[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/10005900/BRCA-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/BRCA-TP/10013769/transformed.cor.cli.txt"

nPatients in clinical file=1017, in cluster file=1044, common to both=995
[1]  69 995
[1] "AMP PEAK  1(1P22.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          226                           769 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          226                           769 
[1] "AMP PEAK  2(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          725                           270 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          725                           270 
[1] "AMP PEAK  3(1Q44) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        722                         273 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        722                         273 
[1] "AMP PEAK  4(3P25.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          192                           803 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          192                           803 
[1] "AMP PEAK  5(3Q26.32) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           316                            679 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           316                            679 
[1] "AMP PEAK  6(4Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          155                           840 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          155                           840 
[1] "AMP PEAK  7(5P15.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           364                            631 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           364                            631 
[1] "AMP PEAK  8(6P23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        274                         721 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        274                         721 
[1] "AMP PEAK  9(6Q21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        187                         808 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        187                         808 
[1] "AMP PEAK 10(8P11.23) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           380                            615 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           380                            615 
[1] "AMP PEAK 11(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           390                            605 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           390                            605 
[1] "AMP PEAK 12(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           635                            360 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           635                            360 
[1] "AMP PEAK 13(10P15.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           285                            710 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           285                            710 
[1] "AMP PEAK 14(10Q22.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           144                            851 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           144                            851 
[1] "AMP PEAK 15(11P13) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         209                          786 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         209                          786 
[1] "AMP PEAK 16(11Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           369                            626 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           369                            626 
[1] "AMP PEAK 17(11Q14.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           245                            750 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           245                            750 
[1] "AMP PEAK 18(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            266                             729 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            266                             729 
[1] "AMP PEAK 19(12Q15) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         258                          737 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         258                          737 
[1] "AMP PEAK 20(13Q34) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         169                          826 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         169                          826 
[1] "AMP PEAK 21(14Q21.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           204                            791 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           204                            791 
[1] "AMP PEAK 22(15Q26.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           182                            813 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           182                            813 
[1] "AMP PEAK 23(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                         311                          684 
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                         311                          684 
[1] "AMP PEAK 24(17Q23.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                           400                            595 
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                           400                            595 
[1] "AMP PEAK 25(19P13.12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                            211                             784 
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                            211                             784 
[1] "AMP PEAK 26(19Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                         262                          733 
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                         262                          733 
[1] "AMP PEAK 27(19Q13.42) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                            257                             738 
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                            257                             738 
[1] "AMP PEAK 28(20Q13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                           510                            485 
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                           510                            485 
[1] "DEL PEAK  1(1P36.13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           416                            579 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           416                            579 
[1] "DEL PEAK  2(1P21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                          328                           667 
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                          328                           667 
[1] "DEL PEAK  3(2P25.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                          189                           806 
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                          189                           806 
[1] "DEL PEAK  4(2Q37.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          298                           697 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          298                           697 
[1] "DEL PEAK  5(3P21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                           321                            674 
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                           321                            674 
[1] "DEL PEAK  6(4P16.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                          315                           680 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                          315                           680 
[1] "DEL PEAK  7(4Q35.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                          321                           674 
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                          321                           674 
[1] "DEL PEAK  8(5Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                          261                           734 
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                          261                           734 
[1] "DEL PEAK  9(5Q21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                          252                           743 
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                          252                           743 
[1] "DEL PEAK 10(6P25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                          194                           801 
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                          194                           801 
[1] "DEL PEAK 11(6Q15) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                        328                         667 
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                        328                         667 
[1] "DEL PEAK 12(6Q27) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                        346                         649 
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                        346                         649 
[1] "DEL PEAK 13(7P22.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                          132                           863 
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                          132                           863 
[1] "DEL PEAK 14(7Q36.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                          191                           804 
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                          191                           804 
[1] "DEL PEAK 15(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                          519                           476 
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                          519                           476 
[1] "DEL PEAK 16(8P11.21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                           191                            804 
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                           191                            804 
[1] "DEL PEAK 17(9P23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                        307                         688 
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                        307                         688 
[1] "DEL PEAK 18(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                          343                           652 
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                          343                           652 
[1] "DEL PEAK 19(9Q21.11) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                           283                            712 
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                           283                            712 
[1] "DEL PEAK 20(9Q34.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                          283                           712 
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                          283                           712 
[1] "DEL PEAK 21(10Q23.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                            298                             697 
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                            298                             697 
[1] "DEL PEAK 22(10Q26.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                           299                            696 
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                           299                            696 
[1] "DEL PEAK 23(11P15.5) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                           289                            706 
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                           289                            706 
[1] "DEL PEAK 24(11Q13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                           222                            773 
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                           222                            773 
[1] "DEL PEAK 25(11Q23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                           509                            486 
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                           509                            486 
[1] "DEL PEAK 26(12P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                           171                            824 
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                           171                            824 
[1] "DEL PEAK 27(12Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                           190                            805 
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                           190                            805 
[1] "DEL PEAK 28(12Q24.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                            192                             803 
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                            192                             803 
[1] "DEL PEAK 29(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                           464                            531 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                           464                            531 
[1] "DEL PEAK 30(14Q24.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                           323                            672 
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                           323                            672 
[1] "DEL PEAK 31(15Q13.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                           349                            646 
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                           349                            646 
[1] "DEL PEAK 32(16Q24.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                           633                            362 
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                           633                            362 
[1] "DEL PEAK 33(17P12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                         600                          395 
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                         600                          395 
[1] "DEL PEAK 34(17Q21.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                            344                             651 
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                            344                             651 
[1] "DEL PEAK 35(18Q23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                         324                          671 
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                         324                          671 
[1] "DEL PEAK 36(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                           330                            665 
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                           330                            665 
[1] "DEL PEAK 37(19Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                            194                             801 
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                            194                             801 
[1] "DEL PEAK 38(20P13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                         151                          844 
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                         151                          844 
[1] "DEL PEAK 39(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                           196                            799 
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                           196                            799 
[1] "DEL PEAK 40(22Q11.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                           426                            569 
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                           426                            569 
[1] "DEL PEAK 41(22Q13.32) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                            451                             544 
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                            451                             544 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [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 995 columns.

[1] "Batch" "20"   
[1] "Last Follow UP"
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH 
         259          437         1321         1463          434         1437 
TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO 
         635          416           NA          242         1196          852 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
         584          554         3188           NA         1276         2499 
TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
        2246          671           NA         1948         1686         1099 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
        3820         1964           NA         3409         2813         2695 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
        3283         2298         2289           NA         1930         1948 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
        1728          643         1051         1027          875          767 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER 
        3094         2718         2442         3273         2426         2263 
TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX 
        1127         1066         1043          968          905          752 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
         735         3017         1662           NA           NA         1534 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 
        1347          533          521           NA          569          624 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE 
         531          575          631          990          769          554 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK 
         469          666          659          441          566          588 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
         445          965           NA          714          528         1119 
TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 
         683          616          584          595          501         1596 
TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
        3276          496          523          552         2796          322 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV 
         635         1206           NA         2525           NA          428 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW 
        1505         1168         1064          973         1167          222 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
         274          268          271          365          205          104 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
        1165         1074         1043         1079          931         1139 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G 
        1085         1007          965          326          387          718 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
         899          954          738          722          724          661 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
         627          679          345          322          313          343 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD 
         408          447          364          454          418          441 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
         644          545          448          368          326          336 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06N TCGA-A8-A06O 
         313          285          317          266           NA          396 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
         396           31          547         1249           NA           NA 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
         791           31          518         1642          274         1004 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
         608          577          577          426          365          518 
TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W 
         304          334          273          243          303          304 
TCGA-A8-A07Z TCGA-A8-A081 TCGA-A8-A082 TCGA-A8-A083 TCGA-A8-A084 TCGA-A8-A085 
         853           NA          549           NA          458         1124 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G 
         396           30          702          608          549          607 
TCGA-A8-A08H TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P 
          NA          365           NA           NA          943          943 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A090 
          30          580         2830         1034         1217           NA 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A094 TCGA-A8-A095 TCGA-A8-A096 
         580          487          546           NA         1277           NA 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
         365          304          304          365           31          396 
TCGA-A8-A09E TCGA-A8-A09G TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N 
         943           NA         1006          912          457           31 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
         761          273          579          457           30           NA 
TCGA-A8-A09Z TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
          NA          365          579          396          640           30 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
         396          518         1157           29           72          330 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB TCGA-AC-A2FF 
          81           45         1172         1162         1234         1686 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
        1125         1180           NA         1542           31           28 
TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
          69           30           21          451          286           34 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
          55           51           47           40           47            2 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
          34           55           36           21           13           53 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
          10           10            7           10           19           90 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM 
          54           52          244          224          198            5 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
          10           10           10          196          141          242 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
         213          231          218          191          183           10 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
          11           10           10           10           10           10 
TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
         375            9           10           10           10           10 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O 
         162          170         2442         1455         2031           NA 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
        2576         2091         1456           NA          886          997 
TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
         651          537          735         1140          618          680 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE 
        1613          655         1542         1547         2190         2335 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM 
         650          798         1172         1887         1683         2184 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
        3120         3019         2850         2877         2923         2755 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
        2359         1948         1743         1471         1266          863 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
         448         2513         1882         2141           16          541 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
         754          819         3957           NA          475          402 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
          78          665          304         2521         1500           NA 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
        1138         1730          905          739         1972           NA 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
        2316         1988         2134           NA         2317         1684 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
        2298         1881         1605         1559         1485         1903 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS 
        1330         1325         1216         1310           NA         1242 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
        1409         1295         1072         1103          615         3333 
TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
        1548         2221         1991         2074         1998           26 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        2009         1746         1888         1620         1623         1648 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
        1550         1465         1574         1708         1374         1236 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
        1212         1059           NA         3913           NA         1304 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
         224         1218          520          633          516          620 
TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
        1665          488          622           NA           NA         4361 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
        4550           NA         6719           NA           NA           NA 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
          NA           NA         5383           NA         3836           NA 
TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH 
        3350         3374         4285         6435         2082         5749 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
        7126           NA           NA         5261         4929           NA 
TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
          NA           NA         2721         3991         4788           NA 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
        5739           NA          547           NA           NA         3941 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
          NA         5672           NA           NA           NA         1326 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 
        3088         2236         4233         5176         2596         1651 
TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW 
        1519         2521         1673          746         1180          622 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 
         777          867         1428         1242         1203         1191 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
        1471         1732         1733         1572         1132          974 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
         554          782          756          660         1340         1876 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT 
        1085         1481          827         1633         1641         1386 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 
        1519          355         1492         1270         1339         1464 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
        1305         1394          948          713         1156          673 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
         423         1467          525          476           98           78 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
        1170         1374         1442          495          134          477 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
         435          293         1363         1405           NA          745 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
         943          743          923          328          461         1149 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB 
        1080          747          702         1247         1611          806 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU 
         620          178           76          414         1121          392 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
        1561          829         1545          170          728          759 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18H 
        1288         1363          701          268           61           NA 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
         220           NA           NA           NA           NA           NA 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
          NA           NA           NA          210           22           NA 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
          NA           NA           NA          324          196          612 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12K TCGA-C8-A12L TCGA-C8-A12M 
          30         3324          272           NA          363          358 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12T TCGA-C8-A12U 
         358          385          358            2           NA          385 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A12Y TCGA-C8-A12Z TCGA-C8-A130 
         385          385          385           NA           NA           95 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A133 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
          54           44           NA           21           19          117 
TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
         114          375          332          345          345            5 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A1HO TCGA-C8-A26V 
         366          317           70           99           NA            9 
TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
           7           11           13          252          294            1 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
           1            1          371           30            1            7 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 
         362          635          403          626          425          431 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
         410          643          584          431          532          502 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
         569          480          552          575          366          366 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
         426          577          611          612          611          590 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
         620          639          371          405          447          565 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB 
         541          509          783          727          839          552 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK 
          81          522          463          448          664          441 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
         606          538          242          499          482          496 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ 
         193          395          461          385          503          466 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
         472          116          433          430          530          488 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
         409          397          439          287          499          410 
TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W 
         146           23          307          398          381          373 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 
         441          563          223         1308         1047          837 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
        1417         1229         1141         1220          865          878 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S 
        1434         1359         1246         1163         1174         1009 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
        1013         1318         1042          974          972          870 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 
         518          773          825          707          591          640 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
         726          450          762          710          694          526 
TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
         630          658          554          393          530          590 
TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R 
         275          626          235          396          595          519 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
         428          456         2329         1631         1613          911 
TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
         984          867          501          520         1165         1138 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
         997         1026         1025          865          689          118 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 
         675          638          337         1648          834         1205 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
         598          748         1231           NA          574         3247 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
        3121           NA         1309          515          168          478 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N3 TCGA-E9-A1N4 
         219          549          677          605           NA          584 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC 
        1120          410          365          399         1112         1203 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NH TCGA-E9-A1NI 
         383         1088          610          656           NA          300 
TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
         362          435           19           64          186           42 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD 
          84          645          976          633         1224           20 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
        1054          200          647         1052         1084         1038 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22D 
          24          381          405         1189          692           NA 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 
         392          715          733          519           21           26 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
         828           59           29          382           22          540 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54X 
          23          793          560           19          478           NA 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A5UP TCGA-E9-A6HE 
           7           12            8            7           NA          468 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 
         371         1208          258          554          575          403 
TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX 
         504          477          875          789          694          911 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
         908         1229         1251         1210         1611          907 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
         703          562          915           NA          575          608 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH 
         187          424          320          439         1051          607 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
        1673         1604          788          672          647          532 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA 
         309          322          225         3342           NA         5909 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI 
        1616         1628         1309         1299         1286         1883 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
        1896         2763         2331         2352         1623         3361 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
        1162          982         2108         1641         1753          412 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
         551          360          352          252          203          140 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
          20           91          109          210          169          143 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
         111           97           99           80          118          126 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 
         137          137          170           98          189          484 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
          85           64          385         1416          229         1357 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
         841          733          797          513          429          313 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
         298          449          721         1658         1031          945 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
         554          220          135          207          161 
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=111,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=655,	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=1,	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=29,	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=39,	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 995 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 
258 581 117  36 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
258 581 117  36 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
258 581 117  36 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
258 581 117  36 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
468 330 111  70 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
468 330 111  70 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
468 330 111  70 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
468 330 111  70 
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=29, 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   196  28
  AMP PEAK  1(1P22.3) WILD-TYPE 664  86
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                          224                           750 
  AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE 
                           28                            86 
$`AMP PEAK  1(1P22.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A2-A04T TCGA-A2-A04U 
       14.37        43.43         7.96        19.20        73.84        22.06 
TCGA-A2-A04W TCGA-A2-A0CM TCGA-A2-A0CU TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 
       64.04        24.79         5.19        21.14        33.76        28.77 
TCGA-A2-A0ET TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T7 TCGA-A2-A0YD 
       35.05        44.88         8.38        17.46        20.75        25.28 
TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YM TCGA-A2-A1G0 TCGA-A2-A25B TCGA-A2-A3XS 
       14.50        19.33        31.73        20.25        16.31        33.93 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A7-A0CE 
       83.01        29.98        38.40        31.99        38.37        35.31 
TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A4SD 
       35.67        31.73        10.72        12.72        24.26        14.50 
TCGA-A7-A4SE TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06Y TCGA-A8-A06Z 
       21.17        10.29         9.37        10.42        26.01         1.02 
TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A08C TCGA-A8-A08T TCGA-A8-A092 TCGA-A8-A093 
        9.99         7.99        19.99        93.04        16.01        17.95 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09W 
       12.00         9.99        31.00        33.07        15.02         0.99 
TCGA-A8-A0A6 TCGA-A8-A0AB TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2QJ TCGA-AC-A3W5 
       21.04        17.03        38.53        38.20         2.27         1.81 
TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AN-A03Y TCGA-AN-A04D 
        1.68         1.12         1.18         0.69         0.33         1.71 
TCGA-AN-A0AL TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY 
        6.51         4.64         7.59         6.02         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XU TCGA-AO-A0J2 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JL 
        0.33         0.33        32.78        37.48        22.36        55.33 
TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12F TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TS 
       99.25        94.59        48.36       130.09         2.56        37.41 
TCGA-AR-A0U0 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AV 
       65.36        75.55        61.84        43.07        17.23        42.58 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24Z TCGA-AR-A256 TCGA-AR-A2LL 
       20.22       109.58        50.89        51.75        93.83         7.36 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IB 
       16.96        20.38        77.62       143.38        12.13       129.57 
TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RU 
      176.98       140.88       211.56       172.96       102.77       131.21 
TCGA-B6-A0WX TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A408 
       21.47        43.59       101.52       170.17        54.28        49.94 
TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BZ 
       55.00        20.45        39.55        37.22        18.21        49.05 
TCGA-BH-A0C1 TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 
       44.02        48.23        15.65        45.17        16.27         4.41 
TCGA-BH-A0E6 TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0HK TCGA-BH-A18L TCGA-BH-A18S 
        9.63        31.00        30.35         5.85        26.66        66.05 
TCGA-BH-A18V TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FJ TCGA-BH-A1FL 
       51.16        25.81        31.53       114.15        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A28Q TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A131 
       72.07        72.07         6.44        11.77        12.66         1.78 
TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A143 
        0.43         0.03         0.99        11.90        13.97        14.17 
TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JL TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XG 
       19.20        18.71        20.09        16.73        27.58        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XW 
       21.83        14.50        16.41        15.85         6.35        12.66 
TCGA-D8-A27H TCGA-D8-A27R TCGA-D8-A27V TCGA-E2-A107 TCGA-E2-A14R TCGA-E2-A14X 
       13.05        10.09        12.53        34.42        38.60        31.96 
TCGA-E2-A150 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15J TCGA-E2-A15R 
       25.41        25.05        23.34        17.29        19.40        17.06 
TCGA-E2-A1AZ TCGA-E2-A1BD TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LE 
       60.53        17.10        33.70        22.19        27.42        28.90 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P6 TCGA-E9-A1N8 TCGA-E9-A1ND TCGA-E9-A1NE 
      106.75       102.61         5.52        12.00        12.59        35.77 
TCGA-E9-A1R5 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A22B 
        1.38        20.81        40.24        21.27        34.59        22.75 
TCGA-E9-A244 TCGA-E9-A249 TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A6HE TCGA-EW-A1J5 
        0.69         0.95         0.62         0.23        15.39        15.68 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P8 TCGA-EW-A1PB 
       25.94        22.82        40.41        41.13         7.86        19.99 
TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DH 
       10.16         7.40       109.87        53.52        43.04        42.28 
TCGA-GM-A3NY TCGA-GM-A4E0 TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LL-A441 
       38.20        57.63        11.84        11.57         6.67         2.99 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-OL-A5D8 
        5.56         3.19         3.88         4.14         5.59         7.53 
TCGA-OL-A5RW TCGA-OL-A66K 
       26.20        33.90 

$`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       125.59 
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        14.63        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        14.07        49.48        34.98 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
        7.30         9.01         8.81         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
        3.42        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        41.06        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        33.01        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         9.96         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        23.08        18.05        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 
       19.07        33.99        40.01        19.07        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        13.02        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         9.40         1.12         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X 
        1.55         0.07         1.81         0.43         1.74         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ 
        0.23         0.33         0.62         2.96         1.78         8.02 
TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        7.36         0.16         0.33         0.33         0.33         6.44 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX 
        7.96         7.00         7.17         6.28         0.33         0.33 
TCGA-AN-A0XL 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-A0XT 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-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JA 
       21.40        17.65        24.16        20.32        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-A126 TCGA-AO-A129 
       38.53        62.04        71.80       102.58        93.70        96.10 
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-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O 
       24.79        26.93         5.65        15.62        13.22        21.86 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99        82.88        49.32         5.26        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       24.30        64.83        55.86        76.14        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       76.18        55.36        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW 
       43.73        43.56        39.98        40.83        46.32        35.24 
TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       36.26        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
       66.05        57.40        62.07        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        48.16        56.15        45.17        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN 
       34.82       128.65        20.25        42.87        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I5 
       20.81        54.74        16.04        20.45        10.59       149.59 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK 
      220.90        50.70        65.72       146.50       112.37        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH 
      126.12        84.59       110.14       110.93        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS 
      234.28        81.17        78.02       162.05       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-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-A1KI TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A40B TCGA-BH-A0AU 
       58.88        73.51       139.17        85.35        82.88        24.53 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       38.79        25.55        28.50        46.95        40.83        39.16 
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-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       24.85        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-A0BW 
       27.19        53.69        53.95        45.57        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-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS 
       38.01        22.13        13.91        17.26         3.22         2.56 
TCGA-BH-A0DT TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 
       38.47        47.41        15.68        14.30        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       32.65        24.49        24.43        10.78        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-A0HI TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW 
       20.38         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-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-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-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 
       42.28        12.00        55.69        49.58        17.69        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       97.48        24.66       120.62        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 
       36.92        45.63       144.59         6.90         0.72        38.60 
TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42T 
       83.31        57.83       130.16        10.65        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O 
      109.28         8.94        11.93        11.77        11.77        12.66 
TCGA-C8-A12Q TCGA-C8-A12U 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-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-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-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z 
        0.03         0.03        12.20         0.03         0.23        20.88 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 
       13.25        20.58        13.48        21.14        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       16.50        15.78        18.15        18.90        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN 
       14.01        18.97        20.09        20.12        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-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF 
       25.74        23.90        18.15         2.66        17.16        15.22 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV 
       19.92        17.69         7.96        16.31        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-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27W TCGA-D8-A3Z5 
       13.48         4.80         0.76        13.08        12.26        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
       18.51         7.33        43.00        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-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V 
       40.96        38.24        33.17        33.30        43.33        34.26 
TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
       32.02        28.60        17.03        27.12        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F 
       21.04        23.87        14.79        22.82        20.71        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        12.92        17.42         9.04        20.58         7.73 
TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 
       13.02        19.56        14.07        14.99        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-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       32.78        33.73        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-A1LG TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A3DX TCGA-E2-A56Z 
       18.87         8.75        43.04        16.93        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
       18.05        22.26        19.89        19.20        36.82        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI 
       13.12        36.56        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-A1R6 
       11.90        14.30         0.62         2.10         6.12         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-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-A247 TCGA-E9-A248 
       23.51        24.10        17.06         0.85        27.22         1.94 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       12.56         0.72        17.75         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IW TCGA-EW-A1IX 
       15.72         0.39         0.26         0.23        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J6 
        8.48        18.21        18.90        13.25        16.57        28.77 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 
       29.95        29.85        39.78        52.96        29.82        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       18.48        30.08        18.90         6.15        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV 
       14.43        34.55        19.96        55.00        52.73        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        17.49        10.59        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        42.71        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A3XN 
       77.33        53.36       110.50        32.28        69.30        53.95 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       13.55        18.12         8.28         4.60         0.66         3.58 
TCGA-LL-A50Y TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Z 
        6.90         4.70         3.65         3.25         2.63         4.50 
TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         3.22         6.21        15.91         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        44.61        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       14.10        10.29         9.80        14.76        23.70        54.51 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         6.81         5.29 

