75        47.87        59.05        29.13        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       37.48        20.32        22.36        53.03        21.53        50.70 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.86        76.77        21.37        26.24        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       55.33       102.58        99.25       108.72       106.78        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       77.56        57.30        28.37        14.73        82.62        61.87 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 
        0.53        24.79        15.62        32.52        32.91         9.99 
TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
        5.26        29.75        64.83        55.86        76.14        65.36 
TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       85.97        61.84        48.82        62.56        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY 
       39.98        17.23        37.81        76.21        61.28        20.22 
TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       50.89        73.02        96.89        78.51        84.20         0.85 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
      101.52        76.01        53.36        85.35        50.96        83.77 
TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       79.00        78.48        72.76        58.92       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       54.74        16.04        20.45       149.59        12.13       220.90 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IP 
       50.70        65.72       146.50       112.37        18.77       110.93 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      211.56        68.45       189.01       234.28        78.02       172.96 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
      102.77       140.48        89.46       157.41        97.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       79.63        17.98        21.47       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU 
       28.27        68.94        58.88        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 
       85.35       103.63        55.00        20.45        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC 
       40.83        39.16        48.36        56.98        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS 
       18.21        21.70        61.68        35.67        27.19        53.95 
TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
       49.94        49.05        41.75        44.02        48.13        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK 
       45.83        31.17        23.44        38.01        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       48.23        17.26        15.65         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 
       47.41        16.27        15.68        14.30        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 
       32.65        31.00        24.43        30.35        10.78        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI 
       35.51        24.56        41.00        52.96        26.50        20.38 
TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0RX TCGA-BH-A0W3 
        5.85         2.50        13.61        36.85         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18M TCGA-BH-A18N 
       24.95        42.35        44.81         2.01        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       30.28        37.55         7.36        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       42.28        49.58        17.69        25.81        31.53        89.16 
TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       97.48       120.62        33.17        74.73       122.89        36.92 
TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A28O 
       55.00       144.59         6.90         0.72        38.60        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N 
        6.44        20.12         0.99       109.28         8.94        11.77 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 
       12.66        11.77        12.66        12.66         1.78         0.69 
TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A26V TCGA-C8-A26W 
        3.85        12.33        11.34        11.34         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 
        0.36         0.03         0.03         0.03         0.99         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 
        0.23        20.88        20.58        13.97        14.17        13.48 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD 
       21.14        14.17        17.49        16.50        18.71        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JP 
       18.90        12.03        14.01        20.12        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       12.20        13.32        14.70        17.79        16.73        25.74 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK 
       18.15         2.66        17.16        15.22        14.73        14.50 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV 
       17.69         7.96        15.85        16.31        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H 
       12.66        15.52         3.81        17.42        16.04        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
       14.43         9.44        16.41         0.76        13.08        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       14.50        18.51         7.33        43.00        34.42        27.52 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N 
       40.41        37.51        40.11        28.44        28.87        47.15 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.24        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
       31.96        17.03        23.24        19.43        21.04        23.87 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J 
       22.82        17.29        21.63        18.21        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 
        9.04        20.58        13.02        17.06        14.99        53.62 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE 
       29.95        32.35        28.50        16.47        17.10        38.30 
TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       37.41        32.78        28.44        22.65         3.88        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA 
       11.08        54.18        27.42        39.62        19.66        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 
       40.47        28.90       106.75       102.61         8.75        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 
        5.52        15.72         7.20        30.61        19.89        19.00 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1R0 TCGA-E9-A1R4 
       19.20        36.82        36.56        35.77        14.30         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE 
        1.38         2.76        21.21        32.09         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E 
        6.58         0.79        12.53        13.32        39.09        12.89 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A 
       24.10        17.06         0.85        27.22         0.95        24.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y 
        0.76        26.07        18.41        15.72        12.33         0.23 
TCGA-E9-A5FL TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26        14.40        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1P0 TCGA-EW-A1P1 
       18.21        13.25        16.57        15.68        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB 
       52.96        23.11        18.48        30.08        18.90        19.99 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FV TCGA-EW-A2FW 
       13.94        10.52        14.43        34.55        25.91        22.09 
TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DB 
       21.27        10.59         7.40       109.87        59.57        53.13 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       43.04        42.71        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL 
       77.33        53.36       110.50        38.20        43.73        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       66.38        72.03        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 
       21.24         6.67         4.08         4.60         8.75         9.53 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO 
       11.44        10.95         7.59        17.06        15.32        14.47 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A9Q3 
        2.63         4.14         4.50         4.50         5.59         7.36 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
       27.91         2.79         2.10        12.66        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H 
       27.65        34.92        16.87        24.72        22.32        26.70 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.47        65.62        33.57        31.07        26.04         7.23 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LY TCGA-S3-A6ZG TCGA-S3-AA0Z TCGA-S3-AA10 
       14.07        19.73         0.26         6.81        10.59         7.92 
TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 
        5.56         8.52         6.87         3.91         5.29         9.60 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                        194.27                         234.28 
  DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE 
                         21.67                          23.34 
[1] "0.1 - 194.3 (21.7)" "0.0 - 234.3 (23.3)"
[1] "hr=" "1.4"
D63V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 34(19P13.3) MUTATED        26       22        3        0       124
  DEL PEAK 34(19P13.3) WILD-TYPE      57       58        6        5       218
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 34(19P13.3) MUTATED          76         1         46         11
  DEL PEAK 34(19P13.3) WILD-TYPE       158         1         96         18
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 34(19P13.3) MUTATED           22        8         0       4
  DEL PEAK 34(19P13.3) WILD-TYPE         41       10         1      12
D63V3, multiclass
            clus
vv           DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  STAGE I                              26                             57
  STAGE IA                             22                             58
  STAGE IB                              3                              6
  STAGE II                              0                              5
  STAGE IIA                           124                            218
  STAGE IIB                            76                            158
  STAGE III                             1                              1
  STAGE IIIA                           46                             96
  STAGE IIIB                           11                             18
  STAGE IIIC                           22                             41
  STAGE IV                              8                             10
  STAGE TIS                             0                              1
  STAGE X                               4                             12
[1] 13  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 34(19P13.3) MUTATED    75 218  35  15
  DEL PEAK 34(19P13.3) WILD-TYPE 190 376  89  24
D63V4, multiclass
    clus
vv   DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  T1                           75                            190
  T2                          218                            376
  T3                           35                             89
  T4                           15                             24
[1] 4 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  N3
  DEL PEAK 34(19P13.3) MUTATED   167 107  37  26
  DEL PEAK 34(19P13.3) WILD-TYPE 314 232  76  48
D63V5, multiclass
    clus
vv   DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  N0                          167                            314
  N1                          107                            232
  N2                           37                             76
  N3                           26                             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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 34(19P13.3) MUTATED          2 291   8  42
  DEL PEAK 34(19P13.3) WILD-TYPE        3 563  11 105
D63V6, multiclass
          clus
vv         DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  CM0 (I+)                            2                              3
  M0                                291                            563
  M1                                  8                             11
  MX                                 42                            105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D63V7, binary
                                cls
clus                               0   1
  DEL PEAK 34(19P13.3) MUTATED   341   2
  DEL PEAK 34(19P13.3) WILD-TYPE 673   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(19P13.3) MUTATED    341    2
  DEL PEAK 34(19P13.3) WILD-TYPE  673    9
        clus
vv       DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  FEMALE                          341                            673
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 34(19P13.3) MUTATED                            1
  DEL PEAK 34(19P13.3) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 34(19P13.3) MUTATED                             292
  DEL PEAK 34(19P13.3) WILD-TYPE                           462
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 34(19P13.3) MUTATED                               19
  DEL PEAK 34(19P13.3) WILD-TYPE                            156
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 34(19P13.3) MUTATED                     5
  DEL PEAK 34(19P13.3) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 34(19P13.3) MUTATED                                  8
  DEL PEAK 34(19P13.3) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 34(19P13.3) MUTATED                    4             13
  DEL PEAK 34(19P13.3) WILD-TYPE                 11             31
D63V8, multiclass
                                  clus
vv                                 DEL PEAK 34(19P13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             292
  INFILTRATING LOBULAR CARCINOMA                             19
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             13
                                  clus
vv                                 DEL PEAK 34(19P13.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               462
  INFILTRATING LOBULAR CARCINOMA                              156
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           11
  OTHER  SPECIFY                                               31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D63V9, binary
                                cls
clus                               0   1
  DEL PEAK 34(19P13.3) MUTATED    96 247
  DEL PEAK 34(19P13.3) WILD-TYPE 186 496
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(19P13.3) MUTATED     96  247
  DEL PEAK 34(19P13.3) WILD-TYPE  186  496
     clus
vv    DEL PEAK 34(19P13.3) MUTATED DEL PEAK 34(19P13.3) WILD-TYPE
  NO                            96                            186
  YES                          247                            496
[1] 2 2
[1] FALSE
D63V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 34(19P13.3) MUTATED                                  0    24
  DEL PEAK 34(19P13.3) WILD-TYPE                                1    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 34(19P13.3) MUTATED                          67   219
  DEL PEAK 34(19P13.3) WILD-TYPE                        91   498
D63V11, multiclass
                                  clus
vv                                 DEL PEAK 34(19P13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  67
  WHITE                                                     219
                                  clus
vv                                 DEL PEAK 34(19P13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    91
  WHITE                                                       498
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D63V12, binary
                                cls
clus                               0   1
  DEL PEAK 34(19P13.3) MUTATED    12 277
  DEL PEAK 34(19P13.3) WILD-TYPE  24 549
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(19P13.3) MUTATED     12  277
  DEL PEAK 34(19P13.3) WILD-TYPE   24  549
                        clus
vv                       DEL PEAK 34(19P13.3) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          277
                        clus
vv                       DEL PEAK 34(19P13.3) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            549
[1] 2 2
[1] FALSE

Clustering(64) Variable = DEL PEAK 35(19Q13.32) MUTATION ANALYSIS
D64V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 35(19Q13.32) MUTATED   166  30
  DEL PEAK 35(19Q13.32) WILD-TYPE 720  89
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                            196                             809 
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                             30                              89 
$`DEL PEAK 35(19Q13.32) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CW 
        0.39        28.01        18.21        22.06        55.43        64.04 
TCGA-A2-A0D1 TCGA-A2-A0EO TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T7 TCGA-A2-A0YG 
       34.55        80.28        27.12        50.43        20.75        21.90 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G1 TCGA-A2-A3XT 
       18.61        31.73        23.77        17.36        19.20        83.01 
TCGA-A7-A0CJ TCGA-A7-A13E TCGA-A7-A2KD TCGA-A7-A3J1 TCGA-A7-A4SE TCGA-A7-A56D 
       30.61        10.72        22.32        11.28        21.17        14.73 
TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A076 TCGA-A8-A07G 
        8.75         1.02        17.98        53.06        53.98        18.97 
TCGA-A8-A07O TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08L TCGA-A8-A08S 
        9.99        38.01        33.01        19.96         9.99        33.01 
TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09N TCGA-AC-A23C TCGA-AC-A2FM 
        1.02        45.07        33.07         1.02         0.95        26.04 
TCGA-AC-A62V TCGA-AC-A8OQ TCGA-AN-A041 TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FV 
        0.07         1.12         0.23         0.33         0.33         0.33 
TCGA-AN-A0FZ TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J2 
        0.33        80.28        66.77        84.69        29.13        32.78 
TCGA-AO-A0J3 TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 
       21.40        72.00        76.77        55.33       102.58        96.10 
TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AR-A0TY 
       61.87        17.79        24.79       130.09         5.65        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A24H 
       65.36        83.87       114.02        85.97        52.77       109.58 
TCGA-AR-A24L TCGA-AR-A24R TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A2LK TCGA-AR-A5QQ 
       73.02        87.22        78.48        73.18        42.87        10.59 
TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IQ TCGA-B6-A0RV TCGA-B6-A0WX TCGA-B6-A0WY 
       77.62       129.57       140.88       157.41        21.47       113.79 
TCGA-B6-A0X1 TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV 
      186.48       101.52       139.17        54.28        49.94        38.79 
TCGA-BH-A0B9 TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DQ 
       51.68        48.69        53.69        41.75        42.90         3.22 
TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18F 
       24.49        31.00        23.08        50.79        23.05         8.81 
TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ES 
        7.23        90.84        66.05         7.36        51.16       113.82 
TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A209 
       17.69        97.48       114.15        72.07        83.31       130.16 
TCGA-C8-A12M TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A132 TCGA-C8-A1HF 
       11.77        11.77         0.07        12.66         1.45        10.92 
TCGA-C8-A1HL TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B 
       10.42         0.36         0.43         0.03        12.20         0.99 
TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JG TCGA-D8-A1JI 
       11.90        13.25        19.20        15.78        12.03        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JP TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XK 
       20.09        20.12        21.01        27.58        17.16        14.50 
TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y3 TCGA-D8-A27F 
       16.41         6.35        16.54        15.32        14.14        16.04 
TCGA-D8-A27R TCGA-E2-A109 TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A159 
       10.09        46.59        44.68        40.96        38.60        25.05 
TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1L7 TCGA-E2-A1LL TCGA-E2-A573 TCGA-E9-A1N6 
       12.92        14.07        27.42        43.04        34.92        13.48 
TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R3 TCGA-E9-A1R7 
       36.56        20.05         9.86        11.90         2.10        21.21 
TCGA-E9-A1RB TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22A TCGA-E9-A22G 
       20.81        21.27        34.59        34.13        39.09        23.51 
TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A5UO TCGA-EW-A1OW 
       17.06         0.69        26.07         0.62        13.81        22.82 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PF 
       29.95        29.85        40.41        18.90         6.15        14.43 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH 
       55.00        52.73        17.49        53.13        42.71        42.28 
TCGA-LL-A5YL TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-OL-A5D7 TCGA-OL-A5RY TCGA-OL-A5S0 
       17.06         3.88         3.22        46.55        24.72        20.38 
TCGA-OL-A6VO TCGA-PL-A8LX TCGA-S3-A6ZF TCGA-S3-AA14 
       28.21         0.16        16.50         7.17 

$`DEL PEAK 35(19Q13.32) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP 
       20.88        13.68        31.79         7.96        39.32        19.20 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V 
      104.81        18.02        41.95        82.16        73.84        63.12 
TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO 
       64.04        36.13       136.73        64.57        24.79       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
       92.48        88.60       107.93        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
       63.45        56.81        21.14        33.76        28.77        25.22 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
      101.72        89.36       107.61        79.76        74.40        37.05 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       35.05        34.29        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 
       99.19        54.64        44.88        44.28        17.52        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC 
        8.38        18.71        20.52        17.46        18.90        32.55 
TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YK 
       25.28        18.21        15.42        21.67        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       48.46        23.47        36.79        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D 
       16.47        52.47       107.70        16.31        17.19        18.15 
TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU 
       91.92        10.59        20.88        39.65        33.93        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       32.75        49.48        38.40        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30        24.39        21.30        23.21        26.96        21.14 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
       21.90        38.30        35.31        34.29        35.47        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H 
       35.67        33.11        31.73        12.72        23.61        29.56 
TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J 
       31.36        24.26        23.74        23.80        21.73        20.61 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       11.34        10.59        10.29        13.41        14.70        11.97 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW 
       14.93        13.74        14.50        17.92        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P 
       11.05        10.29         9.37        10.42        13.02        13.02 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 
       29.03        31.00        26.01         1.02        17.03         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       43.00        19.99        18.97        14.01        12.00        17.03 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z 
       10.98         8.98         7.99        24.99         9.99        28.04 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C 
       18.05        15.06        36.95        13.02         0.99        28.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T 
       12.00        37.05        31.00        31.00         0.99        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       43.00        40.01        33.01        30.97        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E 
       12.00         9.99         9.99        12.00        50.04        49.05 
TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       29.98        25.02         8.98        19.04        15.02         0.99 
TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
       14.01        12.00        19.04        13.02        21.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H 
       13.02        17.03        38.04         2.37        10.85         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG 
        1.48        38.53        38.20        40.57        55.43        36.99 
TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       38.79        50.70         1.02         0.92         2.27         0.99 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 
        0.69        14.83        22.19         1.12        16.57        19.79 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
       23.24        24.79         1.55         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OP TCGA-AC-A8OR TCGA-AN-A03X 
        0.69         0.43         1.68         1.74         1.32         0.33 
TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.33         0.33         0.62         2.96         1.78         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD 
        8.02         7.36         6.51         0.16         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        4.64         7.96         7.00         7.59         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN 
        6.02         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
       12.33         0.30         0.33         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T 
        5.33         5.59        47.84        81.63        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       59.05        52.18        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG 
       53.03        21.53        50.70        50.86        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       50.24        62.04        71.80        99.25       108.72       106.78 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       90.58        77.56        64.04        57.30        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04J 
       28.37        14.73        82.62        70.39         0.53        26.93 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP 
       15.62        32.52         2.56        32.91         9.99       111.32 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
       49.32         5.26        74.79        86.66        29.75        98.93 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AK 
       64.83        76.14       101.95        75.55        61.84        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
       48.82        62.56        43.73        43.56        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       17.23        37.81        76.21        61.28        63.62        62.14 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       20.22        50.89        96.89        78.51        84.20         0.85 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
      101.52        76.01        53.36        85.35        50.96        83.77 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       79.00        56.15        72.76        58.92        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       20.25        62.86         7.36        40.04        38.17        39.39 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I2 
       40.54        20.38        54.74        16.04        20.45       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
      149.59        12.13       220.90        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      112.37       176.98        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       211.56        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS 
       78.02       172.96       162.05       102.77       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
       89.46       131.21        97.48       188.68        79.63        17.98 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
      129.57       129.70        28.27        68.94        58.88        43.59 
TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
       73.51       170.17        85.35       103.63        55.00        24.53 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       20.45        25.55        28.50        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.16        48.36        56.94        56.98        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
       18.21        25.71        24.85        21.70        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW 
       35.67        27.19        53.95        45.57        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       49.05        44.02        48.13        45.83        31.17        23.44 
TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       38.01        22.13        13.91        48.23        17.26        15.65 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
        2.56        38.47        45.17        47.41        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       15.68        14.30         9.63        44.81        46.19        32.65 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.43        30.35        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       24.56        41.00        52.96        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        2.50        13.61        36.85        12.89        51.32        27.25 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G 
        5.59        23.93        24.95        42.35        44.81         2.01 
TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
       20.12        26.66        72.56        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU 
       37.55        51.39        69.93        91.99        82.85        42.28 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       12.00        55.69        49.58        25.81        31.53        89.16 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       24.66       120.62        33.17        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 
       63.35        55.00        45.63        72.07       144.59         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        0.72        38.60        57.83        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O 
        0.99       109.28         8.94        11.93        11.77        12.66 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 
       12.66        12.66        12.66         3.12         1.78         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI 
        0.62         3.85         3.75        12.33        11.34        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
        0.16        12.03         2.30         3.25         0.30         0.23 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-C8-A3M8 
        8.28         9.67         0.03         0.03         0.03         0.23 
TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 
       20.88        20.58        13.97        14.17        13.48        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE 
       14.17        17.49        16.50        18.71        18.15        18.90 
TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS 
       12.03        14.01        20.09        19.40        20.38        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       13.32        14.70        18.58        17.79        16.73        25.74 
TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ 
       23.90        18.15         2.66        15.22        14.73        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU 
       19.92        17.69         7.96        15.85        16.31        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E 
       15.16        12.66        15.52         3.81        14.24        17.42 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
        4.80         0.76        13.08        12.53        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A 
       18.51         7.33        43.00        34.42        27.52        40.41 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q 