  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 
                       21.155                        21.600 
[1] "0.0 - 211.6 (21.2)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1"  
D1V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  1(1P22.3) MUTATED        11       18        1        2        90
  AMP PEAK  1(1P22.3) WILD-TYPE      69       59        8        7       245
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  1(1P22.3) MUTATED          49         0         25          9
  AMP PEAK  1(1P22.3) WILD-TYPE       175         2        113         18
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  1(1P22.3) MUTATED           13        5         0       3
  AMP PEAK  1(1P22.3) WILD-TYPE         46       12         1      13
D1V3, multiclass
            clus
vv           AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  STAGE I                             11                            69
  STAGE IA                            18                            59
  STAGE IB                             1                             8
  STAGE II                             2                             7
  STAGE IIA                           90                           245
  STAGE IIB                           49                           175
  STAGE III                            0                             2
  STAGE IIIA                          25                           113
  STAGE IIIB                           9                            18
  STAGE IIIC                          13                            46
  STAGE IV                             5                            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  1(1P22.3) MUTATED    41 143  32   9
  AMP PEAK  1(1P22.3) WILD-TYPE 217 438  85  27
D1V4, multiclass
    clus
vv   AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  T1                          41                           217
  T2                         143                           438
  T3                          32                            85
  T4                           9                            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  1(1P22.3) MUTATED   129  62  17  17
  AMP PEAK  1(1P22.3) WILD-TYPE 339 268  94  53
D1V5, multiclass
    clus
vv   AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  N0                         129                           339
  N1                          62                           268
  N2                          17                            94
  N3                          17                            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  1(1P22.3) MUTATED          0 191   5  30
  AMP PEAK  1(1P22.3) WILD-TYPE        2 654  12 101
D1V6, multiclass
          clus
vv         AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               191                           654
  M1                                 5                            12
  MX                                30                           101
[1] 4 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   224   2
  AMP PEAK  1(1P22.3) WILD-TYPE 760   9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED    224    2
  AMP PEAK  1(1P22.3) WILD-TYPE  760    9
        clus
vv       AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  FEMALE                         224                           760
  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                             172
  AMP PEAK  1(1P22.3) WILD-TYPE                           563
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  1(1P22.3) MUTATED                               31
  AMP PEAK  1(1P22.3) WILD-TYPE                            135
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  1(1P22.3) MUTATED                     3
  AMP PEAK  1(1P22.3) WILD-TYPE                   2
                               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                 13             33
D1V8, multiclass
                                  clus
vv                                 AMP PEAK  1(1P22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            172
  INFILTRATING LOBULAR CARCINOMA                            31
  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                              563
  INFILTRATING LOBULAR CARCINOMA                             135
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            21
  MUCINOUS CARCINOMA                                          13
  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    61 165
  AMP PEAK  1(1P22.3) WILD-TYPE 221 548
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED     61  165
  AMP PEAK  1(1P22.3) WILD-TYPE  221  548
     clus
vv    AMP PEAK  1(1P22.3) MUTATED AMP PEAK  1(1P22.3) WILD-TYPE
  NO                           61                           221
  YES                         165                           548
[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                          41   157
  AMP PEAK  1(1P22.3) WILD-TYPE                        96   551
D1V11, multiclass
                                  clus
vv                                 AMP PEAK  1(1P22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 41
  WHITE                                                    157
                                  clus
vv                                 AMP PEAK  1(1P22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                   96
  WHITE                                                      551
[1] 4 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     8 181
  AMP PEAK  1(1P22.3) WILD-TYPE  28 615
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) MUTATED      8  181
  AMP PEAK  1(1P22.3) WILD-TYPE   28  615
                        clus
vv                       AMP PEAK  1(1P22.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         181
                        clus
vv                       AMP PEAK  1(1P22.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           615
[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   632  81
  AMP PEAK  2(1Q21.3) WILD-TYPE 228  33
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                          713                           261 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           81                            33 
$`AMP PEAK  2(1Q21.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK 
       14.37        43.43        48.10        20.88        13.68        31.79 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P 
        7.96        39.32        28.01        19.20        18.21        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X 
       41.95        82.16        73.84        22.06        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CS 
       36.13       125.59        24.79       112.08        88.60        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 
       75.25         5.19        63.45        56.81        21.14        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0ET 
       28.77        25.22       101.72        89.36        80.28        35.05 
TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       31.82        24.16        99.19        27.12        44.88        50.43 
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-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       21.90        21.67        14.50        18.61        19.33        14.63 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ 
       31.73        23.77        23.47        17.36        36.79        22.45 
TCGA-A2-A1G0 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       20.25        16.31        17.19        10.59        20.88        39.65 
TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       33.93        83.01        29.98        38.40        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       38.37         7.30         6.74        38.30        35.31        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E 
       35.47        30.61        35.67        33.11        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H 
       12.72        23.61        29.56        31.36        24.26        23.80 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A425 
       21.73        20.61        10.59        10.29        11.28        14.70 
TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       11.97        13.74        14.50        21.17        17.92        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-A06O TCGA-A8-A06Q TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y 
        8.75        13.02         1.02        29.03        31.00        26.01 
TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
        1.02        53.98         9.01        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07U 
       14.01        17.03         9.99         8.98         7.99         9.96 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C 
        9.99        28.04        15.06         0.99        23.08        19.99 
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        19.07 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        33.99        40.01        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       12.00         9.99         9.99        12.00         1.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W 
       33.07        29.98        25.02         8.98        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-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        2.37        10.85         2.66         1.48        38.53        38.20 
TCGA-AC-A2FG TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       36.99        26.04         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         1.81         1.68         1.32         1.55 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
        1.12         1.81         1.18         0.69         0.43         1.74 
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-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF 
        8.02         7.36         6.51         0.16         0.33         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.96         7.00         7.59         7.17         6.28         6.02 
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-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33        12.33         0.30         0.33         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-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       21.40        17.65        24.16        37.48        20.32        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       53.03        21.53        50.70        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       26.24        62.04        55.33        71.80       102.58        99.25 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F 
       94.59        96.10        90.58        77.56        64.04        48.36 
TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       41.62        82.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79        26.93       130.09         5.65        13.22         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
       21.86         9.99        82.88        49.32         5.26        37.41 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 
       56.88        24.30        65.36        70.16        83.87        55.36 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN 
       75.55        61.84        52.77        51.25        48.82        43.73 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW 
       39.98        43.07        17.23        40.83        42.58        35.24 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       20.22       109.58        50.89        73.02        65.46        68.19 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X 
        0.85        57.40        53.26        53.36        50.96        48.16 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       51.75        56.15        40.64        39.85        34.82        93.83 
TCGA-AR-A2LE TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
      128.65        42.87         7.36        40.04        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 
       16.96        20.38        54.74        16.04        20.45        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IE 
      143.38       149.59        12.13       220.90       129.57        65.72 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ 
      112.37       176.98        84.59       110.14       110.93       140.88 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN 
      211.56        68.45       189.01       234.28        81.17       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WT 
      162.05       102.77       100.70        89.46       131.21       188.68 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       79.63        17.98        21.47       129.70       186.48        28.27 
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-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
       85.35        54.28        49.94        82.88        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-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.55        48.36        56.94        51.68        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-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW 
       48.69        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-A0DG 
       49.05        44.02        48.13        42.90        45.83        23.44 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       13.91        48.23        17.26        15.65         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E9 
       45.17        47.41         4.41        15.68         9.63        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       32.65        24.49        31.00        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       37.78        23.08        41.00        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
       13.61        36.85        12.89        27.25        50.79         5.59 
TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
       23.93         8.81         2.01        20.12        90.84        26.66 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       30.28        55.63        37.55        66.05         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-A1EX TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FJ 
       49.58        25.81        97.48       114.15        33.17        63.35 
TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       55.00        45.63        72.07        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A209 TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-C8-A12L 
       38.60       130.16         6.44        20.12         0.99        11.93 
TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W 
       11.77        12.66        11.77         0.07        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HG 
        3.12         1.78         0.62         3.75        12.33        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         3.25 
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-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-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 
       13.97        14.17        21.14        19.20        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF 
       16.50        18.71        15.78        18.15        18.90        12.03 
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-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-A1XQ TCGA-D8-A1XR 
       14.50        19.92        17.69         7.96        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 
       16.31        12.99        15.16        12.66        16.54         3.81 
TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27N TCGA-D8-A27P 
       14.14        13.45        14.43         9.44         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-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       34.42        46.59        40.41        37.51        40.11        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-A14T TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       33.30        31.96        28.60        17.03        25.41        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D 
       23.24        19.43        14.79        25.05        23.34        17.29 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        12.92        19.40         9.04        20.58         7.73 
TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1BD TCGA-E2-A1IF 
       17.06        14.99        60.53        53.62        17.10        37.41 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IN 
       32.78        33.73        33.70        28.44         3.88        22.19 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LG 
       54.18        27.42        39.62        19.66        24.59        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      106.75       102.61         8.75        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1N8 
        7.20        18.05        22.26        19.89        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NI TCGA-E9-A1QZ 
       13.12        36.56        12.59        35.77         9.86        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA 
        0.62         2.10         6.12         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-A227 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H 
        0.79        39.09        22.75        12.89        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        12.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
        0.72        17.75        26.07        18.41         0.62        15.72 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1J2 
        0.23         0.39        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        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A441 
       11.84        11.57         8.28         6.67         4.60         2.99 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
        6.90         5.56         4.70         3.65         3.19         3.25 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7SZ TCGA-LL-A8F5 
        2.63         3.88         4.14         4.50         5.59         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         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K 
       24.10        26.20        16.87         9.80        23.70        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         6.81         5.29 

$`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        14.07        49.48         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0D9 TCGA-A7-A26G TCGA-A7-A2KD 
        8.91        12.00         3.42        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        41.06 
TCGA-A8-A075 TCGA-A8-A07B TCGA-A8-A07J TCGA-A8-A07P TCGA-A8-A082 TCGA-A8-A085 
       17.03        33.01        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        18.05        12.00        31.00        19.07        13.02 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09X TCGA-A8-A0A7 TCGA-A8-A0AD 
       15.02         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-AN-A046 TCGA-AN-A049 TCGA-AN-A0AR 
        9.40         1.55         0.07         0.33         0.62         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03M 
        0.33         6.44         0.33         0.33         5.33        47.84 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0JC TCGA-AO-A0JI TCGA-AO-A126 
       47.87        59.05        29.13        50.86        38.53        93.70 
TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A1H2 TCGA-AR-A0TV TCGA-AR-A0TX 
       57.30        28.37        14.73        15.62        29.75        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U3 TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AU 
       55.86        76.14        76.18        62.56        43.56        46.32 
TCGA-AR-A1AX TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A251 
       36.26        65.69        66.05        62.07        54.18        45.17 
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-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC TCGA-E9-A1NF 
       28.90        43.04        19.20        36.82        39.55        20.05 
TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R6 TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A226 
       21.57        14.30         2.76        34.65        35.64        34.13 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A248 TCGA-E9-A2JT TCGA-E9-A5FL TCGA-E9-A5UO 
       12.53        13.32         1.94         0.76         0.26         0.23 
TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1OZ TCGA-EW-A1P1 TCGA-EW-A1P4 
       39.72        18.21        18.90        40.41        39.78        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PF 
       23.11        18.48        30.08        18.90        13.94        14.43 
TCGA-EW-A1PG TCGA-EW-A3E8 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DI TCGA-GM-A2DK 
       34.55        21.27       194.27        53.13        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DO TCGA-GM-A3XG TCGA-LL-A440 TCGA-LL-A442 
       90.84        76.64        53.36        32.28         0.66         3.58 
TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OL-A5D6 TCGA-OL-A5RY TCGA-OL-A5RZ 
        4.50         3.22        15.91        12.66        14.10        10.29 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66P 
       14.76        54.51         4.44 

  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 
                        20.88                         23.87 
[1] "0.0 - 234.3 (20.9)" "0.0 - 194.3 (23.9)"
[1] "hr=" "1"  
D2V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  2(1Q21.3) MUTATED        53       52        5        8       257
  AMP PEAK  2(1Q21.3) WILD-TYPE      27       25        4        1        78
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  2(1Q21.3) MUTATED         155         1         98         23
  AMP PEAK  2(1Q21.3) WILD-TYPE        69         1         40          4
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  2(1Q21.3) MUTATED           45       14         1      12
  AMP PEAK  2(1Q21.3) WILD-TYPE         14        3         0       4
D2V3, multiclass
            clus
vv           AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  STAGE I                             53                            27
  STAGE IA                            52                            25
  STAGE IB                             5                             4
  STAGE II                             8                             1
  STAGE IIA                          257                            78
  STAGE IIB                          155                            69
  STAGE III                            1                             1
  STAGE IIIA                          98                            40
  STAGE IIIB                          23                             4
  STAGE IIIC                          45                            14
  STAGE IV                            14                             3
  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   173 430  88  32
  AMP PEAK  2(1Q21.3) WILD-TYPE  85 151  29   4
D2V4, multiclass
    clus
vv   AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  T1                         173                            85
  T2                         430                           151
  T3                          88                            29
  T4                          32                             4
[1] 4 2
[1] 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   347 236  78  54
  AMP PEAK  2(1Q21.3) WILD-TYPE 121  94  33  16
D2V5, multiclass
    clus
vv   AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  N0                         347                           121
  N1                         236                            94
  N2                          78                            33
  N3                          54                            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          1 613  14  97
  AMP PEAK  2(1Q21.3) WILD-TYPE        1 232   3  34
D2V6, multiclass
          clus
vv         AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               613                           232
  M1                                14                             3
  MX                                97                            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"
D2V7, binary
                               cls
clus                              0   1
  AMP PEAK  2(1Q21.3) MUTATED   719   6
  AMP PEAK  2(1Q21.3) WILD-TYPE 265   5
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED    719    6
  AMP PEAK  2(1Q21.3) WILD-TYPE  265    5
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  FEMALE                         719                           265
  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                             534
  AMP PEAK  2(1Q21.3) WILD-TYPE                           201
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  2(1Q21.3) MUTATED                              132
  AMP PEAK  2(1Q21.3) WILD-TYPE                             34
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  2(1Q21.3) MUTATED                     4
  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                  7             15
D2V8, multiclass
                                  clus
vv                                 AMP PEAK  2(1Q21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            534
  INFILTRATING LOBULAR CARCINOMA                           132
  MEDULLARY CARCINOMA                                        4
  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                              201
  INFILTRATING LOBULAR CARCINOMA                              34
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            11
  MUCINOUS CARCINOMA                                           7
  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   209 516
  AMP PEAK  2(1Q21.3) WILD-TYPE  73 197
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED    209  516
  AMP PEAK  2(1Q21.3) WILD-TYPE   73  197
     clus
vv    AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  NO                          209                            73
  YES                         516                           197
[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                         104   519
  AMP PEAK  2(1Q21.3) WILD-TYPE                        33   189
D2V11, multiclass
                                  clus
vv                                 AMP PEAK  2(1Q21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     37
  BLACK OR AFRICAN AMERICAN                                104
  WHITE                                                    519
                                  clus
vv                                 AMP PEAK  2(1Q21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       19
  BLACK OR AFRICAN AMERICAN                                   33
  WHITE                                                      189
[1] 4 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    21 582
  AMP PEAK  2(1Q21.3) WILD-TYPE  15 214
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED     21  582
  AMP PEAK  2(1Q21.3) WILD-TYPE   15  214
                        clus
vv                       AMP PEAK  2(1Q21.3) MUTATED
  HISPANIC OR LATINO                              21
  NOT HISPANIC OR LATINO                         582
                        clus
vv                       AMP PEAK  2(1Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                15
  NOT HISPANIC OR LATINO                           214
[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   635  75
  AMP PEAK  3(1Q44) WILD-TYPE 225  39
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                        710                         264 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         75                          39 
$`AMP PEAK  3(1Q44) 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-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P 
        7.96        39.32        28.01        19.20        18.21        18.02 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        73.84        22.06        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU 
      125.59       112.08        88.60        75.55        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 
       63.45        64.04        56.81        21.14        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET 
       25.22       101.72        89.36        80.28        79.76        35.05 
TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       31.82        24.16        99.19        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52        17.13        18.71        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YH 
       18.90        20.75        32.55        25.28        18.21        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT 
       14.50        18.61        19.33        14.63        31.73        23.77 
TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C 
       22.45        20.25        19.20       107.70        16.31        17.19 
TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT 
       18.15        91.92        20.88        39.65        33.93        83.01 
TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S2 
       29.98        38.40        31.99         7.30         8.81         6.74 
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-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-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IZ 
       31.36        23.74        23.80        21.73        20.61        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       10.29        11.28        14.70        11.97        14.93        13.74 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW 
       14.50        21.17        17.92        14.73        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06Q 
       11.05         9.37        10.42         8.75        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 
       41.06        29.03        26.01         1.02        17.03         9.01 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07R 
       19.99        18.97        18.97        14.01         9.99         8.98 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A085 
        7.99         9.96         9.99        28.04        15.06        36.95 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I 
        0.99        23.08        19.99        18.05        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X 
       37.05         9.99        31.00        19.07        93.04        33.99 
TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       40.01        16.01        17.95        41.98        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M 
       12.00         1.02        31.00        33.07        29.98        15.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 
       25.02         8.98        15.02         0.99        12.00        19.04 
TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       21.04        13.02        17.03        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-A2FG TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       36.99        26.04        50.70         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         1.81         1.68         1.32 
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-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.43         1.74         0.33         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-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK 
        0.16         0.33         0.33         6.44         4.64         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-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-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O 
        0.30         0.33         5.59        80.28        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 
       84.69        68.75        32.78        17.65        24.16        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF 
       22.36        53.03        21.53        72.00        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       26.24        62.04        55.33        71.80       102.58        99.25 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       94.59        96.10        90.58        77.56        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
       48.36        41.62        82.62        61.87        70.39         0.53 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       17.79        24.79        26.93       130.09         5.65        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS 
        2.56        21.86         9.99        82.88         5.26        37.41 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       65.36        70.16        83.87        76.18        55.36        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-A1AP TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24K 
       39.98        40.83        42.58        35.24        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       73.02        65.46        68.19         0.85        66.05        57.40 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       53.26        53.36        50.96        48.16        51.75        56.15 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       45.17        40.64        39.85        34.82        93.83       128.65 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       42.87         7.36        40.04        17.10        20.81        16.96 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 
       20.38        54.74        16.04        20.45        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH 
      149.59        12.13       220.90       129.57        65.72       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      176.98        84.59       110.14       110.93       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RO 
       68.45       189.01       234.28        81.17       172.96       162.05 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WT 
      102.77       140.48       100.70        89.46       131.21       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-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-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV 
       54.28        49.94        82.88        55.00        24.53        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-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.94        56.98        37.22        32.02        18.21 
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-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW 
       48.69        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-A0DG 
       49.05        44.02        48.13        42.90        45.83        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-A0E1 TCGA-BH-A0E6 
        2.56        38.47        45.17        47.41        15.68         9.63 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ 
       46.19        32.65        24.49        31.00        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HK 
       15.16        37.78        23.08        41.00        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY 
        2.50        13.61        36.85        12.89        27.25        50.79 
TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18L 
        5.59        23.93         8.81         2.01        90.84        26.66 
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-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW 
       51.39        69.93        91.99        42.28        12.00        55.69 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FC 
       49.58        17.69        25.81        31.53        97.48       114.15 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A201 
       63.35        55.00        45.63        72.07        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        0.72        38.60       130.16        10.65         6.44        20.12 
TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12V 
        0.99        11.93        12.66        11.77        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HI 
       12.66         3.12         1.78         0.62         3.75        11.34 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26X 
       12.03        10.42         2.30         3.25         0.30         0.36 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        8.28         9.67         0.03         0.99         0.03         0.23 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 
       20.88        13.25        20.58        13.97        14.17        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-A1JE TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM 
       18.15        18.90        12.03        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-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-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       14.73        21.83        14.50        19.92        17.69         7.96 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
       15.85        16.31         6.35        12.99        15.16        12.66 
TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H 
       16.54        15.52         3.81        14.14        13.45        13.05 
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-A108 
       12.53        12.26        14.50        18.51        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-A14T TCGA-E2-A14V 
       44.68        40.96        38.24        38.60        33.30        34.26 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 
       31.96        28.60        17.03        25.41        27.12        23.24 
TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15E 
       19.43        14.79        25.05        23.34        17.29        20.71 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        12.92        19.40         9.04        20.58         7.73 
TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IG 
       60.53        53.62        32.35        17.10        37.41        32.78 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1L6 
       33.73        33.70        28.44         3.88        22.19        54.18 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P5 
       39.62        19.66        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        18.05        22.26        19.89 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE 
       13.48        12.00        13.12        36.56        39.55        35.77 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 
        9.86        11.90         0.62         2.10         1.38        21.21 
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-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
       34.59        34.13         0.79        13.32        39.09        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-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
       27.22         1.94         0.95        12.56         0.72        17.75 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A6HE 
       26.07         0.62        15.72         0.23         0.39        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 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A441 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.28         6.67         4.60         2.99         6.90         5.56 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR 
        4.70         3.65         3.19         3.25         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.14         4.50         5.59        15.91         2.79         2.10 
TCGA-OL-A5D7 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       46.55        44.61        27.65        24.10        26.20        16.87 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
        9.80        23.70        33.90        31.07        18.21         7.23 
TCGA-S3-A6ZG TCGA-W8-A86G 
        6.81         5.29 