       37.51        40.11        28.44        28.87        47.15        38.24 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
       33.17        33.30        43.33        34.26        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       28.60        17.03        25.41        27.12        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        23.34        22.82        17.29 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       20.71        21.63        18.21        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T 
       20.58         7.73        13.02        19.56        17.06        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       60.53        53.62        53.03        29.95        32.35        28.50 
TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH 
       16.47        17.10        38.30        37.41        32.78        33.73 
TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO 
       33.70        28.44        22.65         3.88        22.19        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        39.62        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 
       28.90        18.87       106.75       102.61         8.75        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E2-A576 
        5.52        15.72         7.20        30.61        19.89        19.00 
TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC 
        9.21        19.20        36.82        12.00        13.12        39.55 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R4 
       12.59        35.77        21.57        14.30         0.62         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        1.38         2.76        32.09        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22B 
        6.58        35.64         0.79        12.53        13.32        22.75 
TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 
       12.89        24.10         0.85        27.22         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 
       24.56         0.72        17.75         0.76        18.41        15.72 
TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UP TCGA-E9-A6HE 
       12.33         0.23        14.70         0.26        14.40        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       12.20        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1P0 TCGA-EW-A1P1 
       16.57        15.68        28.77        25.94        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 
       52.96        29.82        23.11        18.48        30.08         7.86 
TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FV 
       19.99        13.94        10.52        34.55        19.96        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 
       22.09        21.27        10.16        10.59         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK 
       59.57       194.27        53.52        43.04        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       90.84        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       43.73        69.30        66.38        72.03        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A7W6 
       11.84        11.57        21.24         6.67         4.08         4.60 
TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YM 
        8.75         9.53        11.44        10.95         7.59        15.32 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A73Y 
       14.70        14.47        14.79        11.57         2.63         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 
        4.50         4.50         5.59         6.21         7.36        27.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66        31.99        58.62        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       34.92        36.36        16.87        22.32        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       65.62        33.57        31.07        26.04         7.23        14.07 
TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZG TCGA-S3-A6ZH 
       19.73         0.23         0.26         3.95         6.81         8.65 
TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         7.92         5.56         8.52         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 TCGA-Z7-A8R6 
        5.29         9.60         9.14       100.01       105.04 

  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                         186.48                          234.28 
  DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE 
                         23.295                          22.190 
[1] "0.0 - 186.5 (23.3)" "0.0 - 234.3 (22.2)"
[1] "hr=" "1.2"
D64V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 35(19Q13.32) MUTATED        15       13        1        0        72
  DEL PEAK 35(19Q13.32) WILD-TYPE      68       67        8        5       270
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 35(19Q13.32) MUTATED          41         1         36          3
  DEL PEAK 35(19Q13.32) WILD-TYPE       193         1        106         26
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 35(19Q13.32) MUTATED           10        5         0       2
  DEL PEAK 35(19Q13.32) WILD-TYPE         53       13         1      14
D64V3, multiclass
            clus
vv           DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  STAGE I                               15                              68
  STAGE IA                              13                              67
  STAGE IB                               1                               8
  STAGE II                               0                               5
  STAGE IIA                             72                             270
  STAGE IIB                             41                             193
  STAGE III                              1                               1
  STAGE IIIA                            36                             106
  STAGE IIIB                             3                              26
  STAGE IIIC                            10                              53
  STAGE IV                               5                              13
  STAGE TIS                              0                               1
  STAGE X                                2                              14
[1] 13  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 35(19Q13.32) MUTATED    47 126  22   5
  DEL PEAK 35(19Q13.32) WILD-TYPE 218 468 102  34
D64V4, multiclass
    clus
vv   DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  T1                            47                             218
  T2                           126                             468
  T3                            22                             102
  T4                             5                              34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                               N0  N1  N2  N3
  DEL PEAK 35(19Q13.32) MUTATED    92  64  32  11
  DEL PEAK 35(19Q13.32) WILD-TYPE 389 275  81  63
D64V5, multiclass
    clus
vv   DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  N0                            92                             389
  N1                            64                             275
  N2                            32                              81
  N3                            11                              63
[1] 4 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                              CM0 (I+)  M0  M1  MX
  DEL PEAK 35(19Q13.32) MUTATED          2 163   5  30
  DEL PEAK 35(19Q13.32) WILD-TYPE        3 691  14 117
D64V6, multiclass
          clus
vv         DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  CM0 (I+)                             2                               3
  M0                                 163                             691
  M1                                   5                              14
  MX                                  30                             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D64V7, binary
                                 cls
clus                                0   1
  DEL PEAK 35(19Q13.32) MUTATED   198   2
  DEL PEAK 35(19Q13.32) WILD-TYPE 816   9
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(19Q13.32) MUTATED    198    2
  DEL PEAK 35(19Q13.32) WILD-TYPE  816    9
        clus
vv       DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  FEMALE                           198                             816
  MALE                               2                               9
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 35(19Q13.32) MUTATED                            0
  DEL PEAK 35(19Q13.32) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 35(19Q13.32) MUTATED                             177
  DEL PEAK 35(19Q13.32) WILD-TYPE                           577
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 35(19Q13.32) MUTATED                                6
  DEL PEAK 35(19Q13.32) WILD-TYPE                            169
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 35(19Q13.32) MUTATED                     3
  DEL PEAK 35(19Q13.32) WILD-TYPE                   3
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 35(19Q13.32) MUTATED                                  5
  DEL PEAK 35(19Q13.32) WILD-TYPE                               24
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 35(19Q13.32) MUTATED                    3              5
  DEL PEAK 35(19Q13.32) WILD-TYPE                 12             39
D64V8, multiclass
                                  clus
vv                                 DEL PEAK 35(19Q13.32) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              177
  INFILTRATING LOBULAR CARCINOMA                               6
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             5
  MUCINOUS CARCINOMA                                           3
  OTHER  SPECIFY                                               5
                                  clus
vv                                 DEL PEAK 35(19Q13.32) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                577
  INFILTRATING LOBULAR CARCINOMA                               169
  MEDULLARY CARCINOMA                                            3
  MIXED HISTOLOGY (PLEASE SPECIFY)                              24
  MUCINOUS CARCINOMA                                            12
  OTHER  SPECIFY                                                39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D64V9, binary
                                 cls
clus                                0   1
  DEL PEAK 35(19Q13.32) MUTATED    70 130
  DEL PEAK 35(19Q13.32) WILD-TYPE 212 613
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(19Q13.32) MUTATED     70  130
  DEL PEAK 35(19Q13.32) WILD-TYPE  212  613
     clus
vv    DEL PEAK 35(19Q13.32) MUTATED DEL PEAK 35(19Q13.32) WILD-TYPE
  NO                             70                             212
  YES                           130                             613
[1] 2 2
[1] FALSE
D64V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 35(19Q13.32) MUTATED                                  0    15
  DEL PEAK 35(19Q13.32) WILD-TYPE                                1    41
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 35(19Q13.32) MUTATED                          35   134
  DEL PEAK 35(19Q13.32) WILD-TYPE                       123   583
D64V11, multiclass
                                  clus
vv                                 DEL PEAK 35(19Q13.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       15
  BLACK OR AFRICAN AMERICAN                                   35
  WHITE                                                      134
                                  clus
vv                                 DEL PEAK 35(19Q13.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         41
  BLACK OR AFRICAN AMERICAN                                    123
  WHITE                                                        583
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D64V12, binary
                                 cls
clus                                0   1
  DEL PEAK 35(19Q13.32) MUTATED     5 167
  DEL PEAK 35(19Q13.32) WILD-TYPE  31 659
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 35(19Q13.32) MUTATED      5  167
  DEL PEAK 35(19Q13.32) WILD-TYPE   31  659
                        clus
vv                       DEL PEAK 35(19Q13.32) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           167
                        clus
vv                       DEL PEAK 35(19Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             659
[1] 2 2
[1] FALSE

Clustering(65) Variable = DEL PEAK 36(20P13) MUTATION ANALYSIS
D65V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 36(20P13) MUTATED   129  23
  DEL PEAK 36(20P13) WILD-TYPE 757  96
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                         152                          853 
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                          23                           96 
$`DEL PEAK 36(20P13) MUTATED`
TCGA-5T-A9QA TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A0CM TCGA-A2-A0D0 
        0.39        31.79        28.01        73.84        24.79        21.14 
TCGA-A2-A0ST TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A3XU TCGA-A2-A4S3 
       99.19        18.71        18.21        21.67        29.98        21.90 
TCGA-A7-A0CE TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A4SE 
       35.31        12.72        31.36        24.26        21.73        21.17 
TCGA-A7-A5ZV TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A079 TCGA-A8-A07L 
       12.10         1.02        17.98        31.00         9.01        17.03 
TCGA-A8-A07P TCGA-A8-A082 TCGA-A8-A08F TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       10.98        18.05        33.01        37.05         9.99        31.00 
TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0AB TCGA-AC-A3W5 TCGA-AC-A62V 
       25.02         0.99        19.04        17.03        16.57         0.07 
TCGA-AC-A62X TCGA-AC-A8OP TCGA-AN-A0AT TCGA-AN-A0FY TCGA-AN-A0XW TCGA-AO-A03R 
        1.12         1.74         0.33         0.33         5.59        68.75 
TCGA-AO-A0J2 TCGA-AO-A0J6 TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       32.78        37.48        61.87        17.79        24.79        26.93 
TCGA-AQ-A54N TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U3 
        2.56        74.79        98.93        55.86       101.95       114.02 
TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A251 TCGA-AR-A252 
       17.23        76.21        20.22        50.89        78.48        73.18 
TCGA-B6-A0I9 TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0WT 
       12.13       176.98        18.77        81.17       100.70       188.68 
TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A1KN TCGA-BH-A0AV TCGA-BH-A0B4 TCGA-BH-A0B7 
       21.47       186.48       139.17        38.79        39.16        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BZ TCGA-BH-A0C0 
       51.68        24.85        48.69        53.69        49.05        41.75 
TCGA-BH-A0C7 TCGA-BH-A0DH TCGA-BH-A0E1 TCGA-BH-A0EE TCGA-BH-A0HB TCGA-BH-A18R 
       42.90        38.01        15.68        31.00        26.50        37.55 
TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FM TCGA-BH-A1FN 
        7.36        51.16       114.15        33.17        45.63        72.07 
TCGA-BH-A203 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A135 
       38.60        11.93        11.77         3.12         0.69         0.62 
TCGA-C8-A1HJ TCGA-C8-A1HN TCGA-C8-A26Z TCGA-D8-A1J9 TCGA-D8-A1JK TCGA-D8-A1JL 
        0.16         3.25         8.28        17.49        20.12        20.09 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ 
       23.90        27.58        17.16        21.83        14.50        16.41 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27R 
       15.32        15.52        14.14        16.04        13.05        10.09 
TCGA-E2-A14R TCGA-E2-A150 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15S 
       38.60        25.41        23.34        20.71        21.63        14.07 
TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E9-A1N5 TCGA-E9-A1N9 
       27.42       106.75        16.93        34.92        36.82        13.12 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A22G TCGA-E9-A244 
        2.76        21.21        34.65        34.59        23.51         0.69 
TCGA-E9-A3HO TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A2FR TCGA-EW-A2FV 
       26.07        40.41        29.82         7.86        55.00        25.91 
TCGA-GI-A2C9 TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A5YP 
      109.87        42.71        42.28        69.30        11.57        14.79 
TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66O TCGA-OL-A6VO 
        6.21         2.79        36.36        20.38         7.23        28.21 
TCGA-PL-A8LX TCGA-S3-AA0Z 
        0.16        10.59 

$`DEL PEAK 36(20P13) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