$`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        14.07        49.48 
TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 
       34.98        38.37         9.01         8.91        12.00         3.42 
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        33.01        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 
       19.07         9.99        13.02         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         9.40 
TCGA-AC-A3YI TCGA-AN-A049 TCGA-AN-A0AR TCGA-AN-A0FJ TCGA-AN-A0XS TCGA-AN-A0XT 
        1.55         0.62         0.33         7.96         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
        0.33         5.33        47.84        47.87        59.05        29.13 
TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JI TCGA-AO-A126 
       21.40        37.48        50.70        50.86        38.53        93.70 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A1H2 TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TV 
       28.37        14.73        15.62        49.32        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A1AO TCGA-AR-A1AQ 
       24.30        64.83        55.86        76.14        43.56        43.07 
TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24O TCGA-AR-A24S 
       17.23        46.32        36.26       109.58        65.69        62.07 
TCGA-AR-A24V TCGA-AR-A2LH TCGA-AR-A5QQ TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK 
       54.18        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-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1R0 
       19.20        36.82        12.59        20.05        21.57        14.30 
TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A228 TCGA-E9-A2JT 
        6.12         2.76        34.65        35.64        12.53         0.76 
TCGA-E9-A3Q9 TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J1 
       18.41         0.26         0.23        39.72        18.21        18.90 
TCGA-EW-A1J6 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       28.77        39.78        29.82        18.48        30.08        18.90 
TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GM-A2DB 
       13.94        14.43        34.55        21.27        17.49        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        32.28 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D6 
        0.66         3.58         4.50         3.22         6.21        12.66 
TCGA-OL-A5D8 TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66P 
        7.53        14.10        10.29        14.76        54.51         4.44 

  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 
                     21.155                      22.485 
[1] "0.0 - 234.3 (21.2)" "0.0 - 157.4 (22.5)"
[1] "hr=" "1.5"
D3V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  3(1Q44) MUTATED        53       49        5        9       250
  AMP PEAK  3(1Q44) WILD-TYPE      27       28        4        0        85
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  3(1Q44) MUTATED         164         1         96         23
  AMP PEAK  3(1Q44) WILD-TYPE        60         1         42          4
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  3(1Q44) MUTATED           47       12         1      11
  AMP PEAK  3(1Q44) WILD-TYPE         12        5         0       5
D3V3, multiclass
            clus
vv           AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  STAGE I                           53                          27
  STAGE IA                          49                          28
  STAGE IB                           5                           4
  STAGE II                           9                           0
  STAGE IIA                        250                          85
  STAGE IIB                        164                          60
  STAGE III                          1                           1
  STAGE IIIA                        96                          42
  STAGE IIIB                        23                           4
  STAGE IIIC                        47                          12
  STAGE IV                          12                           5
  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   169 437  84  30
  AMP PEAK  3(1Q44) WILD-TYPE  89 144  33   6
D3V4, multiclass
    clus
vv   AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  T1                       169                          89
  T2                       437                         144
  T3                        84                          33
  T4                        30                           6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                             vv
clus                           N0  N1  N2  N3
  AMP PEAK  3(1Q44) MUTATED   337 245  76  55
  AMP PEAK  3(1Q44) WILD-TYPE 131  85  35  15
D3V5, multiclass
    clus
vv   AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  N0                       337                         131
  N1                       245                          85
  N2                        76                          35
  N3                        55                          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          1 609  12 100
  AMP PEAK  3(1Q44) WILD-TYPE        1 236   5  31
D3V6, multiclass
          clus
vv         AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  CM0 (I+)                         1                           1
  M0                             609                         236
  M1                              12                           5
  MX                             100                          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"
D3V7, binary
                             cls
clus                            0   1
  AMP PEAK  3(1Q44) MUTATED   714   8
  AMP PEAK  3(1Q44) WILD-TYPE 270   3
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED    714    8
  AMP PEAK  3(1Q44) WILD-TYPE  270    3
        clus
vv       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  FEMALE                       714                         270
  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                             523
  AMP PEAK  3(1Q44) WILD-TYPE                           212
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  3(1Q44) MUTATED                              139
  AMP PEAK  3(1Q44) WILD-TYPE                             27
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  3(1Q44) MUTATED                     4
  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                  7             17
D3V8, multiclass
                                  clus
vv                                 AMP PEAK  3(1Q44) MUTATED
  INFILTRATING CARCINOMA NOS                               1
  INFILTRATING DUCTAL CARCINOMA                          523
  INFILTRATING LOBULAR CARCINOMA                         139
  MEDULLARY CARCINOMA                                      4
  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                            212
  INFILTRATING LOBULAR CARCINOMA                            27
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           8
  MUCINOUS CARCINOMA                                         7
  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   206 516
  AMP PEAK  3(1Q44) WILD-TYPE  76 197
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED    206  516
  AMP PEAK  3(1Q44) WILD-TYPE   76  197
     clus
vv    AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  NO                        206                          76
  YES                       516                         197
[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                          99   526
  AMP PEAK  3(1Q44) WILD-TYPE                        38   182
D3V11, multiclass
                                  clus
vv                                 AMP PEAK  3(1Q44) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         1
  ASIAN                                                   31
  BLACK OR AFRICAN AMERICAN                               99
  WHITE                                                  526
                                  clus
vv                                 AMP PEAK  3(1Q44) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     25
  BLACK OR AFRICAN AMERICAN                                 38
  WHITE                                                    182
[1] 4 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    21 578
  AMP PEAK  3(1Q44) WILD-TYPE  15 218
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED     21  578
  AMP PEAK  3(1Q44) WILD-TYPE   15  218
                        clus
vv                       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  HISPANIC OR LATINO                            21                          15
  NOT HISPANIC OR LATINO                       578                         218
[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   158  30
  AMP PEAK  4(3P25.1) WILD-TYPE 702  84
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                          188                           786 
  AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE 
                           30                            84 
$`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         3.42        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        19.99        18.05 
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        33.99        19.07 
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        13.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A09X 
       33.07        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 
       17.65        37.48        20.32        50.70        71.80        94.59 
TCGA-AO-A12D TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A54O TCGA-AR-A0U2 TCGA-AR-A1AS 
       64.04        17.79        24.79        21.86        83.87        40.83 
TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A2LL TCGA-AR-A2LR 
       50.89        66.05        54.18        51.75         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-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1PH TCGA-EW-A3U0 
        0.23        28.77        29.85        40.41        19.96        17.49 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3XL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FR 
       43.04        42.71        69.30         4.70         3.25         3.88 
TCGA-LL-A8F5 TCGA-OL-A5D7 
        6.21        46.55 

$`AMP PEAK  4(3P25.1) 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-A0SN TCGA-A1-A0SP 
       20.88        13.68        31.79         7.96        39.32        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V 
       18.21       104.81        18.02        41.95        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       125.59        64.57       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU TCGA-A2-A0D0 TCGA-A2-A0D1 
       92.48        88.60       107.93         5.19        21.14        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-A0EU 
      107.61        79.76        74.40        37.05        35.05        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-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 
       44.88        50.43        44.28        17.52        17.13         8.38 
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-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-A1G0 
       19.33        14.63        31.73        23.47        36.79        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-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-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       83.01        29.98        14.07        49.48        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       31.99        38.37         7.30         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       12.00         6.74        35.31        34.29        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A26E TCGA-A7-A26G 
       37.45        31.73        10.72        23.61        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-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB 
       10.29        11.28        13.41        11.97        14.93        13.74 
TCGA-A7-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX 
       17.92        10.72        11.05        10.29         9.37        10.42 
TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z 
        8.75        13.02        41.06        29.03        26.01         1.02 
TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I 
       53.98        33.01        19.99        18.97        18.97        14.01 
TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S 
       12.00        17.03         9.99        10.98         8.98         7.99 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 
        9.96         9.99        28.04        18.05        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08R TCGA-A8-A08S 
        0.99        23.08        19.96        31.00         0.99        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C 
       93.04        40.01        16.01        41.98         9.99         1.02 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A2 
       15.02         1.02        19.04        15.02        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-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        0.95         2.37        10.85         1.48        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-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         0.99         0.69        14.83         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.81         1.68         1.55         1.32         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X 
        1.12         1.81         1.18         0.69         0.43         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.23         0.33         2.96         1.78         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF 
        7.36         6.51         0.16         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.96         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR 
        0.33         0.36         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-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
       47.84        66.77        81.63        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J8 
       59.05        29.13        32.78        21.40        24.16        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-A124 TCGA-AO-A125 
       26.24        38.53        62.04        55.33       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F 
       93.70        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-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
        0.53        26.93       130.09         5.65        15.62        13.22 
TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
        2.56         9.99        82.88        49.32         5.26        37.41 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       56.88        29.75        24.30        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        70.16        76.18        55.36        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-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       39.98        43.07        17.23        46.32        42.58        35.24 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       36.26        20.22       109.58        73.02        65.46        68.19 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U 
       65.69         0.85        57.40        62.07        53.26        53.36 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        48.16        56.15        45.17        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM 
       34.82        93.83       128.65        20.25        42.87        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       17.10        20.81        16.96        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC 
       10.59        77.62       143.38       149.59       129.57        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-A0RG TCGA-B6-A0RH 
       84.59       110.14       110.93       140.88        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ 
      234.28        81.17        78.02       172.96       162.05       140.48 
TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX 
       89.46       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-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A40B 
      101.52        73.51       139.17       170.17        54.28        82.88 
TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 
       55.00        20.45        25.55        28.50        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       39.55        39.16        56.98        51.68        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       18.21        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-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-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-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       15.68        44.81        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-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       41.00        52.96        26.50         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       36.85        12.89        51.32         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-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S 
       90.84        26.66        72.56        30.28        55.63        66.05 
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-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-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-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 
       63.35        55.00       144.59        72.07         6.90        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-A12P TCGA-C8-A12V 
      109.28         8.94        11.93        11.77        11.77        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-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN 
       12.33        10.92         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-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.03         0.03        12.20         0.99         0.03         0.23 
TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 
       20.88        13.25        20.58        13.97        14.17        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-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       15.78        18.15        18.90        12.03        14.01        18.97 
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-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ 
       18.15         2.66        17.16        15.22        14.73        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       19.92        17.69         7.96        15.85        16.31         6.35 
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-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-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-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P 
       40.41        40.11        28.44        28.87        47.15        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
       38.24        33.17        43.33        34.26        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       28.60        25.41        27.12        23.24        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       14.79        25.05        23.34        22.82        17.29        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O 
       12.92        17.42        19.40         9.04         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       19.56        17.06        14.99        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-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-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-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 
       40.47       106.75       102.61         8.75        43.04        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        18.05        22.26        19.89 
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        12.56         0.72         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL 
       26.07        18.41         0.62        15.72         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 
       29.95        41.13        39.78        52.96        29.82        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC 
       18.48        30.08         7.86        18.90        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-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 
       25.91        22.09        21.27        10.16        10.59         7.40 
TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DH 
      109.87        59.57       194.27        53.13        53.52        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-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        32.28        53.95        57.63        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         8.28         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        0.66         2.99         3.58         6.90         5.56         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.19         2.63         4.14         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        3.22        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       10.29         9.80        14.76        23.70        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         6.81         5.29 

  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 
                        20.73                         21.65 
[1] "0.0 - 220.9 (20.7)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.7"
D4V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  4(3P25.1) MUTATED        12       11        0        2        77
  AMP PEAK  4(3P25.1) WILD-TYPE      68       66        9        7       258
                               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       192         2        106         17
                               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         51       11         1      14
D4V3, multiclass
            clus
vv           AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  STAGE I                             12                            68
  STAGE IA                            11                            66
  STAGE IB                             0                             9
  STAGE II                             2                             7
  STAGE IIA                           77                           258
  STAGE IIB                           32                           192
  STAGE III                            0                             2
  STAGE IIIA                          32                           106
  STAGE IIIB                          10                            17
  STAGE IIIC                           8                            51
  STAGE IV                             6                            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  4(3P25.1) MUTATED    36 128  14  13
  AMP PEAK  4(3P25.1) WILD-TYPE 222 453 103  23
D4V4, multiclass
    clus
vv   AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  T1                          36                           222
  T2                         128                           453
  T3                          14                           103
  T4                          13                            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  4(3P25.1) MUTATED    91  53  32  12
  AMP PEAK  4(3P25.1) WILD-TYPE 377 277  79  58
D4V5, multiclass
    clus
vv   AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  N0                          91                           377
  N1                          53                           277
  N2                          32                            79
  N3                          12                            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
  AMP PEAK  4(3P25.1) MUTATED          0 175   6  11
  AMP PEAK  4(3P25.1) WILD-TYPE        2 670  11 120
D4V6, multiclass
          clus
vv         AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               175                           670
  M1                                 6                            11
  MX                                11                           120
[1] 4 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   191   1
  AMP PEAK  4(3P25.1) WILD-TYPE 793  10
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED    191    1
  AMP PEAK  4(3P25.1) WILD-TYPE  793   10
        clus
vv       AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  FEMALE                         191                           793
  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                             164
  AMP PEAK  4(3P25.1) WILD-TYPE                           571
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  4(3P25.1) MUTATED                               13
  AMP PEAK  4(3P25.1) WILD-TYPE                            153
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  4(3P25.1) MUTATED                     1
  AMP PEAK  4(3P25.1) WILD-TYPE                   4
                               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                 13             37
D4V8, multiclass
                                  clus
vv                                 AMP PEAK  4(3P25.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            164
  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                              571
  INFILTRATING LOBULAR CARCINOMA                             153
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            24
  MUCINOUS CARCINOMA                                          13
  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    57 135
  AMP PEAK  4(3P25.1) WILD-TYPE 225 578
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED     57  135
  AMP PEAK  4(3P25.1) WILD-TYPE  225  578
     clus
vv    AMP PEAK  4(3P25.1) MUTATED AMP PEAK  4(3P25.1) WILD-TYPE
  NO                           57                           225
  YES                         135                           578
[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                          27   121
  AMP PEAK  4(3P25.1) WILD-TYPE                       110   587
D4V11, multiclass
                                  clus
vv                                 AMP PEAK  4(3P25.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     14
  BLACK OR AFRICAN AMERICAN                                 27
  WHITE                                                    121
                                  clus
vv                                 AMP PEAK  4(3P25.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       42
  BLACK OR AFRICAN AMERICAN                                  110
  WHITE                                                      587
[1] 4 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     6 144
  AMP PEAK  4(3P25.1) WILD-TYPE  30 652
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3P25.1) MUTATED      6  144
  AMP PEAK  4(3P25.1) WILD-TYPE   30  652
                        clus
vv                       AMP PEAK  4(3P25.1) MUTATED
  HISPANIC OR LATINO                               6
  NOT HISPANIC OR LATINO                         144
                        clus
vv                       AMP PEAK  4(3P25.1) WILD-TYPE
  HISPANIC OR LATINO                                30
  NOT HISPANIC OR LATINO                           652
[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   273  36
  AMP PEAK  5(3Q26.32) WILD-TYPE 587  78
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                           309                            665 
  AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE 
                            36                             78 
$`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        12.00        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         9.96 
TCGA-A8-A07W TCGA-A8-A085 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I 
        9.99        36.95        23.08        19.99        18.05        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        33.99        19.07 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       16.01        17.95         9.99        12.00         1.02        31.00 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-AC-A23H TCGA-AC-A2FM 
       29.98        15.02        25.02         8.98         2.66        26.04 
TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3OD TCGA-AC-A62X TCGA-AC-A6IW TCGA-AN-A03Y 
        1.02         2.27        14.83         1.12         0.69         0.33 
TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AM 
        0.23         0.62         1.71         8.02         6.51         0.16 
TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FW TCGA-AN-A0FX 
        0.33         4.64         7.96         7.59         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33         0.33         0.33        12.33         0.33         0.33 
TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JM 
       80.28        81.63        17.65        37.48        20.32        71.80 
TCGA-AO-A124 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KQ TCGA-AO-A1KR 
      102.58        94.59        96.10        64.04        61.87        70.39 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS 
       24.79       130.09         2.56        21.86        82.88        37.41 
TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AN TCGA-AR-A1AO 
       70.16        55.36        61.84        52.77        43.73        43.56 
TCGA-AR-A1AS TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24Q TCGA-AR-A24V 
       40.83       109.58        50.89        65.46        66.05        54.18 
TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LR TCGA-AR-A5QP 
       45.17        34.82        93.83         7.36        20.38        20.45 
TCGA-B6-A0I2 TCGA-B6-A0IA TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IQ TCGA-B6-A0RG 
      143.38       220.90       176.98        18.77       140.88        68.45 
TCGA-B6-A0RH TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WV 
      189.01       102.77       100.70       131.21        97.48        79.63 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A401 TCGA-B6-A408 
      113.79       186.48        43.59       101.52        85.35        49.94 
TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BC 
       24.53        20.45        39.55        39.16        56.94        32.02 
TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0DI TCGA-BH-A0DK 
       44.05        53.69        45.57        41.75        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EB 
       48.23         3.22         2.56         9.63        46.19        24.49 
TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0HI TCGA-BH-A0HU TCGA-BH-A0HY TCGA-BH-A0WA 
       30.35        23.08        20.38        12.89        50.79        23.05 
TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EV 
       37.74        55.63         7.36        51.39        51.16        12.00 
TCGA-BH-A1EW TCGA-BH-A1F0 TCGA-BH-A1FC TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A202 
       55.69        25.81       114.15        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M 
       38.60        57.83       130.16         0.99        11.93        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A1HF 
       11.77         0.07        12.66        12.66         3.12        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34        11.34         0.16        12.03         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M8 
        0.30         0.23         0.43         0.03         0.99         0.23 
TCGA-D8-A13Z TCGA-D8-A143 TCGA-D8-A1J9 TCGA-D8-A1JD TCGA-D8-A1JJ TCGA-D8-A1JL 
       20.88        14.17        17.49        18.15        20.09        20.09 
TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ 
       19.40        21.01        18.58        27.58        18.15        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
       14.50        19.92        16.41         6.35        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27H TCGA-D8-A27N 
       12.66        16.54        15.52        14.24        13.05         4.80 
TCGA-D8-A27R TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       10.09        46.59        37.51        47.15        44.68        40.96 
TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A158 
       38.60        34.26        17.03        25.41        19.43        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A1IE TCGA-E2-A1IH 
       25.05        23.34        20.71        18.21        38.30        33.73 
TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LI 
       33.70        20.98        27.42        24.59        18.87       102.61 
TCGA-E2-A1LL TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1NF TCGA-E9-A1RB 
       43.04        22.26        19.89        12.00        20.05        20.81 
TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A244 
       40.24        21.27        34.59        34.13        12.89         0.69 
TCGA-E9-A54Y TCGA-E9-A5FL TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 
        0.23         0.26        28.77        22.82        40.41        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FS 
       23.11         7.86        19.99         6.15        19.96        52.73 
TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF 
       17.49         7.40       109.87        53.13        43.04        42.71 
TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y 
       42.28        69.30         4.70         3.25         3.88         4.14 
TCGA-LL-A8F5 TCGA-OL-A5RW TCGA-OL-A66P 
        6.21        26.20         4.44 