        8.52        14.37        43.43        48.10        14.27        47.24 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ 
       20.88        13.68         7.96        39.32        19.20        18.21 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V 
      104.81        18.02        41.95        82.16        22.06        63.12 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO 
       64.04        55.43        36.13       136.73        64.57       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
       92.48        88.60       107.93        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       63.45        64.04        56.81        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ 
       25.22       101.72        89.36        80.28       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
       74.40        37.05        35.05        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       24.72        24.16        54.64        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52        17.13         8.38        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG 
       18.90        20.75        32.55        25.28        15.42        21.90 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       14.50        18.61        19.33        48.46        31.73        23.77 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       23.47        17.36        36.79        22.45        20.25        19.20 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       19.56        16.47        52.47       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
       18.15        91.92        10.59        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       83.01        32.75        49.48        38.40        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       38.37         7.30        24.39        21.30        23.21        26.96 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       21.14        38.30        34.29        35.47        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H 
       35.67        33.11        31.73        10.72        23.61        29.56 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       23.74        23.80        20.61        22.32        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA 
       10.29        11.28        13.41        14.70        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX 
       13.74        14.50        17.92        14.73        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P 
       10.29         9.37        10.42         8.75        13.02        13.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
       53.06        29.03        26.01         1.02        17.03        53.98 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J 
       43.00        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z 
        9.99         8.98         7.99        24.99         9.99        28.04 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
       15.06        36.95        13.02         0.99        38.01        28.96 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
       19.96        12.00        31.00         0.99        33.01        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       43.00        40.01        33.01        30.97        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       12.00         9.99         9.99        12.00         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       49.05        45.07        29.98        33.07         1.02         8.98 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 
       19.04        15.02        14.01        12.00        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
        0.99        13.02        38.04         0.95         2.37        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
        2.66         1.48        38.53        38.20        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       36.99        38.79        26.04        50.70         1.02         0.92 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        2.27         0.99         0.69        14.83        22.19         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV 
       19.79        23.24        24.79         1.55         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OQ TCGA-AC-A8OR TCGA-AN-A03X 
        0.69         0.43         1.68         1.12         1.32         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C 
        0.33         0.23         0.33         0.62         2.96         1.78 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        1.71         8.02         7.36         6.51         0.16         0.33 
TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL 
        0.33         6.44         4.64         7.96         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        7.17         6.28         6.02         0.33         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03M 
        0.33         0.33         0.33         5.33        80.28        47.84 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       66.77        81.63        84.69        47.87        59.05        29.13 
TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       21.40        52.18        24.16        20.32        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       21.53        50.70        50.86        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       26.24        50.24        62.04        55.33        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       82.62        70.39         0.53       130.09         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
       32.52        32.91         9.99       111.32        49.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
       86.66        29.75        64.83        76.14        65.36        83.87 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       85.97        75.55        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS 
       62.56        43.73        43.56        39.98        43.07        37.81 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M 
       61.28        63.62        62.14       109.58        73.02        96.89 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T 
       78.51        84.20         0.85       101.52        87.22        76.01 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       53.36        85.35        50.96        83.77        79.00        56.15 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ 
       72.76        58.92        93.83       128.65        20.25        62.86 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       42.87         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59       220.90       129.57        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
      146.50       112.37       126.12        84.59       110.14       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM 
      140.88       211.56        68.45       189.01       234.28        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
      172.96       162.05       102.77       140.48        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ 
      157.41        97.48        79.63        17.98       113.79       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
      129.70        28.27        68.94        58.88        43.59       101.52 
TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B 
       73.51       170.17        85.35        54.28        49.94       103.63 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       55.00        24.53        20.45        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC 
       40.83        39.55        48.36        56.94        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        25.71        21.70        44.05        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C1 
       27.19        53.95        45.57        49.94        11.67        44.02 
TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK 
       48.13        45.83        31.17        23.44        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       48.23        17.26        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E6 
       45.17        47.41        16.27         4.41        14.30         9.63 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY 
       44.81        46.19        32.65        24.49        24.43        30.35 
TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       10.78        15.16        37.78        35.51        24.56        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       41.00        52.96        20.38         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
       36.85        12.89        51.32        27.25        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F 
       23.93        24.95        42.35        44.81        23.05         8.81 
TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
        2.01         7.23        20.12        90.84        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN 
       37.74        30.28        55.63        66.05        51.39        69.93 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       91.99       113.82        82.85        42.28        12.00        55.69 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 
       49.58        17.69        25.81        31.53        89.16        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
       24.66       120.62        74.73       122.89        36.92        63.35 
TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 
       55.00       144.59        72.07         6.90         0.72        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       57.83       130.16        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
      109.28         8.94        11.77        12.66        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 
       12.66        12.66        12.66        12.66         1.78         1.45 
TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI 
        3.85         3.75        12.33        10.92        11.34        11.34 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
       12.03        10.42         2.30         0.30         0.23         0.36 
TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A 
        0.43         9.67         0.03         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 
        0.99         0.03         0.23        11.90        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
       20.58        13.97        14.17        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE 
       14.17        16.50        18.71        15.78        18.15        18.90 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM 
       12.03        12.03        14.01        18.97        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       20.38        21.01        12.20        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF 
       17.79        16.73        25.74        18.15         2.66        15.22 
TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS 
       14.73        19.92        17.69         7.96        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 
        6.35        12.99        15.16        12.66        16.54         3.81 
TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       14.24        17.42        13.45        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
       13.48         4.80         0.76        13.08        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
       14.50        18.51         7.33        43.00        34.42        27.52 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
       46.59        40.41        37.51        40.11        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T 
       47.15        44.68        40.96        38.24        33.17        33.30 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       43.33        34.26        32.02        31.96        28.60        17.03 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       27.12        23.24        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
       25.05        22.82        17.29        18.21        12.92        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
       19.40         9.04        20.58         7.73        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       17.06        14.99        60.53        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       32.35        28.50        16.47        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       32.78        33.73        33.70        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
       22.19        20.98        11.08        54.18        39.62        19.66 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK 
       24.59        40.47        28.90        18.87       102.61         8.75 
TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 
       43.04         5.52        15.72         7.20        30.61        19.89 
TCGA-E2-A576 TCGA-E2-A9RU TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA 
       19.00         9.21        19.20        13.48        12.00        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       39.55        12.59        35.77        20.05        21.57         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       11.90        14.30         0.62         2.10         6.12         1.38 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG 
       32.09        20.81        40.24         0.66         6.58        21.27 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       35.64        34.13         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 
       22.75        12.89        24.10        17.06         0.85        27.22 
TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT 
        1.94         0.95        24.56         0.72        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK 
       18.41         0.62        15.72        12.33         0.23        14.70 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
        0.26        13.81        14.40        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
        8.48        18.21        18.90        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 
       28.77        25.94        22.82        29.95        29.85        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       39.78        52.96        23.11        18.48        30.08        18.90 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       19.99         6.15        13.94        10.52        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       19.96        52.73        22.09        21.27        17.49        10.16 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC 
       10.59         7.40        59.57       194.27        53.13        53.52 
TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       43.04        61.91        62.33        90.84        76.64        77.33 
TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       53.36       110.50        38.20        43.73        66.38        72.03 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W5 
       13.55        18.12        11.84        21.24         6.67         4.08 
TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        4.60         8.75         9.53        11.44        10.95         7.59 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ 
       17.06        15.32        14.70        14.47        11.57         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        3.88         4.14         4.50         4.50         5.59         3.22 
TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        7.36        27.91         2.10        12.66        46.55        31.99 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       58.62        27.65        34.92        16.87        24.72        22.32 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       26.70        23.47        65.62        33.57        31.07        26.04 
TCGA-OL-A66P TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZF 
       14.07        19.73         0.23         0.26         3.95        16.50 
TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 
        6.81         8.65         7.92         5.56         8.52         7.17 
TCGA-S3-AA15 TCGA-S3-AA17 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A TCGA-Z7-A8R5 
        6.87         3.91         5.29         9.60         9.14       100.01 
TCGA-Z7-A8R6 
      105.04 

  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                        0.07                         0.03 
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                      188.68                       234.28 
  DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE 
                      23.705                       22.320 
[1] "0.1 - 188.7 (23.7)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.4"
D65V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 36(20P13) MUTATED        10       10        3        0        57
  DEL PEAK 36(20P13) WILD-TYPE      73       70        6        5       285