$`AMP PEAK  5(3Q26.32) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SJ 
        8.52        14.37        43.43        48.10        14.27        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
       31.79         7.96        39.32        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       82.16        22.06        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 
      125.59        64.57       112.08        92.48        88.60       107.93 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 
       75.25         5.19        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-A0ET TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST 
       37.05        35.05        34.29        29.75        24.72        99.19 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T4 TCGA-A2-A0T5 
       54.64        44.88        44.28        17.52        20.52        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI 
       18.90        32.55        25.28        15.42        21.67        14.50 
TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1G0 
       18.61        19.33        14.63        23.47        36.79        20.25 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25E 
       19.56        16.47        52.47       107.70        17.19        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        20.88        39.65        29.98        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       38.40        31.99        38.37         7.30         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
        8.91         6.74         3.42        34.29        35.47        37.45 
TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26I 
       10.72        23.61        29.56        31.36        24.26        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-A4SA TCGA-A7-A4SB TCGA-A7-A4SF 
       13.41        14.70        11.97        14.93        13.74        17.92 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T 
       10.72        11.05         9.37         8.75        13.02        41.06 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       31.00        26.01        53.98         9.01        33.01        19.99 
TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07Z TCGA-A8-A082 
       18.97        14.01        10.98         7.99        28.04        18.05 
TCGA-A8-A084 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08S 
       15.06        13.02         0.99        19.96        31.00        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09D 
       93.04        40.01        41.98        12.00         9.99        13.02 
TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       33.07         1.02        19.04        15.02         0.99        14.01 
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-A23G TCGA-AC-A2B8 
       17.03        38.04         0.95         2.37        10.85         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-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN 
       50.70         0.92         0.99         0.69         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.81         1.68         1.55         1.32         1.55         0.07 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A046 
        1.81         1.18         0.43         1.74         0.33         0.33 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        2.96         1.78         7.36         0.33         0.33         6.44 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FY 
        7.00         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M 
        0.30         0.33         0.33         5.33         5.59        47.84 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       66.77        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-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-A0JL TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A12A 
       38.53        62.04        55.33        99.25        93.70        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-A1KS TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       82.62         0.53        17.79        26.93         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
       13.22         9.99        49.32         5.26        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
       24.30        64.83        55.86        76.14        65.36        83.87 
TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AP 
       76.18        75.55        51.25        48.82        62.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.07        17.23        46.32        42.58        35.24        36.26 
TCGA-AR-A1AY TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       20.22        73.02        68.19        65.69         0.85        57.40 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       62.07        53.26        53.36        50.96        48.16        51.75 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
       56.15        40.64        39.85       128.65        20.25        42.87 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        17.10        20.81        16.96        54.74        16.04 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IC 
       10.59        77.62       149.59        12.13       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
       65.72       146.50       112.37       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
      110.93       211.56       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WW 
      162.05       140.48        89.46       157.41       188.68        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        28.27        68.94        58.88 
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        82.88        55.00 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B5 
       38.79        25.55        28.50        46.95        40.83        48.36 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       56.98        51.68        37.22        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-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
       49.94        11.67        49.05        44.02        48.13        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP 
       45.83        31.17        23.44        38.01        17.26        15.65 
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-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ 
       14.30        44.81        32.65        31.00        24.43        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-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-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-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
        8.81         2.01         7.23        20.12        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN TCGA-BH-A1EO 
       72.56        30.28        37.55        66.05        69.93        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F2 
      113.82        82.85        42.28        49.58        17.69        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-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-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       72.07        83.31        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 
        8.94        11.77        12.66        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-A1HL TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
       10.42         0.36         8.28         9.67         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-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.48        21.14        19.20        14.17        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-A1JK TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       20.12        20.38        12.20        13.32        14.70        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF 
       16.73        25.74        23.90         2.66        17.16        15.22 
TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XZ 
       14.73        17.69         7.96        15.85        16.31        15.32 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27I 
        3.81        14.14        17.42        16.04        13.45        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
        9.44        16.41        13.48         0.76        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-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q 
       27.52        40.41        40.11        28.44        28.87        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-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D 
       27.12        23.24        21.04        23.87        22.82        17.29 
TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       21.63        12.92        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-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-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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
        3.88        22.19        11.08        54.18        39.62        19.66 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 
       40.47        28.90       106.75         8.75        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
       15.72         7.20        18.05        19.20        36.82        13.48 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       13.12        36.56        39.55        12.59        35.77        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-A1RD TCGA-E9-A1RE 
        1.38         2.76        21.21        32.09         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
        6.58        35.64         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 
       22.75        23.51        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        12.56         0.72        17.75         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5UO 
       26.07        18.41         0.62        15.72         0.39         0.23 
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-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FV 
       13.94        10.52        14.43        34.55        55.00        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        10.16        10.59        59.57       194.27 
TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       53.52        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        32.28        53.95        57.63 
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         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.65         3.19         2.63         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        3.22        15.91         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 
        7.53        44.61        27.65        24.10        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       10.29         9.80        14.76        23.70        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         6.81         5.29 

  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 
                         20.88                          21.73 
[1] "0.0 - 220.9 (20.9)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1"  
D5V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  5(3Q26.32) MUTATED        19       19        1        2       126
  AMP PEAK  5(3Q26.32) WILD-TYPE      61       58        8        7       209
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  5(3Q26.32) MUTATED          68         0         43         11
  AMP PEAK  5(3Q26.32) WILD-TYPE       156         2         95         16
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  5(3Q26.32) MUTATED           16        7         0       4
  AMP PEAK  5(3Q26.32) WILD-TYPE         43       10         1      12
D5V3, multiclass
            clus
vv           AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  STAGE I                              19                             61
  STAGE IA                             19                             58
  STAGE IB                              1                              8
  STAGE II                              2                              7
  STAGE IIA                           126                            209
  STAGE IIB                            68                            156
  STAGE III                             0                              2
  STAGE IIIA                           43                             95
  STAGE IIIB                           11                             16
  STAGE IIIC                           16                             43
  STAGE IV                              7                             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
  AMP PEAK  5(3Q26.32) MUTATED    63 210  29  14
  AMP PEAK  5(3Q26.32) WILD-TYPE 195 371  88  22
D5V4, multiclass
    clus
vv   AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  T1                           63                            195
  T2                          210                            371
  T3                           29                             88
  T4                           14                             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
  AMP PEAK  5(3Q26.32) MUTATED   157  95  40  19
  AMP PEAK  5(3Q26.32) WILD-TYPE 311 235  71  51
D5V5, multiclass
    clus
vv   AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  N0                          157                            311
  N1                           95                            235
  N2                           40                             71
  N3                           19                             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
  AMP PEAK  5(3Q26.32) MUTATED          0 282   7  27
  AMP PEAK  5(3Q26.32) WILD-TYPE        2 563  10 104
D5V6, multiclass
          clus
vv         AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                282                            563
  M1                                  7                             10
  MX                                 27                            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"
D5V7, binary
                                cls
clus                               0   1
  AMP PEAK  5(3Q26.32) MUTATED   312   4
  AMP PEAK  5(3Q26.32) WILD-TYPE 672   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED    312    4
  AMP PEAK  5(3Q26.32) WILD-TYPE  672    7
        clus
vv       AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  FEMALE                          312                            672
  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                             278
  AMP PEAK  5(3Q26.32) WILD-TYPE                           457
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  5(3Q26.32) MUTATED                               12
  AMP PEAK  5(3Q26.32) WILD-TYPE                            154
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK  5(3Q26.32) MUTATED                     4
  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                 13             31
D5V8, multiclass
                                  clus
vv                                 AMP PEAK  5(3Q26.32) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             278
  INFILTRATING LOBULAR CARCINOMA                             12
  MEDULLARY CARCINOMA                                         4
  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                               457
  INFILTRATING LOBULAR CARCINOMA                              154
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             23
  MUCINOUS CARCINOMA                                           13
  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   103 213
  AMP PEAK  5(3Q26.32) WILD-TYPE 179 500
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED    103  213
  AMP PEAK  5(3Q26.32) WILD-TYPE  179  500
     clus
vv    AMP PEAK  5(3Q26.32) MUTATED AMP PEAK  5(3Q26.32) WILD-TYPE
  NO                           103                            179
  YES                          213                            500
[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                          49   202
  AMP PEAK  5(3Q26.32) WILD-TYPE                        88   506
D5V11, multiclass
                                  clus
vv                                 AMP PEAK  5(3Q26.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      25
  BLACK OR AFRICAN AMERICAN                                  49
  WHITE                                                     202
                                  clus
vv                                 AMP PEAK  5(3Q26.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        31
  BLACK OR AFRICAN AMERICAN                                    88
  WHITE                                                       506
[1] 4 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     7 252
  AMP PEAK  5(3Q26.32) WILD-TYPE  29 544
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(3Q26.32) MUTATED      7  252
  AMP PEAK  5(3Q26.32) WILD-TYPE   29  544
                        clus
vv                       AMP PEAK  5(3Q26.32) MUTATED
  HISPANIC OR LATINO                                7
  NOT HISPANIC OR LATINO                          252
                        clus
vv                       AMP PEAK  5(3Q26.32) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            544
[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   126  23
  AMP PEAK  6(4Q13.3) WILD-TYPE 734  91
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                          149                           825 
  AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE 
                           23                            91 
$`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        12.00 
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        19.07        93.04        19.07 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09M TCGA-A8-A0A9 TCGA-AC-A2QJ TCGA-AC-A3W5 
       12.00         9.99        15.02        13.02         2.27         1.81 
TCGA-AC-A62V TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AT TCGA-AN-A0FY TCGA-AN-A0XU 
        0.07         1.78         1.71         0.33         0.33         0.33 
TCGA-AO-A03O TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0JD 
       81.63        29.13        32.78        21.40        17.65        72.00 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A12D TCGA-AQ-A04L TCGA-AQ-A54O TCGA-AR-A0TS 
       55.33        71.80        64.04       130.09        21.86        37.41 
TCGA-AR-A0TW TCGA-AR-A0U4 TCGA-AR-A1AN TCGA-AR-A1AR TCGA-AR-A24H TCGA-AR-A250 
       24.30        55.36        43.73        17.23       109.58        56.15 
TCGA-AR-A2LL TCGA-B6-A0RG TCGA-B6-A0RS TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY 
        7.36        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-A1LA TCGA-E2-A56Z TCGA-E9-A1R6 TCGA-E9-A1RB 
       13.02        20.98        24.59         7.20         2.76        20.81 
TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 
       40.24        34.65        23.51        17.06         0.69        27.22 
TCGA-E9-A2JS TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PH 
       17.75        29.85        29.82        19.99        13.94        19.96 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF 
       52.73        25.91         7.40       109.87        53.13        42.71 
TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-OL-A5S0 TCGA-OL-A66I TCGA-S3-A6ZG 
        3.25         3.22         9.80        23.70         6.81 

$`AMP PEAK  6(4Q13.3) 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-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-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X 
      104.81        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       125.59        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-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-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV 
       80.28       107.61        74.40        37.05        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-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T4 
       44.88        50.43        44.28        17.52         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-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-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G1 
       14.63        31.73        23.47        36.79        22.45        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-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       29.98        14.07        49.48        38.40        34.98        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 
        7.30         9.01         8.81         8.91         6.74         3.42 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       38.30        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-A13G 
       35.67        33.11        31.73        10.72        12.72        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-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-A4SA TCGA-A7-A4SD TCGA-A7-A4SE 
       13.41        14.70        11.97        14.93        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW 
       17.92        14.73        12.10        10.72        11.05         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06Y 
       10.42         8.75        13.02        17.98        41.06        26.01 
TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L 
       53.98        33.01        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         9.96        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        23.08        19.99 
TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P 
       18.05        12.00        37.05         9.99        31.00        31.00 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 
       33.99        40.01        16.01        17.95        41.98         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K 
       12.00         1.02        13.02        31.00        33.07        29.98 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
        1.02        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-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H 
       17.03        38.04         0.95         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-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-A3W6 TCGA-AC-A3YI 
        0.69        14.83         9.40         1.12         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.32         1.55         1.12         1.81         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.43         1.74         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM 
        0.62         2.96         8.02         7.36         6.51         0.16 
TCGA-AN-A0AR TCGA-AN-A0AS 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-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        7.59         7.17         6.28         6.02         0.33         0.36 
TCGA-AN-A0FX 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-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-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       24.16        37.48        20.32        22.36        53.03        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        38.53 
TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       62.04       102.58        99.25        93.70        94.59        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-AO-A1KT 
       14.73        82.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79        26.93         5.65        15.62        13.22         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99        82.88        49.32         5.26        56.88        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 
       64.83        55.86        76.14        65.36        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       76.18        75.55        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU 
       62.56        43.56        39.98        43.07        40.83        46.32 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L 
       42.58        35.24        36.26        20.22        50.89        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       65.46        68.19        65.69         0.85        66.05        57.40 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
       62.07        53.26        53.36        54.18        50.96        48.16 
TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       51.75        45.17        40.64        39.85        34.82        93.83 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
      128.65        20.25        42.87        40.04        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       16.96        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-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-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-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-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
      188.68        79.63        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-A1KC 
      129.70       186.48        28.27        68.94        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-A0AV TCGA-BH-A0AZ TCGA-BH-A0B0 
       49.94        82.88        55.00        38.79        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA 
       40.83        39.55        39.16        48.36        51.68        37.22 
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-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-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-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-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-A0HU TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 
       13.61        36.85        12.89        51.32         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-A18K TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
        7.23        90.84        72.56        30.28        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES 
       66.05         7.36        51.16        69.93        91.99       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 
       82.85        42.28        12.00        17.69        31.53        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       97.48        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-A201 
       36.92        63.35        55.00        72.07       144.59         6.90 
TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        0.72        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-A12X TCGA-C8-A130 
       11.77         0.07        12.66        12.66        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-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-A1HM TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        2.30         0.30         0.36         8.28         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-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-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB 
       13.48        21.14        19.20        14.17        17.49        18.71 
TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       15.78        18.90        12.03        18.97        20.09        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 
       20.09        19.40        20.38        12.20        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-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       17.16        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-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       12.66        16.54         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-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-A10A TCGA-E2-A10B 
        7.33        43.00        34.42        27.52        40.41        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14T 
       40.11        28.44        28.87        44.68        38.24        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-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-A15G TCGA-E2-A15H 
       25.05        22.82        17.29        21.63        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15P 
       17.42        19.40         9.04        20.58         7.73        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-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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 
        3.88        22.19        11.08        54.18        27.42        39.62 
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-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
        8.75        43.04        16.93         5.52        15.72        18.05 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 
       22.26        19.89        19.20        36.82        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF 
       13.12        36.56        39.55        12.59        35.77        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-A1R7 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RF 
        6.12         1.38        21.21        32.09         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-A245 
       13.32        39.09        22.75        12.89        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        12.56         0.72         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       18.41         0.62        15.72         0.23         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ 
        6.90         5.56         4.70         3.65         3.19         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 
        3.88         4.14         4.50         4.50         5.59         6.21 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       15.91         2.79         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       10.29        14.76        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
        7.23         4.44         5.29 

  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 
                        20.81                         21.63 
[1] "0.1 - 130.1 (20.8)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.8"
D6V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  6(4Q13.3) MUTATED        10        8        2        1        56
  AMP PEAK  6(4Q13.3) WILD-TYPE      70       69        7        8       279
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  6(4Q13.3) MUTATED          36         0         18          7
  AMP PEAK  6(4Q13.3) WILD-TYPE       188         2        120         20
                               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         49       13         1      13
D6V3, multiclass
            clus
vv           AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  STAGE I                             10                            70
  STAGE IA                             8                            69
  STAGE IB                             2                             7
  STAGE II                             1                             8
  STAGE IIA                           56                           279
  STAGE IIB                           36                           188
  STAGE III                            0                             2
  STAGE IIIA                          18                           120
  STAGE IIIB                           7                            20
  STAGE IIIC                          10                            49
  STAGE IV                             4                            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  6(4Q13.3) MUTATED    37  90  17  11
  AMP PEAK  6(4Q13.3) WILD-TYPE 221 491 100  25
D6V4, multiclass
    clus
vv   AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  T1                          37                           221
  T2                          90                           491
  T3                          17                           100
  T4                          11                            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  6(4Q13.3) MUTATED    68  57  14  12
  AMP PEAK  6(4Q13.3) WILD-TYPE 400 273  97  58
D6V5, multiclass
    clus
vv   AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  N0                          68                           400
  N1                          57                           273
  N2                          14                            97
  N3                          12                            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
  AMP PEAK  6(4Q13.3) MUTATED          0 137   4  14
  AMP PEAK  6(4Q13.3) WILD-TYPE        2 708  13 117
D6V6, multiclass
          clus
vv         AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               137                           708
  M1                                 4                            13
  MX                                14                           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"
D6V7, binary
                               cls
clus                              0   1
  AMP PEAK  6(4Q13.3) MUTATED   152   3
  AMP PEAK  6(4Q13.3) WILD-TYPE 832   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED    152    3
  AMP PEAK  6(4Q13.3) WILD-TYPE  832    8
        clus
vv       AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  FEMALE                         152                           832
  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                             139
  AMP PEAK  6(4Q13.3) WILD-TYPE                           596
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  6(4Q13.3) MUTATED                                5
  AMP PEAK  6(4Q13.3) WILD-TYPE                            161
                               vv
clus                            MEDULLARY CARCINOMA
  AMP PEAK  6(4Q13.3) MUTATED                     2
  AMP PEAK  6(4Q13.3) WILD-TYPE                   3
                               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              7
  AMP PEAK  6(4Q13.3) WILD-TYPE                 13             37
D6V8, multiclass
                                  clus
vv                                 AMP PEAK  6(4Q13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            139
  INFILTRATING LOBULAR CARCINOMA                             5
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           1
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                             7
                                  clus
vv                                 AMP PEAK  6(4Q13.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              596
  INFILTRATING LOBULAR CARCINOMA                             161
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            28
  MUCINOUS CARCINOMA                                          13
  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"
D6V9, binary
                               cls
clus                              0   1
  AMP PEAK  6(4Q13.3) MUTATED    48 107
  AMP PEAK  6(4Q13.3) WILD-TYPE 234 606
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED     48  107
  AMP PEAK  6(4Q13.3) WILD-TYPE  234  606
     clus
vv    AMP PEAK  6(4Q13.3) MUTATED AMP PEAK  6(4Q13.3) WILD-TYPE
  NO                           48                           234
  YES                         107                           606
[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                          25    96
  AMP PEAK  6(4Q13.3) WILD-TYPE                       112   612
D6V11, multiclass
                                  clus
vv                                 AMP PEAK  6(4Q13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 25
  WHITE                                                     96
                                  clus
vv                                 AMP PEAK  6(4Q13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                  112
  WHITE                                                      612
[1] 4 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     8 117
  AMP PEAK  6(4Q13.3) WILD-TYPE  28 679
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(4Q13.3) MUTATED      8  117
  AMP PEAK  6(4Q13.3) WILD-TYPE   28  679
                        clus
vv                       AMP PEAK  6(4Q13.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         117
                        clus
vv                       AMP PEAK  6(4Q13.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           679
[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   313  44
  AMP PEAK  7(5P15.33) WILD-TYPE 547  70
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                           357                            617 
  AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE 
                            44                             70 
$`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         9.01        12.00         6.74         3.42 
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         9.96         9.99 
TCGA-A8-A07Z TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I 
       28.04        13.02        23.08        18.05        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        19.07        33.99        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-AN-A03Y TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR 
        0.33         1.78         8.02         7.36         0.16         0.33 
TCGA-AN-A0AS TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL 
        0.33         7.96         7.00         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O 
        0.33        12.33         0.33        80.28        47.84        81.63 
TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE 
       21.40        37.48        20.32        53.03        50.86        76.77 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E 
       55.33        71.80        94.59        90.58        77.56        57.30 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AQ-A54O 
       70.39         0.53        24.79         5.65         2.56        21.86 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U1 TCGA-AR-A1AI 
       82.88         5.26        29.75        24.30        70.16        61.84 
TCGA-AR-A1AK TCGA-AR-A1AM TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24R 
       51.25        62.56        42.58        20.22       109.58        57.40 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LK 
       53.36        54.18        50.96        39.85        34.82        42.87 
TCGA-AR-A2LL TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 
        7.36        20.38        54.74        20.45        77.62       143.38 
TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0WT TCGA-B6-A0WV 
      176.98       110.14       140.88       211.56       188.68        79.63 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A408 TCGA-B6-A40B 
      113.79       186.48       101.52        73.51        49.94        82.88 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B7 
       24.53        38.79        20.45        39.55        48.36        56.98 
TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR 
       37.22        25.71        21.70        44.05        48.69        53.69 
TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DS 
       44.02        42.90        22.13        48.23        15.65         2.56 
TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H7 TCGA-BH-A0HP TCGA-BH-A0HQ 
       24.49        31.00        24.43        23.08        13.61        36.85 
TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18K 
       27.25        50.79        42.35        44.81        23.05        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       26.66        72.56        37.74         7.36        51.39        51.16 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY 
       69.93        91.99        42.28        12.00        55.69        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FM TCGA-BH-A202 TCGA-BH-A203 
       25.81        31.53        97.48        45.63         0.72        38.60 
TCGA-BH-A208 TCGA-BH-A2L8 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
       57.83        20.12        11.93        12.66        11.77         0.07 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HK 
        3.12         1.78         0.62        12.33        11.34        12.03 
TCGA-C8-A1HM TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A146 
        2.30         0.99         0.23        11.90        13.97        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       14.17        17.49        18.90        12.03        12.03        14.01 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JT TCGA-D8-A1X6 TCGA-D8-A1X9 
       20.09        20.12        20.09        13.32        17.79        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XS TCGA-D8-A1XU 
       27.58        18.15        14.50        19.92        16.31        12.99 
TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27H 
       12.66        16.54        15.32        15.52        14.24        13.05 
TCGA-D8-A27I TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A107 TCGA-E2-A10B TCGA-E2-A14O 
       14.43        12.53        12.26        34.42        37.51        44.68 
TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 
       40.96        33.17        33.30        28.60        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15L 
       23.24        21.04        23.34        20.71        18.21        20.58 
TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B4 TCGA-E2-A1B5 
        7.73        14.07        60.53        53.62        29.95        32.35 
TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 
       17.10        33.73        33.70        22.19        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       27.42        19.66        18.87       106.75       102.61         8.75 
TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       43.04        16.93        19.89        13.48        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 
       36.56        35.77         9.86         2.10         6.12         1.38 
TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RH 
        2.76        21.21        20.81        40.24         0.66        34.59 
TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A3HO 
       23.51        17.06        27.22         0.95         0.72        26.07 
TCGA-E9-A54Y TCGA-E9-A5FL TCGA-EW-A1IY TCGA-EW-A1J3 TCGA-EW-A1J6 TCGA-EW-A1P0 
        0.23         0.26         8.48        16.57        28.77        41.13 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A3U0 
       29.82        23.11         7.86         6.15        13.94        17.49 
TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A3NW TCGA-GM-A3XL 
       10.16       109.87        53.52        42.28       110.50        69.30 
TCGA-GM-A3XN TCGA-GM-A5PV TCGA-LD-A66U TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP 
       53.95        13.55         8.28         2.99         4.70         3.25 
TCGA-LL-A6FQ TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5RW TCGA-OL-A5S0 
        2.63         5.59         6.21         2.79        26.20         9.80 
TCGA-OL-A66N TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         6.81         5.29 

$`AMP PEAK  7(5P15.33) 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-A0SM TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R 
       20.88         7.96        18.21       104.81        41.95        82.16 
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       125.59        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-A0CW TCGA-A2-A0D1 TCGA-A2-A0D3 
       75.25         5.19        63.45        64.04        34.55        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EW 
       25.22       101.72       107.61        74.40        37.05        29.75 
TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       24.16        99.19        54.64        50.43        44.28        17.52 
TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF 
        8.38        20.52        17.46        32.55        25.28        15.42 
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        14.63        23.47 
TCGA-A2-A1FZ TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C 
       22.45        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-A3XS 
       18.15        91.92        10.59        20.88        39.65        33.93 
TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3Y0 TCGA-A2-A4RY TCGA-A2-A4S0 
       83.01        14.07        49.48        38.37         8.81         8.91 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13G 
       35.31        34.29        35.47        37.45        35.67        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A3IY 
       29.56        31.36        24.26        23.74        23.80        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-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06R 
       21.17        10.72        11.05         8.75        13.02        17.98 
TCGA-A8-A06T TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I 
       41.06        53.98        33.01        19.99        18.97        14.01 
TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A082 
       12.00        17.03        10.98         8.98         7.99        18.05 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08J TCGA-A8-A08L 
       15.06        36.95         0.99        19.99        37.05         9.99 
TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A099 
       31.00        93.04        40.01        19.07        16.01         9.99 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M 
        1.02        13.02        31.00        33.07        29.98        15.02 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A7 
       19.04        15.02         0.99        19.04        21.04         0.99 
TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2BM TCGA-AC-A2FB 
       17.03        38.04         0.95         2.66        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-A3BB TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        0.92         0.99        14.83         9.40         1.12         1.81 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y 
        1.68         1.55         1.32         1.55         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.18         0.69         0.43         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AT TCGA-AN-A0FD 
        0.62         2.96         1.71         6.51         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        4.64         7.59         7.17         6.28         6.02         0.33 
TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
        0.36         0.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
        5.33         5.59        66.77        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 
       59.05        29.13        32.78        17.65        24.16        22.36 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       21.53        50.70        72.00        21.37        26.24        38.53 
TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D 
       62.04       102.58        99.25        93.70        96.10        64.04 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 
       17.79        26.93       130.09        15.62        13.22         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       49.32        37.41        56.88        64.83        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ 
       65.36        83.87        76.18        55.36        75.55        52.77 
TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       48.82        43.73        43.56        39.98        43.07        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L 
       40.83        46.32        35.24        36.26        50.89        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S 
       65.46        68.19        65.69         0.85        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       53.26        48.16        51.75        56.15        45.17        40.64 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
       93.83       128.65        20.25        40.04        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       16.96        16.04        10.59       149.59        12.13       220.90 
TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK 
      129.57        50.70        65.72       146.50       112.37        18.77 
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-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-A0WW 
      100.70        89.46       131.21       157.41        97.48        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        28.27        68.94        58.88 
TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40C 
       43.59       139.17       170.17        85.35        54.28        55.00 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 
       25.55        28.50        46.95        40.83        39.16        56.94 
TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO 
       51.68        32.02        18.21        24.85        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-A0C0 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       41.75        48.13        45.83        31.17        23.44        38.01 
TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX 
       13.91        17.26         3.22        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-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       46.19        32.65        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-A0HU TCGA-BH-A0HW TCGA-BH-A0RX TCGA-BH-A0W3 
        5.85         2.50        12.89        51.32         5.59        23.93 
TCGA-BH-A0W4 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18P 
       24.95         8.81         2.01         7.23        20.12        30.28 
TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX 
       55.63        37.55        66.05       113.82        82.85        49.58 
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-A1FN TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q 
       72.07         6.90        83.31       130.16        10.65         6.44 
TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12U 
        0.99       109.28         8.94        11.77        11.77        12.66 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 
       12.66        12.66        12.66         1.45         0.69         3.85 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HN 
        3.75        10.92        11.34         0.16        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-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Z 
        0.03         0.03         0.03        12.20         0.03        20.88 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1JA 
       13.25        20.58        14.17        13.48        19.20        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JI TCGA-D8-A1JM TCGA-D8-A1JN 
       18.71        15.78        18.15        18.97        19.40        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 
       21.01        12.20        14.70        18.58        16.73        25.74 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM 
        2.66        17.16        15.22        14.73        21.83        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1Y1 
        7.96        16.41        15.85         6.35        15.16         3.81 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27L 
       14.14        17.42        16.04        13.45         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A3Z5 
       13.48         4.80         0.76        10.09        13.08        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A 
       18.51         7.33        43.00        27.52        46.59        40.41 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R 
       40.11        28.44        28.87        47.15        38.24        38.60 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A154 
       43.33        34.26        32.02        31.96        25.41        19.43 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        25.05        22.82        17.29        21.63 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15O TCGA-E2-A15P 
       12.92        17.42        19.40         9.04        13.02        19.56 
TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       17.06        14.99        53.03        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-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A2P6 TCGA-E2-A3DX 
       39.62        24.59        40.47        28.90         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC 
        7.20        18.05        22.26        19.20        36.82        39.55 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 
       12.59        20.05        21.57        11.90        14.30         0.62 
TCGA-E9-A1RA TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 
       32.09        34.65         6.58        21.27        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-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JS 
       24.10         0.69         0.85         1.94        12.56        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5UO 
        0.76        18.41         0.62        15.72         0.39         0.23 
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-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       15.68        25.94        22.82        29.95        29.85        40.41 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB 
       39.78        52.96        18.48        30.08        18.90        19.99 
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-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 
       25.91        22.09        21.27        10.59         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK 
      194.27        53.13        43.04        42.71        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY TCGA-GM-A3XG 
       90.84        76.64        77.33        53.36        38.20        32.28 
TCGA-GM-A4E0 TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W6 
       57.63        18.12        11.84        11.57         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO 
        0.66         3.58         6.90         5.56         3.65         3.19 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LQ-A4E4 
        3.88         4.14         4.50         4.50         3.22        15.91 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       24.10        16.87        14.10        10.29        14.76        23.70 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       54.51        33.90        31.07         7.23         4.44 

  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 
                         20.61                          22.26 
[1] "0.1 - 211.6 (20.6)" "0.0 - 234.3 (22.3)"
[1] "hr=" "1.4"
D7V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  7(5P15.33) MUTATED        28       22        2        4       133
  AMP PEAK  7(5P15.33) WILD-TYPE      52       55        7        5       202
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  7(5P15.33) MUTATED          80         1         54         10
  AMP PEAK  7(5P15.33) WILD-TYPE       144         1         84         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  7(5P15.33) MUTATED           21        6         0       2
  AMP PEAK  7(5P15.33) WILD-TYPE         38       11         1      14
D7V3, multiclass
            clus
vv           AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  STAGE I                              28                             52
  STAGE IA                             22                             55
  STAGE IB                              2                              7
  STAGE II                              4                              5
  STAGE IIA                           133                            202
  STAGE IIB                            80                            144
  STAGE III                             1                              1
  STAGE IIIA                           54                             84
  STAGE IIIB                           10                             17
  STAGE IIIC                           21                             38
  STAGE IV                              6                             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    81 224  44  14
  AMP PEAK  7(5P15.33) WILD-TYPE 177 357  73  22
D7V4, multiclass
    clus
vv   AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  T1                           81                            177
  T2                          224                            357
  T3                           44                             73
  T4                           14                             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
  AMP PEAK  7(5P15.33) MUTATED   186 101  51  22
  AMP PEAK  7(5P15.33) WILD-TYPE 282 229  60  48
D7V5, multiclass
    clus
vv   AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  N0                          186                            282
  N1                          101                            229
  N2                           51                             60
  N3                           22                             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
  AMP PEAK  7(5P15.33) MUTATED          0 323   6  35
  AMP PEAK  7(5P15.33) WILD-TYPE        2 522  11  96
D7V6, multiclass
          clus
vv         AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                323                            522
  M1                                  6                             11
  MX                                 35                             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"
D7V7, binary
                                cls
clus                               0   1
  AMP PEAK  7(5P15.33) MUTATED   359   5
  AMP PEAK  7(5P15.33) WILD-TYPE 625   6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED    359    5
  AMP PEAK  7(5P15.33) WILD-TYPE  625    6
        clus
vv       AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  FEMALE                          359                            625
  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                             285
  AMP PEAK  7(5P15.33) WILD-TYPE                           450
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  7(5P15.33) MUTATED                               50
  AMP PEAK  7(5P15.33) WILD-TYPE                            116
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK  7(5P15.33) MUTATED                     2
  AMP PEAK  7(5P15.33) WILD-TYPE                   3
                                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                 12             30
D7V8, multiclass
                                  clus
vv                                 AMP PEAK  7(5P15.33) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             285
  INFILTRATING LOBULAR CARCINOMA                             50
  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                               450
  INFILTRATING LOBULAR CARCINOMA                              116
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                           12
  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   114 250
  AMP PEAK  7(5P15.33) WILD-TYPE 168 463
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED    114  250
  AMP PEAK  7(5P15.33) WILD-TYPE  168  463
     clus
vv    AMP PEAK  7(5P15.33) MUTATED AMP PEAK  7(5P15.33) WILD-TYPE
  NO                           114                            168
  YES                          250                            463
[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                          51   255
  AMP PEAK  7(5P15.33) WILD-TYPE                        86   453
D7V11, multiclass
                                  clus
vv                                 AMP PEAK  7(5P15.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      16
  BLACK OR AFRICAN AMERICAN                                  51
  WHITE                                                     255
                                  clus
vv                                 AMP PEAK  7(5P15.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        40
  BLACK OR AFRICAN AMERICAN                                    86
  WHITE                                                       453
[1] 4 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    11 294
  AMP PEAK  7(5P15.33) WILD-TYPE  25 502
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  7(5P15.33) MUTATED     11  294
  AMP PEAK  7(5P15.33) WILD-TYPE   25  502
                        clus
vv                       AMP PEAK  7(5P15.33) MUTATED
  HISPANIC OR LATINO                               11
  NOT HISPANIC OR LATINO                          294
                        clus
vv                       AMP PEAK  7(5P15.33) WILD-TYPE
  HISPANIC OR LATINO                                 25
  NOT HISPANIC OR LATINO                            502
[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   239  32
  AMP PEAK  8(6P23) WILD-TYPE 621  82
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                        271                         703 
  AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE 
                         32                          82 
$`AMP PEAK  8(6P23) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04X TCGA-A2-A0CM 
       31.79        28.01        18.02        73.84        55.43        24.79 
TCGA-A2-A0CT TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0EQ TCGA-A2-A0ET 
       75.25        56.81        21.14        33.76        79.76        35.05 
TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T7 TCGA-A2-A0YE 
       31.82        24.16        17.52         8.38        20.75        18.21 
TCGA-A2-A0YG TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       21.90        18.61        31.73        23.77        17.36        36.79 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A3XS TCGA-A2-A3XV TCGA-A2-A3XW 
       16.31        17.19        18.15        33.93        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S1 TCGA-A7-A0CD 
       38.40        34.98        38.37         7.30        12.00        38.30 
TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26I 
       35.31        30.61        35.67        31.73        12.72        21.73 
TCGA-A7-A26J TCGA-A7-A425 TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       20.61        14.70        14.50        21.17        17.92        14.73 
TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A076 
       10.29        13.02        17.98        31.00        17.03        53.98 
TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07W 
       18.97        14.01        12.00         8.98         9.96         9.99 
TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       23.08        19.99        18.05        31.00         0.99        19.07 
TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       33.99        16.01         9.99        12.00         1.02        31.00 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A2BK 
        1.02        25.02        38.04         0.95         2.37        38.53 
TCGA-AC-A2QH TCGA-AC-A3W5 TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IW TCGA-AN-A03Y 
        1.02         1.81         1.55         1.12         0.69         0.33 
TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AT 
        0.23         2.96         1.78         1.71         8.02         0.33 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        7.96         7.00         7.59         0.36         0.33         0.33 
TCGA-AN-A0XN TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A0J4 TCGA-AO-A0JD 
        0.33        80.28        47.84        66.77        17.65        72.00 
TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12B 
       26.24        55.33        71.80       102.58        96.10        77.56 
TCGA-AO-A1KS TCGA-AQ-A0Y5 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS 
        0.53         5.65         9.99        82.88         5.26        37.41 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A1AH TCGA-AR-A1AU TCGA-AR-A1AV 
       29.75        24.30        65.36        75.55        46.32        42.58 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24Q TCGA-AR-A250 TCGA-AR-A255 TCGA-AR-A2LL 
       20.22       109.58        66.05        56.15        34.82         7.36 
TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IJ TCGA-B6-A0IN 
       20.38       143.38        12.13       220.90       176.98        84.59 
TCGA-B6-A0IO TCGA-B6-A0RG TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WT 
      110.14        68.45       162.05       100.70       131.21       188.68 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A402 TCGA-B6-A408 
      113.79       186.48        43.59       101.52        54.28        49.94 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 
       55.00        38.79        20.45        25.55        39.55        56.94 
TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BT 
       37.22        25.71        24.85        44.05        48.69        45.57 
TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0DH TCGA-BH-A0DQ TCGA-BH-A0EB TCGA-BH-A0H7 
       49.05        44.02        38.01         3.22        24.49        23.08 
TCGA-BH-A0HQ TCGA-BH-A0RX TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18K TCGA-BH-A18L 
       36.85         5.59        44.81        23.05        90.84        26.66 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1F2 
        7.36        51.39        69.93        91.99        12.00        31.53 
TCGA-BH-A1FC TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 
      114.15        74.73        72.07        38.60        57.83       130.16 
TCGA-BH-A42V TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
        8.94        11.77         0.07        12.66        12.66         3.12 
TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM 
        1.45         3.75        11.34         0.16        12.03         2.30 
TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A1J8 TCGA-D8-A1JB TCGA-D8-A1JF 
       20.88        13.97        14.17        14.17        18.71        12.03 
TCGA-D8-A1JL TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL 
       20.09        18.58        23.90        21.83        14.50        19.92 
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-D8-A27V TCGA-E2-A10C TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A159 
       10.09        12.53        40.11        31.96        17.03        25.05 
TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1B0 TCGA-E2-A1IG 
       23.34        17.29         7.73        14.07        53.62        32.78 
TCGA-E2-A1II TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LL 
       33.70         3.88        22.19        18.87       102.61        43.04 
TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1N9 
       16.93         7.20        22.26        19.89        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RF 
       36.56        12.59        35.77        21.21        34.65         6.58 
TCGA-E9-A244 TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A54Y TCGA-E9-A5UO TCGA-EW-A1J6 
        0.69         0.72        26.07         0.23         0.23        28.77 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P8 
       25.94        22.82        40.41        29.82        18.48         7.86 
TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GM-A2DF 
       14.43        19.96        25.91        17.49        10.16        42.71 
TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 
        2.99         4.70         3.65         3.88         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 
        5.59         3.22        44.61        26.20        10.29         9.80 
TCGA-OL-A66I 
       23.70 

$`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       125.59        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        14.63        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         9.01         8.81         8.91         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E 
        3.42        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        41.06 
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        33.01        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 
       19.07        17.95        41.98        12.00         9.99        13.02 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       33.07        29.98        15.02         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-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 
        9.40         1.12         1.68         1.55         1.32         0.07 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A046 
        1.81         1.18         0.43         1.74         0.33         0.33 
TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        0.62         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        6.44         4.64         7.17         6.28         6.02         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-A03O TCGA-AO-A03P 
        0.33         0.33         5.33         5.59        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-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       24.16        37.48        20.32        22.36        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.70        50.86        76.77        21.37        38.53        62.04 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12E 
       99.25        93.70        94.59        90.58        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 
       70.39        17.79        24.79        26.93       130.09        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TX 
       13.22         2.56        21.86        49.32        56.88        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       55.86        76.14        70.16        83.87        76.18        55.36 
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-A1AW 
       43.56        39.98        43.07        17.23        40.83        35.24 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       36.26        50.89        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85        57.40        62.07        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        48.16        51.75        45.17        40.64        39.85 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN 
       93.83       128.65        20.25        42.87        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       20.81        16.96        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
       77.62       149.59       129.57        50.70        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      112.37        18.77       126.12       110.93       140.88       211.56 
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-A0WV TCGA-B6-A0WW 
      140.48        89.46       157.41        97.48        79.63        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        28.27        68.94        58.88 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-BH-A0AU 
       73.51       139.17       170.17        85.35        82.88        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-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       51.68        32.02        18.21        21.70        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C0 
       27.19        53.69        53.95        49.94        11.67        41.75 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI 
       48.13        42.90        45.83        31.17        23.44        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       13.91        48.23        17.26        15.65         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       45.17        47.41        16.27         4.41        15.68        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI 
        9.63        44.81        46.19        32.65        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-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W3 
       13.61        12.89        51.32        27.25        50.79        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       24.95        42.35         8.81         2.01         7.23        20.12 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
       72.56        37.74        30.28        55.63        37.55        66.05 
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-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB 
       17.69        25.81        89.16        97.48        24.66       120.62 
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-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A28O 
      144.59        72.07         6.90         0.72        83.31        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-C8-A12L TCGA-C8-A12M 
        6.44        20.12         0.99       109.28        11.93        11.77 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A131 TCGA-C8-A134 
       11.77        12.66        12.66        12.66         1.78         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HL 
        0.62         3.85        12.33        10.92        11.34        10.42 
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-A140 TCGA-D8-A141 TCGA-D8-A145 
        0.03         0.23        11.90        13.25        20.58        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD 
       21.14        19.20        17.49        16.50        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.90        12.03        14.01        18.97        20.09        20.12 
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-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       17.79        16.73        25.74        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       17.16        15.22        14.73        17.69         7.96        15.85 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       16.31        12.99        15.16        12.66        15.52         3.81 
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-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-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-A10E TCGA-E2-A10F TCGA-E2-A14N 
       46.59        40.41        37.51        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-A14Y TCGA-E2-A150 TCGA-E2-A152 
       43.33        34.26        32.02        28.60        25.41        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C 
       23.24        19.43        21.04        23.87        14.79        22.82 
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-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T 
        9.04        20.58        13.02        19.56        17.06        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       60.53        53.03        29.95        32.35        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK 
       17.10        38.30        37.41        33.73        28.44        22.65 
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-A1LK TCGA-E2-A2P6 
       24.59        40.47        28.90       106.75         8.75         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NC 
       15.72        18.05        19.20        36.82        13.48        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-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB 
        2.10         6.12         1.38         2.76        32.09        20.81 
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-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       23.51        24.10        17.06         0.85        27.22         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA 
        0.95        12.56        17.75         0.76        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       15.72         0.39         0.26        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-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-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       30.08        18.90        19.99         6.15        13.94        10.52 
TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 
       34.55        55.00        52.73        22.09        21.27        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-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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         6.67         4.60         0.66         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Z TCGA-LL-A8F5 
        5.56         3.19         3.25         2.63         4.50         6.21 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       15.91         2.79         2.10        12.66        46.55         7.53 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J 
       27.65        24.10        16.87        14.10        14.76        54.51 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       33.90        31.07        18.21         7.23         4.44         6.81 
TCGA-W8-A86G 
        5.29 

  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 
                      20.88                       21.63 
[1] "0.1 - 220.9 (20.9)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.1"
D8V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  8(6P23) MUTATED        20       12        2        1        94
  AMP PEAK  8(6P23) WILD-TYPE      60       65        7        8       241
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  8(6P23) MUTATED          66         0         43          9
  AMP PEAK  8(6P23) WILD-TYPE       158         2         95         18
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  8(6P23) MUTATED           18        5         0       4
  AMP PEAK  8(6P23) WILD-TYPE         41       12         1      12
D8V3, multiclass
            clus
vv           AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  STAGE I                           20                          60
  STAGE IA                          12                          65
  STAGE IB                           2                           7
  STAGE II                           1                           8
  STAGE IIA                         94                         241
  STAGE IIB                         66                         158
  STAGE III                          0                           2
  STAGE IIIA                        43                          95
  STAGE IIIB                         9                          18
  STAGE IIIC                        18                          41
  STAGE IV                           5                          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
  AMP PEAK  8(6P23) MUTATED    51 182  31  10
  AMP PEAK  8(6P23) WILD-TYPE 207 399  86  26
D8V4, multiclass
    clus
vv   AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  T1                        51                         207
  T2                       182                         399
  T3                        31                          86
  T4                        10                          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  8(6P23) MUTATED   125  85  39  19
  AMP PEAK  8(6P23) WILD-TYPE 343 245  72  51
D8V5, multiclass
    clus
vv   AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  N0                       125                         343
  N1                        85                         245
  N2                        39                          72
  N3                        19                          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
  AMP PEAK  8(6P23) MUTATED          0 235   5  34
  AMP PEAK  8(6P23) WILD-TYPE        2 610  12  97
D8V6, multiclass
          clus
vv         AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  CM0 (I+)                         0                           2
  M0                             235                         610
  M1                               5                          12
  MX                              34                          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"
D8V7, binary
                             cls
clus                            0   1
  AMP PEAK  8(6P23) MUTATED   273   1
  AMP PEAK  8(6P23) WILD-TYPE 711  10
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED    273    1
  AMP PEAK  8(6P23) WILD-TYPE  711   10
        clus
vv       AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  FEMALE                       273                         711
  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                             230
  AMP PEAK  8(6P23) WILD-TYPE                           505
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  8(6P23) MUTATED                               21
  AMP PEAK  8(6P23) WILD-TYPE                            145
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  8(6P23) MUTATED                     3
  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                 12             32
D8V8, multiclass
                                  clus
vv                                 AMP PEAK  8(6P23) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          230
  INFILTRATING LOBULAR CARCINOMA                          21
  MEDULLARY CARCINOMA                                      3
  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                            505
  INFILTRATING LOBULAR CARCINOMA                           145
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          24
  MUCINOUS CARCINOMA                                        12
  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    87 187
  AMP PEAK  8(6P23) WILD-TYPE 195 526
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED     87  187
  AMP PEAK  8(6P23) WILD-TYPE  195  526
     clus
vv    AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  NO                         87                         195
  YES                       187                         526
[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                          52   179
  AMP PEAK  8(6P23) WILD-TYPE                        85   529
D8V11, multiclass
                                  clus
vv                                 AMP PEAK  8(6P23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   15
  BLACK OR AFRICAN AMERICAN                               52
  WHITE                                                  179
                                  clus
vv                                 AMP PEAK  8(6P23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     41
  BLACK OR AFRICAN AMERICAN                                 85
  WHITE                                                    529
[1] 4 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    11 214
  AMP PEAK  8(6P23) WILD-TYPE  25 582
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6P23) MUTATED     11  214
  AMP PEAK  8(6P23) WILD-TYPE   25  582
                        clus
vv                       AMP PEAK  8(6P23) MUTATED AMP PEAK  8(6P23) WILD-TYPE
  HISPANIC OR LATINO                            11                          25
  NOT HISPANIC OR LATINO                       214                         582
[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   159  27
  AMP PEAK  9(6Q21) WILD-TYPE 701  87
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                        186                         788 
  AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE 
                         27                          87 
$`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         9.01        12.00        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        23.08 
TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A09B 
       19.99         9.99        31.00         0.99        19.07        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        17.65 
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        37.41        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AU TCGA-AR-A1AV 
       24.30        65.36        70.16        61.84        46.32        42.58 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24Q TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LL 
       20.22       109.58        66.05        45.17        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-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1RF TCGA-E9-A248 
       22.26        19.89        12.00        13.12         6.58         1.94 
TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 
        0.72        26.07         0.62        25.94        22.82        29.82 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 
       18.48        30.08         7.86        17.49        10.16       109.87 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LL-A5YN TCGA-LL-A6FR 
       53.13        42.71        42.28        69.30         3.65         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7T0 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5S0 
        4.14         4.50         3.22        44.61        26.20         9.80 