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 36(20P13) MUTATED          32         0         24          6
  DEL PEAK 36(20P13) WILD-TYPE       202         2        118         23
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 36(20P13) MUTATED            7        6         0       0
  DEL PEAK 36(20P13) WILD-TYPE         56       12         1      16
D65V3, multiclass
            clus
vv           DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  STAGE I                            10                           73
  STAGE IA                           10                           70
  STAGE IB                            3                            6
  STAGE II                            0                            5
  STAGE IIA                          57                          285
  STAGE IIB                          32                          202
  STAGE III                           0                            2
  STAGE IIIA                         24                          118
  STAGE IIIB                          6                           23
  STAGE IIIC                          7                           56
  STAGE IV                            6                           12
  STAGE TIS                           0                            1
  STAGE X                             0                           16
[1] 13  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 36(20P13) MUTATED    34  98  16   7
  DEL PEAK 36(20P13) WILD-TYPE 231 496 108  32
D65V4, multiclass
    clus
vv   DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  T1                         34                          231
  T2                         98                          496
  T3                         16                          108
  T4                          7                           32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                              vv
clus                            N0  N1  N2  N3
  DEL PEAK 36(20P13) MUTATED    74  49  19  11
  DEL PEAK 36(20P13) WILD-TYPE 407 290  94  63
D65V5, multiclass
    clus
vv   DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  N0                         74                          407
  N1                         49                          290
  N2                         19                           94
  N3                         11                           63
[1] 4 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                           CM0 (I+)  M0  M1  MX
  DEL PEAK 36(20P13) MUTATED          0 130   6  19
  DEL PEAK 36(20P13) WILD-TYPE        5 724  13 128
D65V6, multiclass
          clus
vv         DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  CM0 (I+)                          0                            5
  M0                              130                          724
  M1                                6                           13
  MX                               19                          128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D65V7, binary
                              cls
clus                             0   1
  DEL PEAK 36(20P13) MUTATED   152   3
  DEL PEAK 36(20P13) WILD-TYPE 862   8
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 36(20P13) MUTATED    152    3
  DEL PEAK 36(20P13) WILD-TYPE  862    8
        clus
vv       DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  FEMALE                        152                          862
  MALE                            3                            8
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 36(20P13) MUTATED                            1
  DEL PEAK 36(20P13) WILD-TYPE                          0
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 36(20P13) MUTATED                             136
  DEL PEAK 36(20P13) WILD-TYPE                           618
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 36(20P13) MUTATED                                9
  DEL PEAK 36(20P13) WILD-TYPE                            166
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 36(20P13) MUTATED                     2
  DEL PEAK 36(20P13) WILD-TYPE                   4
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 36(20P13) MUTATED                                  2
  DEL PEAK 36(20P13) WILD-TYPE                               27
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 36(20P13) MUTATED                    0              5
  DEL PEAK 36(20P13) WILD-TYPE                 15             39
D65V8, multiclass
                                  clus
vv                                 DEL PEAK 36(20P13) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           136
  INFILTRATING LOBULAR CARCINOMA                            9
  MEDULLARY CARCINOMA                                       2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          2
  MUCINOUS CARCINOMA                                        0
  OTHER  SPECIFY                                            5
                                  clus
vv                                 DEL PEAK 36(20P13) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             618
  INFILTRATING LOBULAR CARCINOMA                            166
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           27
  MUCINOUS CARCINOMA                                         15
  OTHER  SPECIFY                                             39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D65V9, binary
                              cls
clus                             0   1
  DEL PEAK 36(20P13) MUTATED    51 104
  DEL PEAK 36(20P13) WILD-TYPE 231 639
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 36(20P13) MUTATED     51  104
  DEL PEAK 36(20P13) WILD-TYPE  231  639
     clus
vv    DEL PEAK 36(20P13) MUTATED DEL PEAK 36(20P13) WILD-TYPE
  NO                          51                          231
  YES                        104                          639
[1] 2 2
[1] FALSE
D65V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 36(20P13) MUTATED                                  0    10
  DEL PEAK 36(20P13) WILD-TYPE                                1    46
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 36(20P13) MUTATED                          32    97
  DEL PEAK 36(20P13) WILD-TYPE                       126   620
D65V11, multiclass
                                  clus
vv                                 DEL PEAK 36(20P13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    10
  BLACK OR AFRICAN AMERICAN                                32
  WHITE                                                    97
                                  clus
vv                                 DEL PEAK 36(20P13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      46
  BLACK OR AFRICAN AMERICAN                                 126
  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"
D65V12, binary
                              cls
clus                             0   1
  DEL PEAK 36(20P13) MUTATED     4 123
  DEL PEAK 36(20P13) WILD-TYPE  32 703
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 36(20P13) MUTATED      4  123
  DEL PEAK 36(20P13) WILD-TYPE   32  703
                        clus
vv                       DEL PEAK 36(20P13) MUTATED
  HISPANIC OR LATINO                              4
  NOT HISPANIC OR LATINO                        123
                        clus
vv                       DEL PEAK 36(20P13) WILD-TYPE
  HISPANIC OR LATINO                               32
  NOT HISPANIC OR LATINO                          703
[1] 2 2
[1] FALSE

Clustering(66) Variable = DEL PEAK 37(21Q11.2) MUTATION ANALYSIS
D66V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 37(21Q11.2) MUTATED   173  26
  DEL PEAK 37(21Q11.2) WILD-TYPE 713  93
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                           199                            806 
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                            26                             93 
$`DEL PEAK 37(21Q11.2) MUTATED`
TCGA-A1-A0SN TCGA-A2-A04T TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0EU TCGA-A2-A0SU 
       39.32        73.84        64.04        21.14        34.29        54.64 
TCGA-A2-A0SV TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1G1 TCGA-A2-A25B 
       27.12        23.77        23.47        17.36        19.20        16.31 
TCGA-A2-A3Y0 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A26G TCGA-A7-A4SD TCGA-A7-A6VX 
       38.37        35.31        30.61        23.74        14.50        10.42 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A079 TCGA-A8-A07R TCGA-A8-A08F 
       13.02        17.98        29.03         9.01         8.98        33.01 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R 
       19.96        12.00        37.05        31.00        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A0A2 
       33.01         9.99        12.00        45.07         8.98        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A8OP TCGA-AC-A8OQ TCGA-AN-A049 TCGA-AN-A04A 
       13.02        13.02         1.74         1.12         0.62         2.96 
TCGA-AN-A04C TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        1.78         0.16         0.33         6.44         4.64         7.96 
TCGA-AN-A0FV TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AO-A03M 
        0.33         0.33         0.33         0.33         0.33        47.84 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JD 
       84.69        68.75        21.40        20.32        50.70        72.00 
TCGA-AO-A0JE TCGA-AO-A124 TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54O TCGA-AQ-A7U7 
       76.77       102.58       130.09         5.65        32.91         9.99 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
       74.79        86.66        29.75        55.86        76.14       101.95 
TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A24M 
       83.87        75.55        39.98        76.21        63.62        96.89 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A2LK 
       53.36        85.35        50.96        56.15        73.18        42.87 
TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IK TCGA-B6-A0RH TCGA-B6-A0RP TCGA-B6-A0RS 
      129.57        65.72        18.77       189.01       102.77       100.70 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KN 
       79.63        17.98       113.79        58.88        43.59       139.17 
TCGA-B6-A2IU TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0B9 TCGA-BH-A0BL TCGA-BH-A0BR 
      170.17        49.94        24.53        51.68        44.05        53.69 
TCGA-BH-A0DE TCGA-BH-A0DP TCGA-BH-A0E2 TCGA-BH-A0H7 TCGA-BH-A0HU TCGA-BH-A0HX 
       31.17        15.65        14.30        23.08        12.89        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18L TCGA-BH-A18V TCGA-BH-A1F2 TCGA-BH-A1FM 
       50.79        23.93        26.66        51.16        31.53        45.63 
TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A137 
       12.66         0.07        12.66        12.66         3.12         3.85 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HK TCGA-C8-A1HN TCGA-C8-A26W TCGA-C8-A27B 
        3.75        10.92        12.03         3.25         0.23         0.99 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JF 
       13.48        14.17        18.71        15.78        18.15        12.03 
TCGA-D8-A1JM TCGA-D8-A1X6 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ TCGA-D8-A1XL 
       19.40        17.79        27.58        18.15        21.83        19.92 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y3 
       15.85         6.35        16.54        15.32         3.81        14.14 
TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C 
       13.08        12.26        43.00        34.42        46.59        40.11 
TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       28.60        27.12        23.34        20.71        18.21        12.92 
TCGA-E2-A1IH TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LL TCGA-E2-A56Z TCGA-E2-A574 
       33.73        20.98        39.62        43.04         7.20        19.89 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NF TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1RA 
       12.00        13.12        20.05        14.30         6.12        32.09 
TCGA-E9-A1RB TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A22A TCGA-E9-A247 
       20.81        21.27        34.13        12.53        39.09        27.22 
TCGA-E9-A248 TCGA-E9-A295 TCGA-E9-A3QA TCGA-E9-A5FL TCGA-EW-A1IW TCGA-EW-A1J6 
        1.94         0.72         0.62         0.26        12.20        28.77 
TCGA-EW-A1OY TCGA-EW-A2FS TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DL 
       29.85        52.73         7.40       109.87        53.13        90.84 
TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LD-A7W5 TCGA-LL-A5YM TCGA-LL-A7SZ TCGA-OL-A5RZ 
       72.03        11.57         4.08        15.32         5.59        22.32 
TCGA-OL-A66N TCGA-OL-A6VQ TCGA-PL-A8LV TCGA-PL-A8LX TCGA-S3-A6ZF TCGA-S3-A6ZG 
       26.04        19.73         0.23         0.16        16.50         6.81 
TCGA-S3-AA17 
        3.91 

$`DEL PEAK 37(21Q11.2) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG 
        0.39         8.52        14.37        43.43        48.10        14.27 
TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO 
       47.24        20.88        13.68        31.79         7.96        28.01 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
       19.20        18.21       104.81        18.02        41.95        82.16 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       22.06        63.12        64.04        55.43        36.13       136.73 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
       64.57        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D1 
       75.55        75.25         5.19        63.45        56.81        34.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       33.76        28.77        25.22       101.72        89.36        80.28 
TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EV 
      107.61        79.76        74.40        37.05        35.05        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SW TCGA-A2-A0SX 
       29.75        24.72        24.16        99.19        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
       44.28        17.52        17.13         8.38        18.71        20.52 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
       17.46        18.90        20.75        32.55        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
       15.42        21.90        21.67        14.50        18.61        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       48.46        31.73        36.79        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
       16.47        52.47       107.70        17.19        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU 
       10.59        20.88        39.65        33.93        83.01        29.98 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW 
       32.75        49.48        38.40        34.98        31.99         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       24.39        21.30        23.21        26.96        21.14        21.90 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB 
       38.30        34.29        35.47        37.45        35.67        33.11 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       31.73        10.72        12.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       24.26        23.80        21.73        20.61        22.32        11.34 
TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 
       10.59        10.29        11.28        13.41        14.70        11.97 
TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       14.93        13.74        21.17        17.92        14.73        12.10 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06O 
       10.72        11.05        10.29         9.37         8.75        13.02 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
        1.02        53.06        31.00        26.01         1.02        17.03 
TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I 
       53.98        43.00        19.99        18.97        18.97        14.01 
TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U 
       12.00        17.03         9.99        10.98         7.99        24.99 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 
        9.99        28.04        18.05        15.06        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08T TCGA-A8-A08X 
        0.99        38.01        28.96         9.99        93.04        43.00 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       40.01        33.01        30.97        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09M 
        9.99         1.02        50.04        49.05        29.98        33.07 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
        1.02        25.02        19.04        15.02         0.99        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       12.00        21.04         0.99        17.03        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        2.37        10.85         2.66         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
        1.02         0.92         2.27         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       22.19         1.12        16.57        19.79        23.24        24.79 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.55         0.07         1.12         1.81         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A6NO TCGA-AC-A8OR TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        0.43         1.68         1.32         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AS 
        0.33         1.71         8.02         7.36         6.51         0.33 
TCGA-AN-A0AT TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        0.33         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP 
        0.36         0.33         0.33         0.33        12.33         0.30 
TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N 
        0.33         0.33         5.33         5.59        80.28        66.77 
TCGA-AO-A03O TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 
       81.63        47.87        59.05        29.13        32.78        52.18 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC 
       24.16        37.48        22.36        53.03        21.53        50.86 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM 
       21.37        26.24        50.24        62.04        55.33        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       99.25       108.72       106.78        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       64.04        57.30        48.36        41.62        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H 
       82.62        61.87        70.39         0.53        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ 
       26.93        15.62        32.52         2.56       111.32        49.32 
TCGA-AR-A0TR TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A0U4 
        5.26        98.93        64.83        65.36       114.02        85.97 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       61.84        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AX 
       43.56        43.07        17.23        37.81        61.28        62.14 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        50.89        73.02        78.51        84.20 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A24Z 
        0.85       101.52        87.22        76.01        83.77        79.00 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH 
       78.48        72.76        58.92        93.83       128.65        20.25 
TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       62.86         7.36        40.04        38.17        39.39        40.54 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.38        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG 
      143.38       149.59        12.13       220.90        50.70       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
      112.37       176.98       126.12        84.59       110.14       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      140.88       211.56        68.45       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      172.96       162.05       140.48        89.46       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
       97.48       188.68        21.47       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 
       28.27        68.94       101.52        73.51        85.35        54.28 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
      103.63        55.00        38.79        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 
       46.95        40.83        39.55        39.16        48.36        56.94 
TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       56.98        37.22        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS 
       21.70        61.68        35.67        48.69        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
       45.57        49.94        11.67        49.05        41.75        44.02 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       48.13        42.90        45.83        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       13.91        48.23        17.26         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 
       45.17        47.41        16.27         4.41        15.68         9.63 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI 
       44.81        46.19        32.65        24.49        31.00        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       30.35        10.78        15.16        37.78        35.51        24.56 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       41.00        52.96        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 
       13.61        36.85        51.32         5.59        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       44.81        23.05         8.81         2.01         7.23        20.12 
TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       90.84        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES 
       66.05         7.36        51.39        69.93        91.99       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       82.85        42.28        12.00        55.69        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC 
       25.81        89.16        97.48        24.66       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       33.17        74.73       122.89        36.92        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       72.07       144.59        72.07         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       83.31        57.83       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
        0.99       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       11.77        12.66        12.66         1.78         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL 
        0.62        12.33        11.34        11.34         0.16        10.42 
TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
        2.30         0.30         0.36         0.43         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.03         0.03         0.03        12.20         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 
       11.90        20.88        13.25        20.58        13.97        14.17 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JE TCGA-D8-A1JG 
       21.14        19.20        17.49        16.50        18.90        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JN 
       14.01        18.97        20.09        20.12        20.09        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 
       21.01        12.20        13.32        14.70        18.58        16.73 
TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG 
       25.74        23.90         2.66        17.16        15.22        14.73 
TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XU 
       14.50        17.69         7.96        16.41        16.31        12.99 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F 
       15.16        12.66        15.52        14.24        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       13.45        13.05        14.43         9.44        16.41        13.48 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
        4.80         0.76        10.09        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
        7.33        27.52        40.41        37.51        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S 
       47.15        44.68        40.96        38.24        38.60        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Z 
       33.30        43.33        34.26        32.02        31.96        17.03 
TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       25.41        23.24        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15J 
       25.05        22.82        17.29        21.63        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
        9.04        20.58         7.73        13.02        19.56        17.06 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       14.07        14.99        60.53        53.62        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       32.35        28.50        16.47        17.10        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       32.78        33.70        28.44        22.65         3.88        22.19 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        27.42        19.66        24.59        40.47 
TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 
       28.90        18.87       106.75       102.61         8.75        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A576 TCGA-E2-A9RU 
        5.52        15.72        30.61        34.92        19.00         9.21 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND 
       19.20        36.82        13.48        36.56        39.55        12.59 
TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R3 
       35.77        21.57         9.86        11.90         0.62         2.10 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        1.38         2.76        21.21        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22B 
        6.58        34.59        35.64         0.79        13.32        22.75 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 
       12.89        23.51        24.10        17.06         0.69         0.85 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        0.95        24.56        17.75         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A54X TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A5UP 
       15.72        12.33         0.23        14.70        13.81        14.40 
TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
       15.39        39.72         8.48        18.21        18.90        13.25 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OZ 
       16.57        15.68        25.94        22.82        29.95        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 
       41.13        39.78        52.96        29.82        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       30.08         7.86        18.90        19.99         6.15        13.94 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV 
       10.52        14.43        34.55        19.96        55.00        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 
       22.09        21.27        17.49        10.16        10.59        59.57 
TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI 
      194.27        53.52        43.04        42.71        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3NY 
       62.33        76.64        77.33        53.36       110.50        38.20 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       43.73        69.30        66.38        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 
       21.24         6.67         4.60         8.75         9.53        11.44 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
       10.95         7.59        17.06        14.70        14.47        14.79 
TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
       11.57         2.63         3.88         4.14         4.50         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LL-A9Q3 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        3.22         6.21         7.36        27.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
       12.66        46.55        31.99        58.62        27.65        34.92 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       36.36        16.87        24.72        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-OL-A6VO 
       65.62        33.57        31.07         7.23        14.07        28.21 
TCGA-PL-A8LY TCGA-PL-A8LZ TCGA-S3-A6ZH TCGA-S3-AA0Z TCGA-S3-AA10 TCGA-S3-AA11 
        0.26         3.95         8.65        10.59         7.92         5.56 
TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-W8-A86G TCGA-XX-A899 TCGA-XX-A89A 
        8.52         7.17         6.87         5.29         9.60         9.14 
TCGA-Z7-A8R5 TCGA-Z7-A8R6 
      100.01       105.04 

  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                        189.01                         234.28 
  DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE 
                        20.980                         22.935 
[1] "0.1 - 189.0 (21.0)" "0.0 - 234.3 (22.9)"
[1] "hr=" "1.2"
D66V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 37(21Q11.2) MUTATED        11       11        1        0        66
  DEL PEAK 37(21Q11.2) WILD-TYPE      72       69        8        5       276
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 37(21Q11.2) MUTATED          47         1         36         12
  DEL PEAK 37(21Q11.2) WILD-TYPE       187         1        106         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 37(21Q11.2) MUTATED            8        6         1       3
  DEL PEAK 37(21Q11.2) WILD-TYPE         55       12         0      13
D66V3, multiclass
            clus
vv           DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  STAGE I                              11                             72
  STAGE IA                             11                             69
  STAGE IB                              1                              8
  STAGE II                              0                              5
  STAGE IIA                            66                            276
  STAGE IIB                            47                            187
  STAGE III                             1                              1
  STAGE IIIA                           36                            106
  STAGE IIIB                           12                             17
  STAGE IIIC                            8                             55
  STAGE IV                              6                             12
  STAGE TIS                             1                              0
  STAGE X                               3                             13
[1] 13  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 37(21Q11.2) MUTATED    39 130  20  13
  DEL PEAK 37(21Q11.2) WILD-TYPE 226 464 104  26
D66V4, multiclass
    clus
vv   DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  T1                           39                            226
  T2                          130                            464
  T3                           20                            104
  T4                           13                             26
[1] 4 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  N3
  DEL PEAK 37(21Q11.2) MUTATED    85  69  34  12
  DEL PEAK 37(21Q11.2) WILD-TYPE 396 270  79  62
D66V5, multiclass
    clus
vv   DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  N0                           85                            396
  N1                           69                            270
  N2                           34                             79
  N3                           12                             62
[1] 4 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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 37(21Q11.2) MUTATED          1 171   7  24
  DEL PEAK 37(21Q11.2) WILD-TYPE        4 683  12 123
D66V6, multiclass
          clus
vv         DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  CM0 (I+)                            1                              4
  M0                                171                            683
  M1                                  7                             12
  MX                                 24                            123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D66V7, binary
                                cls
clus                               0   1
  DEL PEAK 37(21Q11.2) MUTATED   202   1
  DEL PEAK 37(21Q11.2) WILD-TYPE 812  10
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 37(21Q11.2) MUTATED    202    1
  DEL PEAK 37(21Q11.2) WILD-TYPE  812   10
        clus
vv       DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  FEMALE                          202                            812
  MALE                              1                             10
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 37(21Q11.2) MUTATED                            0
  DEL PEAK 37(21Q11.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 37(21Q11.2) MUTATED                             169
  DEL PEAK 37(21Q11.2) WILD-TYPE                           585
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 37(21Q11.2) MUTATED                               17
  DEL PEAK 37(21Q11.2) WILD-TYPE                            158
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 37(21Q11.2) MUTATED                     2
  DEL PEAK 37(21Q11.2) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 37(21Q11.2) MUTATED                                  8
  DEL PEAK 37(21Q11.2) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 37(21Q11.2) MUTATED                    1              6