$`AMP PEAK  9(6Q21) 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-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       20.88         7.96        39.32        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        82.16        73.84        22.06        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      125.59        64.57       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-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO 
       34.55        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-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       29.75        24.72        54.64        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
       44.28        17.13        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-A0YH 
       20.75        32.55        25.28        15.42        21.90        21.67 
TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV 
       14.50        19.33        14.63        31.73        23.77        23.47 
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-A25C TCGA-A2-A25D TCGA-A2-A25E 
       52.47       107.70        16.31        17.19        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        14.07 
TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 
       49.48        31.99        38.37         7.30         8.81         8.91 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
        6.74         3.42        38.30        34.29        35.47        30.61 
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-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-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-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A56D TCGA-A7-A5ZW 
       13.41        11.97        14.93        13.74        14.73        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O 
       11.05        10.29         9.37        10.42         8.75        13.02 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A06Z 
       13.02         1.02        17.98        41.06        26.01         1.02 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07I 
       53.98         9.01        33.01        19.99        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         9.96 
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-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08T 
       18.05        19.96        12.00        37.05        31.00        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       33.99        40.01        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E 
       12.00         9.99         9.99         1.02        13.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       33.07        29.98        15.02        25.02         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-A0AD TCGA-AC-A23G TCGA-AC-A23H 
       21.04         0.99        13.02        38.04        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-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       38.79        26.04        50.70         1.02         0.92         2.27 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 
        0.99         0.69        14.83         9.40         1.12         1.81 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y 
        1.68         1.55         1.32         1.55         0.07         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 
        1.18         0.69         0.43         1.74         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-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN 
        0.33         0.33         6.44         4.64         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ 
        6.28         6.02         0.33         0.36         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-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03R 
        5.33        80.28        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-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-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       50.86        72.00        76.77        21.37        26.24        38.53 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       62.04        55.33        71.80        99.25        93.70        94.59 
TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO 
       90.58        64.04        57.30        48.36        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       82.62        61.87        17.79        24.79        15.62        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        2.56        21.86         9.99        82.88        49.32         5.26 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       64.83        55.86        76.14        83.87        76.18        55.36 
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-A1AW 
       43.56        39.98        43.07        17.23        40.83        35.24 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       36.26        50.89        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85        57.40        62.07        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 
       50.96        48.16        51.75        56.15        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN 
       34.82       128.65        20.25        42.87        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       20.81        16.96        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       77.62       143.38       149.59       220.90       129.57        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-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-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-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-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-A408 TCGA-B6-A40B 
       73.51       139.17       170.17        85.35        49.94        82.88 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       55.00        24.53        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.98        51.68        37.22        32.02        18.21 
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-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 
       53.95        45.57        49.94        11.67        49.05        41.75 
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-A0E0 TCGA-BH-A0E1 
        2.56        38.47        45.17        47.41         4.41        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI 
       14.30        44.81        46.19        32.65        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-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       23.08        41.00        52.96        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY 
        2.50        13.61        12.89        51.32        27.25        50.79 
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-A18K TCGA-BH-A18L 
        8.81         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-A18T 
       72.56        37.74        30.28        37.55        66.05         7.36 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW 
       51.16        69.93       113.82        82.85        42.28        55.69 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       49.58        17.69        31.53        89.16        24.66       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
      114.15        33.17       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-A204 
       45.63       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-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12V 
       11.77        11.77        12.66        11.77        12.66        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-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-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y 
       10.42         3.25         0.30         0.23         0.36         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 
        8.28         9.67         0.03         0.03        12.20         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 
        0.23        11.90        13.25        20.58        13.48        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-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN 
       12.03        14.01        18.97        20.12        19.40        20.38 
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-A1XF TCGA-D8-A1XG 
       23.90        27.58        18.15         2.66        15.22        14.73 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       19.92        17.69         7.96        15.85        16.31         6.35 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       12.99        15.16        12.66        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
       14.14        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-A27T 
       16.41        13.48         4.80         0.76        10.09        13.08 
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-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14W 
       47.15        44.68        38.24        33.17        43.33        32.02 
TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 
       28.60        27.12        23.24        19.43        23.87        14.79 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G 
       23.34        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-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-A1AZ TCGA-E2-A1B1 
       19.56        17.06        14.07        14.99        60.53        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-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-A1LI TCGA-E2-A1LK TCGA-E2-A1LL 
       40.47        28.90        18.87       102.61         8.75        43.04 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 
        5.52        15.72         7.20        18.05        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-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-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-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-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-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
       27.22         0.95        12.56        17.75         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE 
       15.72         0.23         0.39         0.26         0.23        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-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       16.57        15.68        28.77        29.95        29.85        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1PA TCGA-EW-A1PB 
       41.13        39.78        52.96        23.11        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-A424 
       55.00        52.73        25.91        22.09        21.27        10.59 
TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI 
        7.40        59.57       194.27        53.52        43.04        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-A5PV TCGA-GM-A5PX 
       38.20        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       11.84        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO 
        2.99         3.58         6.90         5.56         4.70         3.19 
TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LQ-A4E4 
        3.25         2.63         4.50         5.59         6.21        15.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RU 
        2.79         2.10        12.66        46.55         7.53        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       24.10        16.87        14.10        10.29        14.76        23.70 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       54.51        33.90        31.07        18.21         7.23         4.44 
TCGA-S3-A6ZG TCGA-W8-A86G 
        6.81         5.29 

  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 
                     20.665                      21.685 
[1] "0.0 - 130.1 (20.7)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.7"
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      69       71        7        8       254
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  9(6Q21) MUTATED          45         0         25          2
  AMP PEAK  9(6Q21) WILD-TYPE       179         2        113         25
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK  9(6Q21) MUTATED            7        4         0       2
  AMP PEAK  9(6Q21) WILD-TYPE         52       13         1      14
D9V3, multiclass
            clus
vv           AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  STAGE I                           11                          69
  STAGE IA                           6                          71
  STAGE IB                           2                           7
  STAGE II                           1                           8
  STAGE IIA                         81                         254
  STAGE IIB                         45                         179
  STAGE III                          0                           2
  STAGE IIIA                        25                         113
  STAGE IIIB                         2                          25
  STAGE IIIC                         7                          52
  STAGE IV                           4                          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
  AMP PEAK  9(6Q21) MUTATED    30 135  19   3
  AMP PEAK  9(6Q21) WILD-TYPE 228 446  98  33
D9V4, multiclass
    clus
vv   AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  T1                        30                         228
  T2                       135                         446
  T3                        19                          98
  T4                         3                          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  9(6Q21) MUTATED   101  53  23   8
  AMP PEAK  9(6Q21) WILD-TYPE 367 277  88  62
D9V5, multiclass
    clus
vv   AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  N0                       101                         367
  N1                        53                         277
  N2                        23                          88
  N3                         8                          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  9(6Q21) MUTATED          0 162   4  21
  AMP PEAK  9(6Q21) WILD-TYPE        2 683  13 110
D9V6, multiclass
          clus
vv         AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  CM0 (I+)                         0                           2
  M0                             162                         683
  M1                               4                          13
  MX                              21                         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"
D9V7, binary
                             cls
clus                            0   1
  AMP PEAK  9(6Q21) MUTATED   186   1
  AMP PEAK  9(6Q21) WILD-TYPE 798  10
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED    186    1
  AMP PEAK  9(6Q21) WILD-TYPE  798   10
        clus
vv       AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  FEMALE                       186                         798
  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                             160
  AMP PEAK  9(6Q21) WILD-TYPE                           575
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  AMP PEAK  9(6Q21) MUTATED                               13
  AMP PEAK  9(6Q21) WILD-TYPE                            153
                             vv
clus                          MEDULLARY CARCINOMA
  AMP PEAK  9(6Q21) MUTATED                     3
  AMP PEAK  9(6Q21) WILD-TYPE                   2
                             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                 14             35
D9V8, multiclass
                                  clus
vv                                 AMP PEAK  9(6Q21) MUTATED
  INFILTRATING CARCINOMA NOS                               1
  INFILTRATING DUCTAL CARCINOMA                          160
  INFILTRATING LOBULAR CARCINOMA                          13
  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                            575
  INFILTRATING LOBULAR CARCINOMA                           153
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          28
  MUCINOUS CARCINOMA                                        14
  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    58 129
  AMP PEAK  9(6Q21) WILD-TYPE 224 584
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED     58  129
  AMP PEAK  9(6Q21) WILD-TYPE  224  584
     clus
vv    AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  NO                         58                         224
  YES                       129                         584
[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                          35   125
  AMP PEAK  9(6Q21) WILD-TYPE                       102   583
D9V11, multiclass
                                  clus
vv                                 AMP PEAK  9(6Q21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                    9
  BLACK OR AFRICAN AMERICAN                               35
  WHITE                                                  125
                                  clus
vv                                 AMP PEAK  9(6Q21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     47
  BLACK OR AFRICAN AMERICAN                                102
  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"
D9V12, binary
                             cls
clus                            0   1
  AMP PEAK  9(6Q21) MUTATED     7 147
  AMP PEAK  9(6Q21) WILD-TYPE  29 649
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q21) MUTATED      7  147
  AMP PEAK  9(6Q21) WILD-TYPE   29  649
                        clus
vv                       AMP PEAK  9(6Q21) MUTATED AMP PEAK  9(6Q21) WILD-TYPE
  HISPANIC OR LATINO                             7                          29
  NOT HISPANIC OR LATINO                       147                         649
[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   316  57
  AMP PEAK 10(8P11.23) WILD-TYPE 544  57
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                           373                            601 
  AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE 
                            57                             57 
$`AMP PEAK 10(8P11.23) MUTATED`
TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A2-A04N 
       43.43        48.10        14.27        13.68        31.79       104.81 
TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT TCGA-A2-A0CU 
       73.84        63.12        24.79        92.48        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
       63.45        21.14        34.55        33.76        28.77        25.22 
TCGA-A2-A0EO TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW 
       80.28        74.40        37.05        34.29        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 
       24.72        27.12        44.88         8.38        18.71        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YK TCGA-A2-A0YT TCGA-A2-A1FV 
       18.90        18.21        21.67        19.33        23.77        23.47 
TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25D TCGA-A2-A3XT 
       36.79        20.25        19.20        19.56        18.15        83.01 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
        9.01         8.81        12.00         6.74         3.42        38.30 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A26H 
       30.61        37.45        10.72        12.72        24.26        23.80 
TCGA-A7-A26I TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A5ZV 
       21.73        10.59        10.29        11.97        14.50        12.10 
TCGA-A7-A5ZW TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Y 
       10.72        13.02         1.02        17.98        29.03        26.01 
TCGA-A8-A076 TCGA-A8-A07F TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07W TCGA-A8-A082 
       53.98        18.97        17.03        10.98         9.99        18.05 
TCGA-A8-A086 TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08R 
       13.02        19.99        18.05        19.96        31.00         0.99 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A 
       93.04        40.01        19.07        17.95        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q 
       12.00         1.02        31.00        29.98        15.02        25.02 
TCGA-A8-A09R TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E 
        8.98        14.01        19.04        13.02        17.03         2.37 
TCGA-AC-A23G TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3QP TCGA-AC-A3YI 
       10.85        38.20        26.04        50.70         9.40         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A0FD 
        0.07         1.12         0.69         0.43         0.33         6.44 
TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN 
        7.00         0.36         0.33         0.33         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A0J2 
       12.33         0.33         5.33        81.63        68.75        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD 
       21.40        24.16        20.32        21.53        50.70        72.00 
TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A12E 
       38.53        55.33        71.80        94.59        77.56        57.30 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A1H3 TCGA-AQ-A54N 
       82.62        61.87         0.53        17.79        13.22         2.56 
TCGA-AQ-A54O TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U2 TCGA-AR-A0U3 
       21.86        37.41        24.30        55.86        83.87        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AR 
       55.36        75.55        61.84        52.77        43.07        17.23 
TCGA-AR-A1AU TCGA-AR-A24H TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A250 
       46.32       109.58        57.40        54.18        50.96        56.15 
TCGA-AR-A256 TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP 
       93.83        20.25        42.87        20.81        16.04        20.45 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IH TCGA-B6-A0IJ 
      143.38       149.59       220.90       129.57       112.37       176.98 
TCGA-B6-A0IM TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RP TCGA-B6-A0RV 
      126.12        68.45        81.17        78.02       102.77       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY 
       97.48       188.68        79.63        17.98        21.47       113.79 
TCGA-B6-A0X1 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
      186.48        68.94        43.59       139.17       170.17        85.35 
TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0B2 TCGA-BH-A0BA TCGA-BH-A0BD 
       49.94        24.53        25.55        40.83        37.22        18.21 
TCGA-BH-A0BT TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP 
       45.57        49.05        44.02        22.13        48.23        15.65 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0EI 
        2.56        38.47        15.68        14.30         9.63        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0HQ 
       30.35        10.78        24.56        23.08        26.50        36.85 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       51.32        27.25        50.79        42.35        44.81        23.05 
TCGA-BH-A18I TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES 
        7.23        66.05        51.39        69.93        91.99       113.82 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       42.28        12.00        49.58        25.81        31.53        89.16 
TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A201 
       24.66       114.15        33.17        36.92        45.63         6.90 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-BH-A42V 
       38.60        83.31        57.83       130.16         0.99         8.94 
TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77        12.66        11.77        12.66        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN 
        1.45        11.34        11.34        12.03         2.30         3.25 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z 
        8.28         9.67        12.20         0.23        11.90        20.88 
TCGA-D8-A141 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI 
       20.58        19.20        15.78        12.03        14.01        18.97 
TCGA-D8-A1JL TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1XB TCGA-D8-A1XD 
       20.09        13.32        14.70        17.79        18.15        17.16 
TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y1 
       15.22        14.50         6.35        16.54        15.32         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27I TCGA-D8-A27L TCGA-D8-A27R TCGA-D8-A27V 
       14.24        14.14        14.43        16.41        10.09        12.53 
TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C 
       12.26        43.00        34.42        46.59        40.41        40.11 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14T TCGA-E2-A154 TCGA-E2-A159 
       47.15        44.68        40.96        33.30        19.43        25.05 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15M TCGA-E2-A15O 
       23.34        22.82        17.29        21.63         7.73        13.02 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B6 
       17.06        14.07        14.99        60.53        53.62        28.50 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN 
       17.10        38.30        32.78        33.73        33.70        22.19 
TCGA-E2-A1L6 TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 
       54.18        18.87         8.75        16.93         7.20        22.26 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1R2 TCGA-E9-A1R3 
       36.82        13.48        13.12        35.77         0.62         2.10 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A228 
        2.76        32.09        20.81        40.24        34.65        12.53 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A295 
       39.09        22.75        12.89        17.06        27.22         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1IX 
       17.75         0.76        15.72         0.23         0.39        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         0.66         3.65         4.50         5.59         3.22 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66N TCGA-S3-A6ZG 
        7.53        44.61        23.70        54.51        18.21         6.81 
TCGA-W8-A86G 
        5.29 

$`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       125.59        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        14.63        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        14.07 
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 
        8.91        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        41.06        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        33.01        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         9.96 
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        23.08        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        19.07        33.99        16.01 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09T 
       41.98         9.99        13.02        33.07         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         1.81         1.68 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A8OP TCGA-AN-A03Y 
        1.32         1.55         1.81         1.18         1.74         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-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        8.02         7.36         6.51         0.16         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         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-A0XS 
        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-A0J6 TCGA-AO-A0J8 
       47.87        59.05        29.13        17.65        37.48        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ 
       53.03        50.86        76.77        21.37        26.24        62.04 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D 
      102.58        99.25        93.70        96.10        90.58        64.04 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AQ-A04H 
       48.36        41.62        28.37        14.73        70.39        24.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A7U7 TCGA-AR-A0TP 
       26.93       130.09         5.65        15.62         9.99        82.88 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TZ 
       49.32         5.26        56.88        29.75        64.83        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       65.36        70.16        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.56        39.98        40.83        42.58        35.24        36.26 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22        50.89        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X 
        0.85        66.05        62.07        53.26        53.36        48.16 
TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       51.75        45.17        40.64        39.85        34.82       128.65 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
        7.36        40.04        17.10        16.96        20.38        54.74 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
       10.59        77.62        12.13        50.70        65.72       146.50 
TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
       18.77        84.59       110.14       110.93       140.88       211.56 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS 
      189.01       234.28       172.96       162.05       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X7 
       89.46       131.21       129.57       129.70        28.27        58.88 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
      101.52        73.51        54.28        82.88        55.00        38.79 
TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       20.45        28.50        46.95        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BG 
       56.94        56.98        51.68        32.02        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-A0BW TCGA-BH-A0C0 TCGA-BH-A0C3 
       53.69        53.95        49.94        11.67        41.75        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK 
       42.90        45.83        31.17        23.44        38.01        13.91 
TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 
       17.26         3.22        45.17        47.41        16.27         4.41 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H0 
       44.81        46.19        32.65        24.49        31.00        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK 
       37.78        35.51        41.00        52.96        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
        2.50        13.61        12.89         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-A18T TCGA-BH-A18V 
       37.74        30.28        55.63        37.55         7.36        51.16 
TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FE 
       82.85        55.69        17.69        97.48       120.62        74.73 
TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU 
      122.89        63.35        55.00        72.07       144.59        72.07 
TCGA-BH-A202 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-C8-A12L 
        0.72        10.65         6.44        20.12       109.28        11.93 
TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A134 
       11.77         0.07        12.66         3.12         1.78         0.69 
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-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A274 
       10.42         0.30         0.23         0.36         0.43         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A140 TCGA-D8-A142 
        0.03         0.03         0.99         0.03        13.25        13.97 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       14.17        13.48        21.14        14.17        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.71        18.15        18.90        12.03        20.09        20.12 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1X5 TCGA-D8-A1X7 
       19.40        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-A1Y0 TCGA-D8-A27E TCGA-D8-A27F 
       12.99        15.16        12.66        15.52        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       13.45        13.05         9.44        13.48         4.80         0.76 
TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10B 
       13.08        14.50        18.51         7.33        27.52        37.51 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U 
       28.44        28.87        38.24        38.60        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       34.26        32.02        31.96        28.60        17.03        25.41 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15E 
       27.12        23.24        21.04        23.87        14.79        20.71 
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-A15P TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1IF 
       19.56        53.03        29.95        32.35        16.47        37.41 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L7 
       28.44        22.65         3.88        20.98        11.08        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-A1LI TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 
      102.61        43.04         5.52        15.72        18.05        19.89 
TCGA-E9-A1N4 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       19.20        12.00        36.56        39.55        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 
       21.57         9.86        11.90        14.30         6.12         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI 
       21.21         0.66         6.58        21.27        34.59        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A244 
       34.13         0.79        13.32        23.51        24.10         0.69 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A3HO TCGA-E9-A3Q9 
        0.85         1.94         0.95        12.56        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IZ 
        0.62         0.26         0.23        15.39        12.20        18.21 
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-A1OY TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 
       29.85        39.78        52.96        29.82        18.48        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FS 
        7.86        13.94        10.52        14.43        34.55        52.73 
TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 
       25.91        22.09        21.27        17.49        10.16        10.59 
TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI 
      109.87       194.27        53.13        43.04        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG 
       62.33        90.84        76.64        77.33        38.20        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        8.28         6.67         2.99         3.58         6.90         5.56 
TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        4.70         3.19         3.25         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        4.50         6.21        15.91         2.79         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       46.55        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O 
       10.29         9.80        14.76        33.90        31.07         7.23 
TCGA-OL-A66P 
        4.44 

  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 
                         21.67                          21.21 
[1] "0.1 - 220.9 (21.7)" "0.0 - 234.3 (21.2)"
[1] "hr=" "1.5"
D10V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 10(8P11.23) MUTATED        23       25        4        2       129
  AMP PEAK 10(8P11.23) WILD-TYPE      57       52        5        7       206
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 10(8P11.23) MUTATED          83         2         52         15
  AMP PEAK 10(8P11.23) WILD-TYPE       141         0         86         12
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 10(8P11.23) MUTATED           26       11         0       8
  AMP PEAK 10(8P11.23) WILD-TYPE         33        6         1       8
D10V3, multiclass
            clus
vv           AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  STAGE I                              23                             57
  STAGE IA                             25                             52
  STAGE IB                              4                              5
  STAGE II                              2                              7
  STAGE IIA                           129                            206
  STAGE IIB                            83                            141
  STAGE III                             2                              0
  STAGE IIIA                           52                             86
  STAGE IIIB                           15                             12
  STAGE IIIC                           26                             33
  STAGE IV                             11                              6
  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    95 225  42  17
  AMP PEAK 10(8P11.23) WILD-TYPE 163 356  75  19
D10V4, multiclass
    clus
vv   AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  T1                           95                            163
  T2                          225                            356
  T3                           42                             75
  T4                           17                             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
  AMP PEAK 10(8P11.23) MUTATED   161 136  45  31
  AMP PEAK 10(8P11.23) WILD-TYPE 307 194  66  39
D10V5, multiclass
    clus
vv   AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  N0                          161                            307
  N1                          136                            194
  N2                           45                             66
  N3                           31                             39
[1] 4 2
[1] 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          1 327  11  41
  AMP PEAK 10(8P11.23) WILD-TYPE        1 518   6  90
D10V6, multiclass
          clus
vv         AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                327                            518
  M1                                 11                              6
  MX                                 41                             90
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V7, binary
                                cls
clus                               0   1
  AMP PEAK 10(8P11.23) MUTATED   377   3
  AMP PEAK 10(8P11.23) WILD-TYPE 607   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED    377    3
  AMP PEAK 10(8P11.23) WILD-TYPE  607    8
        clus
vv       AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  FEMALE                          377                            607
  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                             288
  AMP PEAK 10(8P11.23) WILD-TYPE                           447
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 10(8P11.23) MUTATED                               56
  AMP PEAK 10(8P11.23) WILD-TYPE                            110
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 10(8P11.23) MUTATED                     3
  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                  9             28
D10V8, multiclass
                                  clus
vv                                 AMP PEAK 10(8P11.23) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             288
  INFILTRATING LOBULAR CARCINOMA                             56
  MEDULLARY CARCINOMA                                         3
  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                               447
  INFILTRATING LOBULAR CARCINOMA                              110
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             19
  MUCINOUS CARCINOMA                                            9
  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   110 270
  AMP PEAK 10(8P11.23) WILD-TYPE 172 443
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED    110  270
  AMP PEAK 10(8P11.23) WILD-TYPE  172  443
     clus
vv    AMP PEAK 10(8P11.23) MUTATED AMP PEAK 10(8P11.23) WILD-TYPE
  NO                           110                            172
  YES                          270                            443
[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                          52   266
  AMP PEAK 10(8P11.23) WILD-TYPE                        85   442
D10V11, multiclass
                                  clus
vv                                 AMP PEAK 10(8P11.23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  52
  WHITE                                                     266
                                  clus
vv                                 AMP PEAK 10(8P11.23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    85
  WHITE                                                       442
[1] 4 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    12 308
  AMP PEAK 10(8P11.23) WILD-TYPE  24 488
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.23) MUTATED     12  308
  AMP PEAK 10(8P11.23) WILD-TYPE   24  488
                        clus
vv                       AMP PEAK 10(8P11.23) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          308
                        clus
vv                       AMP PEAK 10(8P11.23) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            488
[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   330  52
  AMP PEAK 11(8P11.21) WILD-TYPE 530  62
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                           382                            592 
  AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE 
                            52                             62 
$`AMP PEAK 11(8P11.21) MUTATED`
TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04N 
       43.43        14.27        13.68        31.79        28.01       104.81 
TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT TCGA-A2-A0CU 
       73.84        63.12        24.79        92.48        75.25         5.19 
TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       63.45        56.81        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-A0EX TCGA-A2-A0SW TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0T6 
       24.72        44.88         8.38        18.71        17.46        18.90 
TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV 
       18.21        21.67        18.61        31.73        23.77        23.47 
TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25D TCGA-A2-A3XT 
       36.79        20.25        19.20        19.56        18.15        83.01 
TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S1 
       29.98        38.40        38.37         9.01         8.81        12.00 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A13E TCGA-A7-A13F 
        6.74         3.42        38.30        30.61        10.72        12.72 
TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3J0 TCGA-A7-A426 
       24.26        23.80        21.73        20.61        10.29        11.97 
TCGA-A7-A4SD TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P 
       14.50        12.10        10.72        10.42        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I 
        1.02        26.01        53.98        33.01        18.97        14.01 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A082 
       17.03         9.99        10.98         8.98         9.99        18.05 
TCGA-A8-A086 TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08R TCGA-A8-A08S 
       13.02        19.99        18.05        19.96         0.99        19.07 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A09A TCGA-A8-A09B 
       40.01        19.07        16.01        17.95         9.99        12.00 
TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09X TCGA-A8-A0A2 
        1.02        31.00        33.07        15.02        14.01        19.04 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2BM TCGA-AC-A2FM 
       13.02        17.03         2.37        10.85        38.20        26.04 
TCGA-AC-A3QP TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AN-A03X 
        9.40         1.55         0.07         1.12         0.69         0.33 
TCGA-AN-A03Y TCGA-AN-A0AS TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        0.33         0.33         7.00         0.36         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS 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-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JA 
       68.75        32.78        21.40        37.48        20.32        21.53 
TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12B 
       72.00        55.33        71.80        93.70        94.59        77.56 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04L 
       82.62        61.87        70.39         0.53        24.79       130.09 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TX 
       13.22         2.56        21.86        37.41        24.30        64.83 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ 
       76.18        55.36        75.55        61.84        52.77        43.07 
TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24R 
       17.23        46.32        36.26        20.22       109.58        57.40 
TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL 
       50.96        51.75        45.17        20.25        42.87         7.36 
TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       20.81        20.38        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM 
      149.59       220.90       129.57       112.37       176.98       126.12 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RP TCGA-B6-A0RU 
      211.56        68.45        81.17        78.02       102.77       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0X1 
      157.41        97.48       188.68        17.98        21.47       186.48 
TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       68.94        43.59       101.52       139.17       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AY TCGA-BH-A0B2 TCGA-BH-A0BA TCGA-BH-A0BD 
       54.28        49.94        25.55        40.83        37.22        18.21 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DL 
       45.57        49.94        49.05        41.75        44.02        48.23 
TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 
       15.65         2.56        38.47        15.68         9.63        44.81 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HB 
       30.35        10.78        15.16        24.56        23.08        26.50 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W5 
       36.85        12.89        51.32        27.25        50.79        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1EO 
       44.81        23.05         7.23        66.05         7.36        91.99 
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-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FM 
       89.16       120.62       114.15        33.17       122.89        45.63 
TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A42T 
       72.07         6.90         0.72        83.31       130.16         0.99 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A132 
        8.94        11.77        12.66        12.66        12.66         1.45 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Z 
       11.34        11.34         2.30         3.25         0.36         8.28 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A141 
        0.03        12.20         0.99         0.23        11.90        20.58 
TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI 
       14.17        19.20        15.78        12.03        14.01        18.97 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       20.12        20.09        19.40        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-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27I TCGA-D8-A27M TCGA-D8-A27R 
        3.81        14.24        14.14        14.43        13.48        10.09 
TCGA-D8-A27V TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A14N 
       12.53        34.42        46.59        40.41        40.11        47.15 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A154 
       44.68        40.96        33.17        43.33        31.96        19.43 
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-A15M TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B6 
        7.73        17.06        14.07        60.53        53.62        28.50 
TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1LG 
       17.10        38.30        32.78        33.70        22.19        18.87 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 
      102.61         8.75        16.93         7.20        22.26        19.89 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1R2 TCGA-E9-A1R3 
       36.82        13.48        13.12        35.77         0.62         2.10 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF 
        2.76        32.09        20.81        40.24        34.65         6.58 
TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3QA 
       17.06        27.22         0.72        17.75         0.76         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1IY TCGA-EW-A1J1 TCGA-EW-A1J6 
       15.72         0.23         0.39         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-A7W6 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ 
        4.60         4.70         3.25         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A66I 
        3.22         6.21        46.55         7.53        44.61        23.70 
TCGA-OL-A66J TCGA-OL-A66N TCGA-S3-A6ZG TCGA-W8-A86G 
       54.51        18.21         6.81         5.29 

$`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       125.59        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        14.63        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        14.07        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         8.91        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        41.06        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         9.96 
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        23.08        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        33.99 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N 
       41.98        12.00         9.99        13.02        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         1.81         1.68         1.32         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A046 
        1.81         1.18         0.43         1.74         0.23         0.33 
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-A0AT TCGA-AN-A0FD TCGA-AN-A0FF 
        6.51         0.16         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        7.96         7.59         7.17         6.28         6.02         0.33 
TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XW 
        0.33         0.30         0.33         0.33         0.33         5.59 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03U 
       80.28        47.84        66.77        84.69        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB 
       29.13        17.65        24.16        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        38.53        62.04 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12E 
      102.58        99.25        96.10        90.58        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KT TCGA-AQ-A04J 
       48.36        41.62        28.37        14.73        17.79        26.93 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        5.65        15.62         9.99        82.88        49.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       56.88        29.75        55.86        76.14        65.36        70.16 
TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       83.87        51.25        48.82        62.56        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24L 
       39.98        40.83        42.58        35.24        50.89        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S 
       65.46        68.19        65.69         0.85        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 
       53.26        53.36        54.18        48.16        56.15        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LM TCGA-AR-A2LN 
       39.85        34.82        93.83       128.65        40.04        17.10 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-B6-A0I9 TCGA-B6-A0IC TCGA-B6-A0IE 
       16.96        54.74        16.04        12.13        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ 
      146.50        18.77        84.59       110.14       110.93       140.88 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS 
      189.01       234.28       172.96       162.05       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
       89.46        79.63       113.79       129.57       129.70        28.27 
TCGA-B6-A0X7 TCGA-B6-A1KI TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV 
       58.88        73.51        82.88        55.00        24.53        38.79 
TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       20.45        28.50        46.95        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BG 
       56.94        56.98        51.68        32.02        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-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       53.69        53.95        11.67        48.13        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO 
       31.17        23.44        38.01        22.13        13.91        17.26 
TCGA-BH-A0DQ TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 
        3.22        45.17        47.41        16.27         4.41        14.30 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H3 
       46.19        32.65        24.49        31.00        24.43        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       35.51        41.00        52.96        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A18F TCGA-BH-A18G 
       13.61         5.59        23.93        24.95         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-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES 
       55.63        37.55        51.39        51.16        69.93       113.82 
TCGA-BH-A1ET TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FE TCGA-BH-A1FH 
       82.85        17.69        97.48        24.66        74.73        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A203 TCGA-BH-A208 
       63.35        55.00       144.59        72.07        38.60        57.83 
TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-C8-A12L TCGA-C8-A12N 
       10.65         6.44        20.12       109.28        11.93        11.77 
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-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-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y 
        0.16        12.03        10.42         0.30         0.23         0.43 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 
        9.67         0.03         0.03         0.03        20.88        13.25 
TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.97        13.48        21.14        14.17        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JN 
       18.71        18.15        18.90        12.03        20.09        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       21.01        12.20        18.58        16.73        25.74        23.90 
TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM 
       27.58         2.66        14.73        21.83        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV 
        7.96        16.41        15.85        16.31        12.99        15.16 
TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G 
       12.66        15.32        15.52        17.42        16.04        13.45 
TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
       13.05         9.44        16.41         4.80         0.76        13.08 
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-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14T 
       37.51        28.44        28.87        38.24        38.60        33.30 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       34.26        32.02        28.60        17.03        25.41        27.12 
TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15G TCGA-E2-A15H 
       23.24        21.04        23.87        14.79        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-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1IF 
       14.99        53.03        29.95        32.35        16.47        37.41 
TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU 
       33.73        28.44        22.65         3.88        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-A1LH TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
       28.90       106.75        43.04         5.52        15.72        18.05 
TCGA-E9-A1N4 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       19.20        12.00        36.56        39.55        12.59        20.05 
TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 
       21.57         9.86        11.90        14.30         6.12         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 
       21.21         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-A249 
       23.51        24.10         0.69         0.85         1.94         0.95 
TCGA-E9-A24A TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE 
       12.56        26.07        18.41         0.26         0.23        15.39 
TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       12.20        39.72        18.21        13.25        16.57        15.68 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P7 
       25.94        22.82        29.95        39.78        29.82        30.08 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        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-A2DA TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       10.59       194.27        53.13        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY TCGA-GM-A3XG 
       90.84        76.64        77.33        53.36        38.20        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         6.67         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Z 
        5.56         3.65         3.19         2.63         3.88         4.50 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5RU TCGA-OL-A5RV 
       15.91         2.79         2.10        12.66        27.65        24.10 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H 
       26.20        16.87        14.10        10.29         9.80        14.76 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       33.90        31.07         7.23         4.44 

  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 
                        20.810                         21.865 
[1] "0.0 - 220.9 (20.8)" "0.0 - 234.3 (21.9)"
[1] "hr=" "1.1"
D11V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 11(8P11.21) MUTATED        29       28        4        4       139
  AMP PEAK 11(8P11.21) WILD-TYPE      51       49        5        5       196
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 11(8P11.21) MUTATED          80         2         54         12
  AMP PEAK 11(8P11.21) WILD-TYPE       144         0         84         15
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 11(8P11.21) MUTATED           24        6         0       8
  AMP PEAK 11(8P11.21) WILD-TYPE         35       11         1       8
D11V3, multiclass
            clus
vv           AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  STAGE I                              29                             51
  STAGE IA                             28                             49
  STAGE IB                              4                              5
  STAGE II                              4                              5
  STAGE IIA                           139                            196
  STAGE IIB                            80                            144
  STAGE III                             2                              0
  STAGE IIIA                           54                             84
  STAGE IIIB                           12                             15
  STAGE IIIC                           24                             35
  STAGE IV                              6                             11
  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    98 233  44  13
  AMP PEAK 11(8P11.21) WILD-TYPE 160 348  73  23
D11V4, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  T1                           98                            160
  T2                          233                            348
  T3                           44                             73
  T4                           13                             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 11(8P11.21) MUTATED   185 126  44  28
  AMP PEAK 11(8P11.21) WILD-TYPE 283 204  67  42
D11V5, multiclass
    clus
vv   AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  N0                          185                            283
  N1                          126                            204
  N2                           44                             67
  N3                           28                             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          1 340   6  43
  AMP PEAK 11(8P11.21) WILD-TYPE        1 505  11  88
D11V6, multiclass
          clus
vv         AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                340                            505
  M1                                  6                             11
  MX                                 43                             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V7, binary
                                cls
clus                               0   1
  AMP PEAK 11(8P11.21) MUTATED   387   3
  AMP PEAK 11(8P11.21) WILD-TYPE 597   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED    387    3
  AMP PEAK 11(8P11.21) WILD-TYPE  597    8
        clus
vv       AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  FEMALE                          387                            597
  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                             306
  AMP PEAK 11(8P11.21) WILD-TYPE                           429
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                               48
  AMP PEAK 11(8P11.21) WILD-TYPE                            118
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 11(8P11.21) MUTATED                     4
  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                 10             27
D11V8, multiclass
                                  clus
vv                                 AMP PEAK 11(8P11.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             306
  INFILTRATING LOBULAR CARCINOMA                             48
  MEDULLARY CARCINOMA                                         4
  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                               429
  INFILTRATING LOBULAR CARCINOMA                              118
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                           10
  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   118 272
  AMP PEAK 11(8P11.21) WILD-TYPE 164 441
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED    118  272
  AMP PEAK 11(8P11.21) WILD-TYPE  164  441
     clus
vv    AMP PEAK 11(8P11.21) MUTATED AMP PEAK 11(8P11.21) WILD-TYPE
  NO                           118                            164
  YES                          272                            441
[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                          62   265
  AMP PEAK 11(8P11.21) WILD-TYPE                        75   443
D11V11, multiclass
                                  clus
vv                                 AMP PEAK 11(8P11.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      23
  BLACK OR AFRICAN AMERICAN                                  62
  WHITE                                                     265
                                  clus
vv                                 AMP PEAK 11(8P11.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        33
  BLACK OR AFRICAN AMERICAN                                    75
  WHITE                                                       443
[1] 4 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    12 312
  AMP PEAK 11(8P11.21) WILD-TYPE  24 484
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8P11.21) MUTATED     12  312
  AMP PEAK 11(8P11.21) WILD-TYPE   24  484
                        clus
vv                       AMP PEAK 11(8P11.21) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          312
                        clus
vv                       AMP PEAK 11(8P11.21) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            484
[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   539  83
  AMP PEAK 12(8Q24.21) WILD-TYPE 321  31
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                           622                            352 
  AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE 
                            83                             31 
$`AMP PEAK 12(8Q24.21) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SJ 
       14.37        43.43        48.10        14.27        47.24        13.68 
TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q 
       31.79        39.32        19.20       104.81        18.02        41.95 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CL 
       82.16        73.84        22.06        63.12        36.13        64.57 
TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW 
       24.79        92.48        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-A0EO TCGA-A2-A0EQ TCGA-A2-A0EU TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0SV 
       80.28        79.76        34.29        24.72        24.16        27.12 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 
       44.88        50.43        17.52        17.13         8.38        18.71 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ 
       17.46        18.90        20.75        21.90        21.67        18.61 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G0 
       31.73        23.77        23.47        17.36        36.79        20.25 
TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A25E 
       19.20        19.56        52.47        16.31        18.15        91.92 
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-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 
       38.37         7.30         9.01        12.00         6.74         3.42 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D 
       38.30        35.31        30.61        37.45        35.67        31.73 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       10.72        12.72        24.26        23.74        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD 
       20.61        22.32        10.29        11.97        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A6VV TCGA-A7-A6VX 
       21.17        17.92        12.10        10.72        10.29        10.42 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
        8.75        13.02        13.02         1.02        17.98        41.06 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
       29.03        31.00        26.01         1.02        17.03        53.98 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I 
        9.01        33.01        19.99        18.97        18.97        14.01 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07W 
       17.03         9.99        10.98         8.98         9.96         9.99 
TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       18.05        36.95        13.02        23.08        19.99        18.05 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P 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-A091 TCGA-A8-A092 TCGA-A8-A093 
       19.07        93.04        33.99        19.07        16.01        17.95 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E 
       12.00         9.99        12.00         1.02        13.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
       33.07        29.98        15.02         1.02        25.02         8.98 
TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A2 TCGA-A8-A0A7 TCGA-A8-A0A9 
       19.04         0.99        14.01        19.04         0.99        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-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3QP 
       38.20        26.04        50.70         1.02         2.27         9.40 
TCGA-AC-A3W5 TCGA-AC-A3YI TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A8OP 
        1.81         1.55         0.07         1.12         0.69         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-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-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FW 
        0.33         7.96         7.00         7.59         6.02         0.36 
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-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-A03R TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J7 
       68.75        47.87        29.13        21.40        17.65        20.32 
TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       50.70        76.77        38.53        55.33        71.80       102.58 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F 
       94.59        96.10        77.56        64.04        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       41.62        82.62        61.87        70.39         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       24.79        26.93       130.09         5.65        15.62        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT 
        2.56        21.86        82.88        49.32        37.41        56.88 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 
       29.75        24.30        55.86        65.36        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AN 
       76.18        55.36        61.84        52.77        51.25        43.73 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       39.98        43.07        46.32        35.24        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S 
      109.58        50.89        68.19        66.05        57.40        62.07 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       53.36        54.18        50.96        51.75        56.15        45.17 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL 
       39.85        34.82        93.83        20.25        42.87         7.36 
TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.81        20.38        16.04        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG 
      143.38       149.59       220.90       129.57        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IQ 
      112.37       176.98        18.77       126.12        84.59       140.88 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RM TCGA-B6-A0RP TCGA-B6-A0RS 
      211.56        68.45       189.01        78.02       102.77       100.70 
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-A0X1 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KF 
      113.79       186.48        68.94        58.88        43.59       101.52 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40C 
      139.17       170.17        85.35        54.28        49.94        55.00 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B2 TCGA-BH-A0B3 
       24.53        38.79        20.45        25.55        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BF 
       39.16        56.94        56.98        37.22        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0BZ 
       24.85        44.05        48.69        45.57        11.67        49.05 
TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DL 
       41.75        44.02        45.83        38.01        22.13        48.23 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DZ TCGA-BH-A0E0 
       15.65         3.22         2.56        38.47        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0GZ 
       15.68        14.30        44.81        31.00        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HB TCGA-BH-A0HQ 
       15.16        24.56        23.08        41.00        26.50        36.85 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W5 
       12.89        51.32        27.25        50.79         5.59        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N 
       44.81        23.05         7.23        26.66        72.56        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-A1ES TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX 
       91.99       113.82        42.28        12.00        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC 
       17.69        31.53        89.16        97.48       120.62       114.15 
TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU 
       33.17        74.73       122.89        45.63        72.07        72.07 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A42V TCGA-C8-A12L 
        0.72        38.60        83.31       130.16         8.94        11.93 
TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A12V 
       11.77        11.77        12.66        11.77        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66         3.12         1.78         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.85         3.75        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z 
       12.03         2.30         3.25         0.23         0.36         8.28 
TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A13Y 
        9.67         0.03         0.03        12.20         0.99        11.90 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JC 
       20.58        13.97        14.17        19.20        17.49        15.78 
TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.15        12.03        12.03        14.01        20.09        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       20.09        19.40        21.01        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XJ 
       17.79        23.90        18.15        17.16        15.22        21.83 
TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XW 
       14.50        19.92        16.41        16.31        12.99        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-A27F TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27N 
       16.04        13.05        14.43        16.41        13.48         4.80 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       10.09        12.53        12.26        18.51         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14O 
       34.42        27.52        46.59        40.11        47.15        44.68 
TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V 
       40.96        38.60        33.17        33.30        43.33        34.26 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       32.02        31.96        28.60        17.03        25.41        27.12 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C 
       23.24        19.43        14.79        25.05        23.34        22.82 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15M 
       17.29        20.71        21.63        12.92        19.40         7.73 
TCGA-E2-A15O TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B5 
       13.02        14.07        14.99        60.53        53.62        32.35 
TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IO 
       28.50        17.10        33.73        33.70        22.19        20.98 
TCGA-E2-A1L7 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       27.42        24.59        28.90        18.87       106.75       102.61 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N5 
        8.75        16.93         7.20        22.26        19.89        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE 
       13.48        12.00        13.12        36.56        39.55        35.77 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 
       20.05         9.86         0.62         2.10         6.12         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RG 
       21.21        32.09        20.81        40.24        34.65        21.27 
TCGA-E9-A1RH TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 
       34.59        39.09        22.75        12.89        23.51        17.06 
TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA 
        0.69        27.22         1.94         0.72        17.75         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1IY TCGA-EW-A1J1 
       15.72         0.23         0.39         0.26         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-LL-A441 
       53.36        69.30        13.55        11.84        11.57         2.99 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y 
        4.70         3.65         3.19         3.25         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 
        4.50         4.50         5.59         3.22         6.21        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I 
        7.53        44.61        26.20        10.29         9.80        23.70 
TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         4.44         6.81         5.29 