  DEL PEAK 37(21Q11.2) WILD-TYPE                 14             38
D66V8, multiclass
                                  clus
vv                                 DEL PEAK 37(21Q11.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             169
  INFILTRATING LOBULAR CARCINOMA                             17
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                              6
                                  clus
vv                                 DEL PEAK 37(21Q11.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               585
  INFILTRATING LOBULAR CARCINOMA                              158
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           14
  OTHER  SPECIFY                                               38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D66V9, binary
                                cls
clus                               0   1
  DEL PEAK 37(21Q11.2) MUTATED    61 142
  DEL PEAK 37(21Q11.2) WILD-TYPE 221 601
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 37(21Q11.2) MUTATED     61  142
  DEL PEAK 37(21Q11.2) WILD-TYPE  221  601
     clus
vv    DEL PEAK 37(21Q11.2) MUTATED DEL PEAK 37(21Q11.2) WILD-TYPE
  NO                            61                            221
  YES                          142                            601
[1] 2 2
[1] FALSE
D66V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 37(21Q11.2) MUTATED                                  0    14
  DEL PEAK 37(21Q11.2) WILD-TYPE                                1    42
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 37(21Q11.2) MUTATED                          32   135
  DEL PEAK 37(21Q11.2) WILD-TYPE                       126   582
D66V11, multiclass
                                  clus
vv                                 DEL PEAK 37(21Q11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      14
  BLACK OR AFRICAN AMERICAN                                  32
  WHITE                                                     135
                                  clus
vv                                 DEL PEAK 37(21Q11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        42
  BLACK OR AFRICAN AMERICAN                                   126
  WHITE                                                       582
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D66V12, binary
                                cls
clus                               0   1
  DEL PEAK 37(21Q11.2) MUTATED     4 167
  DEL PEAK 37(21Q11.2) WILD-TYPE  32 659
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 37(21Q11.2) MUTATED      4  167
  DEL PEAK 37(21Q11.2) WILD-TYPE   32  659
                        clus
vv                       DEL PEAK 37(21Q11.2) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          167
                        clus
vv                       DEL PEAK 37(21Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            659
[1] 2 2
[1] FALSE

Clustering(67) Variable = DEL PEAK 38(22Q13.32) MUTATION ANALYSIS
D67V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 38(22Q13.32) MUTATED   402  54
  DEL PEAK 38(22Q13.32) WILD-TYPE 484  65
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                            456                             549 
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                             54                              65 
$`DEL PEAK 38(22Q13.32) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO 
       14.37        14.27        13.68        31.79        39.32        28.01 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04Y 
      104.81        18.02        41.95        82.16        63.12        36.13 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       64.57        24.79        92.48        88.60       107.93        75.55 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D4 TCGA-A2-A0EN 
        5.19        63.45        64.04        21.14        25.22        89.36 
TCGA-A2-A0EO TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0SU TCGA-A2-A0SX 
       80.28        35.05        34.29        29.75        54.64        50.43 
TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YD TCGA-A2-A0YE 
       18.71        20.52        18.90        20.75        25.28        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A25A 
       15.42        21.90        21.67        23.77        17.36       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A3XS TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       16.31        17.19        33.93        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
        7.30        21.30        35.31        34.29        35.47        30.61 
TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26I TCGA-A7-A26J 
       33.11        10.72        29.56        31.36        21.73        20.61 
TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D 
       11.28        11.97        13.74        14.50        17.92        14.73 
TCGA-A7-A5ZV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R 
       12.10         9.37         8.75        13.02         1.02        17.98 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
       53.06        29.03        31.00        26.01         1.02        17.03 
TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J 
       53.98        43.00        19.99        18.97        14.01        12.00 
TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
        9.99        15.06        36.95        19.96        12.00        37.05 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       31.00        33.01        40.01        12.00         1.02        50.04 
TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
       49.05        33.07         1.02         8.98        19.04         0.99 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
       19.04        13.02        21.04         0.99        13.02        17.03 
TCGA-AC-A23G TCGA-AC-A2FF TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3BB TCGA-AC-A3HN 
       10.85        55.43        26.04         1.02         0.99         0.69 
TCGA-AC-A3QP TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A6NO 
       22.19         1.55         1.81         1.18         0.43         1.68 
TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        1.74         0.23         0.62         8.02         7.36         6.51 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FY 
        0.33         6.44         4.64         7.00         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33        12.33         0.33         0.33         0.33         0.33 
TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 
       80.28        66.77        84.69        21.40        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A124 
       53.03        21.53        50.70        72.00        26.24       102.58 
TCGA-AO-A12A TCGA-AO-A12E TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AQ-A54N 
       90.58        57.30        82.62        61.87         0.53         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
       32.91         9.99       111.32         5.26        74.79        86.66 
TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH 
       98.93        55.86        76.14        65.36       114.02        75.55 
TCGA-AR-A1AJ TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AV 
       52.77        62.56        39.98        43.07        17.23        61.28 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       20.22       109.58        50.89        84.20         0.85        87.22 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       50.96        83.77        79.00        56.15        78.48        73.18 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LO TCGA-AR-A5QP TCGA-B6-A0IG 
       58.92        93.83        42.87        39.39        20.45       146.50 
TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RN 
      110.14       140.88       211.56        68.45        81.17       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A1KN 
      162.05       102.77       100.70        17.98        21.47       139.17 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B3 
       49.94       103.63        55.00        25.55        46.95        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       39.16        48.36        56.94        56.98        51.68        37.22 
TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV 
       25.71        21.70        44.05        53.69        45.57        49.94 
TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DH TCGA-BH-A0DL TCGA-BH-A0DQ 
       49.05        48.13        42.90        38.01        48.23         3.22 
TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ 
        4.41         9.63        24.49        31.00        30.35        10.78 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0RX 
       41.00        52.96        26.50        36.85        12.89         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I 
       23.93        42.35        44.81        23.05         8.81         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18T TCGA-BH-A1ES 
       20.12        90.84        26.66        72.56         7.36       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F8 
       82.85        42.28        49.58        17.69        89.16        24.66 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A204 
      114.15        33.17        55.00        45.63        72.07        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12M TCGA-C8-A12U TCGA-C8-A132 
       57.83       130.16         0.99        11.77        12.66         1.45 
TCGA-C8-A138 TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
        3.75        11.34        12.03        10.42         2.30         3.25 
TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A143 
        0.43         0.03        12.20        11.90        20.88        14.17 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JG 
       13.48        21.14        14.17        18.71        18.15        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X9 
       20.09        20.09        20.38        21.01        18.58        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM 
       27.58        18.15        17.16        14.50        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1Y0 TCGA-D8-A1Y1 
        7.96        15.85         6.35        12.99        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27I TCGA-D8-A27L TCGA-D8-A27T TCGA-D8-A3Z5 
       14.24        14.14        14.43        16.41        13.08        14.50 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10F 
       43.00        34.42        46.59        40.41        40.11        28.87 
TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z 
       44.68        38.24        33.30        34.26        32.02        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C 
       25.41        27.12        23.24        14.79        25.05        22.82 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15M 
       20.71        21.63        18.21        12.92        17.42         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B5 
       13.02        19.56        14.99        60.53        53.03        32.35 
TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IL 
       17.10        37.41        33.73        33.70        28.44         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A1LK 
       22.19        20.98        39.62        28.90       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E2-A576 TCGA-E2-A9RU 
       16.93         7.20        34.92        19.89        19.00         9.21 
TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        12.00        13.12        36.56        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 
       20.05        21.57         9.86         0.62         2.10         6.12 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF 
        2.76        32.09        40.24         0.66        34.65         6.58 
TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E 
       21.27        35.64        12.53        13.32        39.09        12.89 
TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
       24.10         0.69        27.22         1.94         0.95        24.56 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       17.75        26.07        15.72         0.23        14.70         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J6 
       13.81        15.39        39.72        18.90        13.25        28.77 
TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 
       22.82        29.85        52.96        29.82        23.11        18.48 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV 
        7.86        18.90         6.15        19.96        52.73        25.91 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH 
       17.49        10.16         7.40       194.27        53.13        42.28 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A3NY TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 
       62.33        90.84        38.20        69.30        66.38        72.03 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A442 TCGA-LL-A50Y 
       11.84        11.57        21.24         4.60        10.95         7.59 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7SZ 
       14.70        14.47        11.57         2.63         3.88         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OL-A5D7 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RZ 
        3.22        27.91        46.55        34.92        36.36        22.32 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A6VO TCGA-OL-A6VQ TCGA-PL-A8LX TCGA-PL-A8LZ 
       33.57        31.07        28.21        19.73         0.16         3.95 
TCGA-S3-A6ZF TCGA-S3-A6ZG TCGA-S3-A6ZH TCGA-S3-AA10 TCGA-XX-A89A TCGA-Z7-A8R5 
       16.50         6.81         8.65         7.92         9.14       100.01 

$`DEL PEAK 38(22Q13.32) WILD-TYPE`
TCGA-5T-A9QA TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI 
        0.39         8.52        43.43        48.10        47.24        20.88 
TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W 
        7.96        19.20        18.21        73.84        22.06        64.04 
TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CT TCGA-A2-A0CX TCGA-A2-A0D1 
       55.43       136.73       112.08        75.25        56.81        34.55 
TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
       33.76        28.77       101.72       107.61        79.76        74.40 
TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV 
       37.05        31.82        24.72        24.16        99.19        27.12 
TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T5 
       44.88        44.28        17.52        17.13         8.38        17.46 
TCGA-A2-A0YC TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       32.55        14.50        18.61        19.33        48.46        31.73 
TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 
       23.47        36.79        22.45        20.25        19.20        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
       16.47        52.47        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX 
       39.65        83.01        29.98        32.75        49.48        38.40 
TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
       24.39        23.21        26.96        21.14        21.90        38.30 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A26F 
       37.45        35.67        31.73        12.72        23.61        24.26 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       23.74        23.80        22.32        11.34        10.59        10.29 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX 
       13.41        14.70        14.93        21.17        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L 
       10.29        10.42        13.02         9.01        18.97        17.03 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z 
        9.99        10.98         8.98         7.99        24.99        28.04 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       18.05        13.02         0.99        38.01        28.96        33.01 
TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 
        9.99        31.00         0.99        93.04        43.00        33.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A 
       30.97        17.95        41.98        12.00         9.99         9.99 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 
       45.07        29.98        25.02        15.02        14.01        12.00 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK 
       38.04         0.95         2.37         2.66         1.48        38.53 
TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI 
       38.20        40.57        36.99        38.79        50.70         0.92 
TCGA-AC-A2QJ TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
        2.27        14.83         1.12        16.57        19.79        23.24 
TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OQ TCGA-AC-A8OR 
       24.79         0.07         1.12         0.69         1.12         1.32 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D 
        0.33         0.33         0.33         2.96         1.78         1.71 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN 
        0.16         0.33         0.33         7.96         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN 
        6.28         6.02         0.33         0.33         0.33         0.33 
TCGA-AN-A0XP TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03R 
        0.30         5.33         5.59        47.84        81.63        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 
       47.87        59.05        29.13        32.78        52.18        24.16 
TCGA-AO-A0J6 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ 
       37.48        50.86        76.77        21.37        50.24        62.04 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       55.33        71.80        99.25       108.72       106.78        96.10 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        64.04        48.36        41.62        28.37        14.73 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       70.39        17.79        24.79        26.93       130.09         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TQ TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0U1 
       15.62        32.52        49.32        29.75        64.83       101.95 
TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN 
       83.87        85.97        61.84        51.25        48.82        43.73 
TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L 
       43.56        37.81        76.21        63.62        62.14        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
       96.89        78.51       101.52        76.01        53.36        85.35 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LJ TCGA-AR-A2LL TCGA-AR-A2LM 
       72.76       128.65        20.25        62.86         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QQ 
       38.17        40.54        20.38        54.74        16.04        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       77.62       143.38       149.59        12.13       220.90       129.57 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM 
       50.70        65.72       112.37       176.98        18.77       126.12 
TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RQ 
       84.59       110.93       189.01       234.28        78.02       140.48 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
       89.46       131.21       157.41        97.48       188.68        79.63 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 
      113.79       129.57       129.70       186.48        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 
       58.88        43.59       101.52        73.51       170.17        85.35 
TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B2 
       54.28        24.53        38.79        20.45        28.50        40.83 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       32.02        18.21        24.85        61.68        35.67        48.69 
TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD 
       27.19        53.95        11.67        41.75        44.02        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP 
       31.17        23.44        22.13        13.91        17.26        15.65 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI TCGA-BH-A0H0 
       14.30        44.81        46.19        32.65        24.43        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HI TCGA-BH-A0HK 
       37.78        35.51        24.56        23.08        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W4 
        2.50        13.61        51.32        27.25        50.79        24.95 
TCGA-BH-A18G TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
        2.01        37.74        30.28        55.63        37.55        66.05 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EW 
       51.39        51.16        69.93        91.99        12.00        55.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG 
       25.81        31.53        97.48       120.62        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       36.92        63.35       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
       38.60        10.65         6.44        20.12       109.28         8.94 
TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V 
       11.93        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 
       12.66        12.66         3.12         1.78         0.69         0.62 
TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A26V 
        3.85        12.33        10.92        11.34         0.16         0.30 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 
        0.23         0.36         8.28         9.67         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
        0.99         0.03         0.23        13.25        20.58        13.97 
TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF 
       19.20        17.49        16.50        15.78        18.90        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JS TCGA-D8-A1JT 
       14.01        18.97        20.12        19.40        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XC TCGA-D8-A1XF 
       14.70        17.79        16.73        25.74         2.66        15.22 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW 
       14.73        21.83        16.41        16.31        15.16        12.66 
TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
       16.54        15.32        17.42        16.04        13.45        13.05 
TCGA-D8-A27K TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V 
        9.44        13.48         4.80         0.76        10.09        12.53 
TCGA-D8-A27W TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10E 
       12.26        18.51         7.33        27.52        37.51        28.44 
TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X 
       47.15        40.96        38.60        33.17        43.33        31.96 
TCGA-E2-A14Y TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15D 
       28.60        19.43        21.04        23.87        23.34        17.29 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1B0 
       19.40         9.04        20.58        17.06        14.07        53.62 
TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IK 
       29.95        28.50        16.47        38.30        32.78        22.65 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB 
       11.08        54.18        27.42        19.66        24.59        40.47 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
       18.87       106.75        43.04         5.52        15.72        30.61 
TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R5 
       19.20        13.48        39.55        11.90        14.30         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A22B 
       21.21        20.81        34.59        34.13         0.79        22.75 
TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 
       23.51        17.06         0.85         0.72         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A54X TCGA-E9-A5UP TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.62        12.33        14.40        12.20         8.48        18.21 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P0 
       16.57        15.68        25.94        29.95        40.41        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       39.78        30.08        19.99        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C9 
       34.55        55.00        22.09        21.27        10.59       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DM 
       59.57        53.52        43.04        42.71        61.91        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XG TCGA-GM-A5PV TCGA-GM-A5PX 
       77.33        53.36       110.50        43.73        13.55        18.12 
TCGA-LD-A74U TCGA-LD-A7W5 TCGA-LD-A9QF TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A5YL 
        6.67         4.08         8.75         9.53        11.44        17.06 
TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 
       15.32        14.79         4.14         4.50         4.50         6.21 
TCGA-LL-A9Q3 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
        7.36         2.79         2.10        12.66        31.99        58.62 
TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I 
       27.65        16.87        24.72        20.38        26.70        23.47 
TCGA-OL-A66J TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-PL-A8LV TCGA-PL-A8LY 
       65.62        26.04         7.23        14.07         0.23         0.26 
TCGA-S3-AA0Z TCGA-S3-AA11 TCGA-S3-AA12 TCGA-S3-AA14 TCGA-S3-AA15 TCGA-S3-AA17 
       10.59         5.56         8.52         7.17         6.87         3.91 
TCGA-W8-A86G TCGA-XX-A899 TCGA-Z7-A8R6 
        5.29         9.60       105.04 

  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE 
                         21.815                          23.210 
[1] "0.0 - 211.6 (21.8)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.1"
D67V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 38(22Q13.32) MUTATED        36       36        2        1       150
  DEL PEAK 38(22Q13.32) WILD-TYPE      47       44        7        4       192
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 38(22Q13.32) MUTATED         116         1         62         15
  DEL PEAK 38(22Q13.32) WILD-TYPE       118         1         80         14
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 38(22Q13.32) MUTATED           33        6         0       6
  DEL PEAK 38(22Q13.32) WILD-TYPE         30       12         1      10
D67V3, multiclass
            clus
vv           DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  STAGE I                               36                              47
  STAGE IA                              36                              44
  STAGE IB                               2                               7
  STAGE II                               1                               4
  STAGE IIA                            150                             192
  STAGE IIB                            116                             118
  STAGE III                              1                               1
  STAGE IIIA                            62                              80
  STAGE IIIB                            15                              14
  STAGE IIIC                            33                              30
  STAGE IV                               6                              12
  STAGE TIS                              0                               1
  STAGE X                                6                              10
[1] 13  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 38(22Q13.32) MUTATED   112 281  50  20
  DEL PEAK 38(22Q13.32) WILD-TYPE 153 313  74  19
D67V4, multiclass
    clus
vv   DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  T1                           112                             153
  T2                           281                             313
  T3                            50                              74
  T4                            20                              19
[1] 4 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  N3
  DEL PEAK 38(22Q13.32) MUTATED   218 154  50  39
  DEL PEAK 38(22Q13.32) WILD-TYPE 263 185  63  35
D67V5, multiclass
    clus
vv   DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  N0                           218                             263
  N1                           154                             185
  N2                            50                              63
  N3                            39                              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                 vv
clus                              CM0 (I+)  M0  M1  MX
  DEL PEAK 38(22Q13.32) MUTATED          1 391   7  65
  DEL PEAK 38(22Q13.32) WILD-TYPE        4 463  12  82
D67V6, multiclass
          clus
vv         DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  CM0 (I+)                             1                               4
  M0                                 391                             463
  M1                                   7                              12
  MX                                  65                              82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D67V7, binary
                                 cls
clus                                0   1
  DEL PEAK 38(22Q13.32) MUTATED   458   6
  DEL PEAK 38(22Q13.32) WILD-TYPE 556   5
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 38(22Q13.32) MUTATED    458    6
  DEL PEAK 38(22Q13.32) WILD-TYPE  556    5
        clus
vv       DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  FEMALE                           458                             556
  MALE                               6                               5
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 38(22Q13.32) MUTATED                            1
  DEL PEAK 38(22Q13.32) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 38(22Q13.32) MUTATED                             347
  DEL PEAK 38(22Q13.32) WILD-TYPE                           407
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 38(22Q13.32) MUTATED                               81
  DEL PEAK 38(22Q13.32) WILD-TYPE                             94
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 38(22Q13.32) MUTATED                     3
  DEL PEAK 38(22Q13.32) WILD-TYPE                   3
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 38(22Q13.32) MUTATED                                 17
  DEL PEAK 38(22Q13.32) WILD-TYPE                               12
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 38(22Q13.32) MUTATED                    1             13
  DEL PEAK 38(22Q13.32) WILD-TYPE                 14             31
D67V8, multiclass
                                  clus
vv                                 DEL PEAK 38(22Q13.32) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              347
  INFILTRATING LOBULAR CARCINOMA                              81
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            17
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              13
                                  clus
vv                                 DEL PEAK 38(22Q13.32) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                407
  INFILTRATING LOBULAR CARCINOMA                                94
  MEDULLARY CARCINOMA                                            3
  MIXED HISTOLOGY (PLEASE SPECIFY)                              12
  MUCINOUS CARCINOMA                                            14
  OTHER  SPECIFY                                                31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D67V9, binary
                                 cls
clus                                0   1
  DEL PEAK 38(22Q13.32) MUTATED   148 316
  DEL PEAK 38(22Q13.32) WILD-TYPE 134 427
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 38(22Q13.32) MUTATED    148  316
  DEL PEAK 38(22Q13.32) WILD-TYPE  134  427
     clus
vv    DEL PEAK 38(22Q13.32) MUTATED DEL PEAK 38(22Q13.32) WILD-TYPE
  NO                            148                             134
  YES                           316                             427
[1] 2 2
[1] FALSE
D67V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 38(22Q13.32) MUTATED                                  0    21
  DEL PEAK 38(22Q13.32) WILD-TYPE                                1    35
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 38(22Q13.32) MUTATED                          71   331
  DEL PEAK 38(22Q13.32) WILD-TYPE                        87   386
D67V11, multiclass
                                  clus
vv                                 DEL PEAK 38(22Q13.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       21
  BLACK OR AFRICAN AMERICAN                                   71
  WHITE                                                      331
                                  clus
vv                                 DEL PEAK 38(22Q13.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         35
  BLACK OR AFRICAN AMERICAN                                     87
  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"
D67V12, binary
                                 cls
clus                                0   1
  DEL PEAK 38(22Q13.32) MUTATED    15 372
  DEL PEAK 38(22Q13.32) WILD-TYPE  21 454
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 38(22Q13.32) MUTATED     15  372
  DEL PEAK 38(22Q13.32) WILD-TYPE   21  454
                        clus
vv                       DEL PEAK 38(22Q13.32) MUTATED
  HISPANIC OR LATINO                                15
  NOT HISPANIC OR LATINO                           372
                        clus
vv                       DEL PEAK 38(22Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                  21
  NOT HISPANIC OR LATINO                             454
[1] 2 2
[1] FALSE