$`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       125.59       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 
       14.63        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        14.07        49.48        31.99         8.81         8.91 
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         1.68         1.32         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A046 TCGA-AN-A0AT TCGA-AN-A0FD 
        1.81         1.18         0.43         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0XP TCGA-AN-A0XR 
        4.64         7.17         6.28         0.33         0.30         0.33 
TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03U TCGA-AO-A0J2 
        0.33         5.59        80.28        66.77        59.05        32.78 
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-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 
       72.00        21.37        26.24        62.04        99.25        93.70 
TCGA-AO-A12A TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TX 
       90.58        28.37        14.73         9.99         5.26        64.83 
TCGA-AR-A0TZ TCGA-AR-A1AH TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AR 
       76.14        75.55        48.82        62.56        43.56        17.23 
TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P 
       40.83        42.58        73.02        65.46        65.69         0.85 
TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A2LE TCGA-AR-A2LM TCGA-AR-A2LN 
       53.26        48.16        40.64       128.65        40.04        17.10 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-B6-A0I9 TCGA-B6-A0IC TCGA-B6-A0IO TCGA-B6-A0IP 
       16.96        54.74        12.13        50.70       110.14       110.93 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0WT 
      234.28        81.17       172.96       162.05       140.48       188.68 
TCGA-B6-A0WV TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A1KI TCGA-B6-A40B 
       79.63       129.57       129.70        28.27        73.51        82.88 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BJ 
       28.50        46.95        48.36        51.68        32.02        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-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DK TCGA-BH-A0DO 
       48.13        42.90        31.17        23.44        13.91        17.26 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
       45.17        47.41         9.63        46.19        32.65        24.49 
TCGA-BH-A0EI TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK 
       24.43        37.78        35.51        52.96        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A18F TCGA-BH-A18G 
        2.50        13.61        23.93        24.95         8.81         2.01 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18P TCGA-BH-A18S TCGA-BH-A1ET TCGA-BH-A1F0 
       20.12        90.84        30.28        66.05        82.85        25.81 
TCGA-BH-A1F8 TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A201 
       24.66        36.92        63.35        55.00       144.59         6.90 
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-C8-A12Q TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26Y 
        0.07        12.33        10.92        10.42         0.30         0.43 
TCGA-C8-A274 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A145 
        0.03         0.03         0.23        20.88        13.25        13.48 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JE TCGA-D8-A1JI 
       21.14        14.17        16.50        18.71        18.90        18.97 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XC 
       20.38        12.20        16.73        25.74        27.58         2.66 
TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV 
       14.73        17.69         7.96        15.85         6.35        15.16 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A3Z5 
       17.42        13.45         9.44         0.76        13.08        14.50 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14Q TCGA-E2-A155 
       40.41        37.51        28.44        28.87        38.24        21.04 
TCGA-E2-A156 TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15P 
       23.87        18.21        17.42         9.04        20.58        19.56 
TCGA-E2-A15R TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IF 
       17.06        53.03        29.95        16.47        38.30        37.41 
TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 
       32.78        28.44        22.65         3.88        11.08        54.18 
TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
       39.62        19.66        40.47        43.04         5.52        15.72 
TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1ND TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 
       18.05        19.20        12.59        21.57        11.90        14.30 
TCGA-E9-A1R5 TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
        1.38         0.66         6.58        35.64        34.13         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A249 TCGA-E9-A24A 
       12.53        13.32        24.10         0.85         0.95        12.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
        0.76        26.07        18.41         0.23        15.39        12.20 
TCGA-EW-A1IX TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV 
       39.72        18.21        13.25        16.57        15.68        25.94 
TCGA-EW-A1OX TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FR 
       29.95        30.08        18.90        10.52        34.55        55.00 
TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 
       52.73        22.09        21.27        10.16        10.59         7.40 
TCGA-GM-A2D9 TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       59.57        42.28        61.91        62.33        90.84        76.64 
TCGA-GM-A2DN TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       77.33       110.50        38.20        32.28        53.95        57.63 
TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       18.12         8.28         6.67         4.60         0.66         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A6FQ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        6.90         5.56         2.63        15.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H 
       12.66        27.65        24.10        16.87        14.10        14.76 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O 
       54.51        33.90        31.07         7.23 

  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 
                        21.335                         21.550 
[1] "0.0 - 220.9 (21.3)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.5"
D12V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 12(8Q24.21) MUTATED        47       41        3        4       227
  AMP PEAK 12(8Q24.21) WILD-TYPE      33       36        6        5       108
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 12(8Q24.21) MUTATED         140         2         92         18
  AMP PEAK 12(8Q24.21) WILD-TYPE        84         0         46          9
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 12(8Q24.21) MUTATED           36       11         1      12
  AMP PEAK 12(8Q24.21) WILD-TYPE         23        6         0       4
D12V3, multiclass
            clus
vv           AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  STAGE I                              47                             33
  STAGE IA                             41                             36
  STAGE IB                              3                              6
  STAGE II                              4                              5
  STAGE IIA                           227                            108
  STAGE IIB                           140                             84
  STAGE III                             2                              0
  STAGE IIIA                           92                             46
  STAGE IIIB                           18                              9
  STAGE IIIC                           36                             23
  STAGE IV                             11                              6
  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   147 392  71  22
  AMP PEAK 12(8Q24.21) WILD-TYPE 111 189  46  14
D12V4, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  T1                          147                            111
  T2                          392                            189
  T3                           71                             46
  T4                           22                             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
  AMP PEAK 12(8Q24.21) MUTATED   301 202  76  43
  AMP PEAK 12(8Q24.21) WILD-TYPE 167 128  35  27
D12V5, multiclass
    clus
vv   AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  N0                          301                            167
  N1                          202                            128
  N2                           76                             35
  N3                           43                             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          1 554  11  69
  AMP PEAK 12(8Q24.21) WILD-TYPE        1 291   6  62
D12V6, multiclass
          clus
vv         AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                554                            291
  M1                                 11                              6
  MX                                 69                             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"
D12V7, binary
                                cls
clus                               0   1
  AMP PEAK 12(8Q24.21) MUTATED   626   9
  AMP PEAK 12(8Q24.21) WILD-TYPE 358   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED    626    9
  AMP PEAK 12(8Q24.21) WILD-TYPE  358    2
        clus
vv       AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  FEMALE                          626                            358
  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                             521
  AMP PEAK 12(8Q24.21) WILD-TYPE                           214
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                               59
  AMP PEAK 12(8Q24.21) WILD-TYPE                            107
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 12(8Q24.21) MUTATED                     5
  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                  9             17
D12V8, multiclass
                                  clus
vv                                 AMP PEAK 12(8Q24.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             521
  INFILTRATING LOBULAR CARCINOMA                             59
  MEDULLARY CARCINOMA                                         5
  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                               214
  INFILTRATING LOBULAR CARCINOMA                              107
  MEDULLARY CARCINOMA                                           0
  MIXED HISTOLOGY (PLEASE SPECIFY)                             13
  MUCINOUS CARCINOMA                                            9
  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   191 444
  AMP PEAK 12(8Q24.21) WILD-TYPE  91 269
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED    191  444
  AMP PEAK 12(8Q24.21) WILD-TYPE   91  269
     clus
vv    AMP PEAK 12(8Q24.21) MUTATED AMP PEAK 12(8Q24.21) WILD-TYPE
  NO                           191                             91
  YES                          444                            269
[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                         101   423
  AMP PEAK 12(8Q24.21) WILD-TYPE                        36   285
D12V11, multiclass
                                  clus
vv                                 AMP PEAK 12(8Q24.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      40
  BLACK OR AFRICAN AMERICAN                                 101
  WHITE                                                     423
                                  clus
vv                                 AMP PEAK 12(8Q24.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        16
  BLACK OR AFRICAN AMERICAN                                    36
  WHITE                                                       285
[1] 4 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    19 500
  AMP PEAK 12(8Q24.21) WILD-TYPE  17 296
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q24.21) MUTATED     19  500
  AMP PEAK 12(8Q24.21) WILD-TYPE   17  296
                        clus
vv                       AMP PEAK 12(8Q24.21) MUTATED
  HISPANIC OR LATINO                               19
  NOT HISPANIC OR LATINO                          500
                        clus
vv                       AMP PEAK 12(8Q24.21) WILD-TYPE
  HISPANIC OR LATINO                                 17
  NOT HISPANIC OR LATINO                            296
[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   237  42
  AMP PEAK 13(10P15.1) WILD-TYPE 623  72
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                           279                            695 
  AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE 
                            42                             72 
$`AMP PEAK 13(10P15.1) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SJ TCGA-A1-A0SO TCGA-A2-A04P 
       14.37        43.43        48.10        13.68        28.01        18.02 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CM TCGA-A2-A0D0 TCGA-A2-A0D2 
       41.95        73.84        22.06        24.79        21.14        33.76 
TCGA-A2-A0EQ TCGA-A2-A0EV TCGA-A2-A0ST TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T0 
       79.76        31.82        99.19        44.88        50.43        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YG 
       17.13         8.38        18.71        20.75        18.21        21.90 
TCGA-A2-A0YJ TCGA-A2-A0YM TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS TCGA-A2-A3XT 
       18.61        31.73        19.20        16.31        33.93        83.01 
TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13E 
       38.40        38.37         7.30        35.67        31.73        10.72 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SF 
       24.26        23.74        21.73        14.93        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       14.73        12.10        10.29         9.37        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A07B 
       13.02         1.02        17.98        29.03        31.00        33.01 
TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A08B 
       19.99        18.97         8.98         9.96        28.04        23.08 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R 
       18.05        19.96        37.05         9.99        31.00         0.99 
TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D 
       33.99        16.01        12.00         9.99        12.00        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09Q TCGA-A8-A09X TCGA-AC-A23C TCGA-AC-A23E 
       31.00        33.07        25.02        14.01         0.95         2.37 
TCGA-AC-A2BK TCGA-AC-A2FO TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AN-A04C 
       38.53        50.70         0.07         1.12         0.69         1.78 
TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FL 
        1.71         6.51         0.33         0.33         0.33         7.59 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AO-A03O TCGA-AO-A03V TCGA-AO-A0J2 
        0.33         0.33         0.33        81.63        29.13        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A128 TCGA-AO-A129 
       21.40        37.48        55.33       102.58        94.59        96.10 
TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04L 
       90.58        48.36        70.39         0.53        24.79       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TS TCGA-AR-A0TT 
        5.65         2.56        21.86         9.99        37.41        56.88 
TCGA-AR-A0TW TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       24.30        83.87        55.36        61.84        52.77        51.25 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       43.07        17.23        35.24        20.22       109.58        50.89 
TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 
       62.07        53.36        54.18        45.17        39.85        34.82 
TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LR TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH 
       93.83         7.36        20.38       129.57        65.72       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RO 
      176.98        84.59       110.14       140.88       211.56       162.05 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A402 
      100.70        89.46       186.48        43.59       101.52        54.28 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BG TCGA-BH-A0BL 
       20.45        25.55        39.55        56.94        24.85        44.05 
TCGA-BH-A0BP TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0E0 
       48.69        11.67        41.75         2.56        38.47         4.41 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0H7 
        9.63        44.81        32.65        31.00        30.35        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HU TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0WA TCGA-BH-A18L 
       41.00        12.89        50.79         5.59        23.05        26.66 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1EW 
       55.63         7.36        51.16        69.93        12.00        55.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A209 
       25.81        31.53        97.48       114.15        33.17       130.16 
TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W TCGA-C8-A130 
       11.93        12.66        11.77         0.07        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A1HJ TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27B 
        1.78         0.16         0.36         8.28         0.03         0.99 
TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JK 
       20.88        13.97        18.71        18.15        12.03        20.12 
TCGA-D8-A1JL TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XT 
       20.09        18.58        23.90        15.22        14.50         6.35 
TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A27R TCGA-D8-A3Z6 TCGA-E2-A107 
       12.99        12.66        15.32        10.09        18.51        34.42 
TCGA-E2-A108 TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A150 
       27.52        47.15        44.68        38.60        34.26        25.41 
TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15G 
       27.12        19.43        14.79        25.05        23.34        18.21 
TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
        7.73        14.07        60.53       106.75       102.61         8.75 
TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1RB 
       16.93        22.26        19.89        13.12        35.77        20.81 
TCGA-E9-A1RH TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A295 
       34.59        22.75        23.51         0.69        27.22         0.72 
TCGA-E9-A3QA TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ 
        0.62        28.77        25.94        22.82        29.85        40.41 
TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV 
        7.86        19.99         6.15        19.96        52.73        25.91 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF 
       17.49        10.16       109.87        53.13        53.52        42.71 
TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LL-A441 TCGA-LL-A5YM 
       42.28        62.33        69.30        11.84         2.99         4.70 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5D7 
        3.19         2.63         4.50         6.21         2.79        46.55 
TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66I 
       26.20         9.80        23.70 

$`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       125.59        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        14.63 
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        14.07 
TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       49.48        34.98        31.99         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
       12.00         6.74         3.42        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        41.06 
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 
       19.99        12.00        31.00        19.07        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09K 
       19.07        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 
       15.02         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         9.40 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12         1.81         1.68         1.55         1.32         1.55 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y 
        1.81         1.18         0.43         1.74         0.33         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.23         0.33         0.62         2.96         8.02         7.36 
TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN 
        0.16         6.44         4.64         7.96         7.00         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        6.28         6.02         0.33         0.36         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-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P 
        5.33         5.59        80.28        47.84        66.77        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J7 
       68.75        47.87        59.05        17.65        24.16        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        38.53        62.04        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
       99.25        93.70        77.56        64.04        57.30        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04J 
       28.37        14.73        82.62        61.87        17.79        26.93 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TV 
       15.62        13.22        82.88        49.32         5.26        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 
       64.83        55.86        76.14        65.36        70.16        76.18 
TCGA-AR-A1AH TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP 
       75.55        48.82        62.56        43.73        43.56        39.98 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M 
       40.83        46.32        42.58        36.26        73.02        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T 
       68.19        65.69         0.85        66.05        57.40        53.26 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A2LE 
       50.96        48.16        51.75        56.15        40.64       128.65 
TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25        42.87        40.04        17.10        20.81        16.96 
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-A0IG TCGA-B6-A0IK 
      149.59        12.13       220.90        50.70       146.50        18.77 
TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      126.12       110.93        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RU TCGA-B6-A0RV 
       78.02       172.96       102.77       140.48       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY 
       97.48       188.68        79.63        17.98        21.47       113.79 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KI 
      129.57       129.70        28.27        68.94        58.88        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        82.88        55.00 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       24.53        38.79        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.98        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-A0BR 
       25.71        21.70        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 
       53.95        45.57        49.94        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-A0DV 
       13.91        48.23        17.26        15.65         3.22        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EB 
       47.41        16.27        15.68        14.30        46.19        24.49 
TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.43        10.78        15.16        37.78        35.51        24.56 
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-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        51.32        27.25        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-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U 
       72.56        37.74        30.28        37.55        66.05        51.39 
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-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-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-A28O 
        6.90         0.72        38.60        83.31        57.83        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-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A134 
       11.77        12.66        12.66        12.66         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.62         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
       11.34        12.03        10.42         2.30         3.25         0.30 
TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A 
        0.23         0.43         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-A143 
        0.03         0.23        11.90        13.25        20.58        14.17 
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-A1JC TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ 
       15.78        18.90        12.03        14.01        18.97        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-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       17.79        16.73        25.74        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       17.16        14.73        21.83        19.92        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y0 
       16.41        15.85        16.31        15.16        16.54        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-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-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 
        0.76        13.08        12.53        12.26        14.50         7.33 
TCGA-E2-A105 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       43.00        46.59        40.41        37.51        40.11        28.44 
TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       28.87        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A155 
       32.02        31.96        28.60        17.03        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H 
       23.87        22.82        17.29        20.71        21.63        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-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       17.06        14.99        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-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-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 
       24.59        40.47        28.90        18.87        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 
       15.72         7.20        18.05        19.20        36.82        13.48 
TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG 
       12.00        36.56        39.55        12.59        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-A1RC TCGA-E9-A1RD 
        1.38         2.76        21.21        32.09        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
       34.65         6.58        21.27        35.64        34.13         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 
       12.53        13.32        39.09        12.89        24.10        17.06 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT 
        0.85         1.94         0.95        12.56        17.75         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       26.07        18.41        15.72         0.23         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       18.12        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FR 
        3.58         6.90         5.56         3.65         3.25         3.88 
TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 
        4.14         4.50         5.59         3.22        15.91         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66         7.53        44.61        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       14.10        10.29        14.76        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         7.23         4.44         6.81         5.29 

  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 
                         23.08                          20.98 
[1] "0.0 - 211.6 (23.1)" "0.0 - 234.3 (21.0)"
[1] "hr=" "1.4"
D13V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 13(10P15.1) MUTATED        25       14        1        1       111
  AMP PEAK 13(10P15.1) WILD-TYPE      55       63        8        8       224
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 13(10P15.1) MUTATED          53         0         41          8
  AMP PEAK 13(10P15.1) WILD-TYPE       171         2         97         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 13(10P15.1) MUTATED           17        7         1       5
  AMP PEAK 13(10P15.1) WILD-TYPE         42       10         0      11
D13V3, multiclass
            clus
vv           AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  STAGE I                              25                             55
  STAGE IA                             14                             63
  STAGE IB                              1                              8
  STAGE II                              1                              8
  STAGE IIA                           111                            224
  STAGE IIB                            53                            171
  STAGE III                             0                              2
  STAGE IIIA                           41                             97
  STAGE IIIB                            8                             19
  STAGE IIIC                           17                             42
  STAGE IV                              7                             10
  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    65 175  30  13
  AMP PEAK 13(10P15.1) WILD-TYPE 193 406  87  23
D13V4, multiclass
    clus
vv   AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  T1                           65                            193
  T2                          175                            406
  T3                           30                             87
  T4                           13                             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 13(10P15.1) MUTATED   139  85  35  21
  AMP PEAK 13(10P15.1) WILD-TYPE 329 245  76  49
D13V5, multiclass
    clus
vv   AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  N0                          139                            329
  N1                           85                            245
  N2                           35                             76
  N3                           21                             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 13(10P15.1) MUTATED          0 245   7  33
  AMP PEAK 13(10P15.1) WILD-TYPE        2 600  10  98
D13V6, multiclass
          clus
vv         AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                245                            600
  M1                                  7                             10
  MX                                 33                             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"
D13V7, binary
                                cls
clus                               0   1
  AMP PEAK 13(10P15.1) MUTATED   283   2
  AMP PEAK 13(10P15.1) WILD-TYPE 701   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED    283    2
  AMP PEAK 13(10P15.1) WILD-TYPE  701    9
        clus
vv       AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  FEMALE                          283                            701
  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                             247
  AMP PEAK 13(10P15.1) WILD-TYPE                           488
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 13(10P15.1) MUTATED                               18
  AMP PEAK 13(10P15.1) WILD-TYPE                            148
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 13(10P15.1) MUTATED                     4
  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                 14             35
D13V8, multiclass
                                  clus
vv                                 AMP PEAK 13(10P15.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             247
  INFILTRATING LOBULAR CARCINOMA                             18
  MEDULLARY CARCINOMA                                         4
  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                               488
  INFILTRATING LOBULAR CARCINOMA                              148
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  MUCINOUS CARCINOMA                                           14
  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    90 195
  AMP PEAK 13(10P15.1) WILD-TYPE 192 518
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED     90  195
  AMP PEAK 13(10P15.1) WILD-TYPE  192  518
     clus
vv    AMP PEAK 13(10P15.1) MUTATED AMP PEAK 13(10P15.1) WILD-TYPE
  NO                            90                            192
  YES                          195                            518
[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                          58   183
  AMP PEAK 13(10P15.1) WILD-TYPE                        79   525
D13V11, multiclass
                                  clus
vv                                 AMP PEAK 13(10P15.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      14
  BLACK OR AFRICAN AMERICAN                                  58
  WHITE                                                     183
                                  clus
vv                                 AMP PEAK 13(10P15.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        42
  BLACK OR AFRICAN AMERICAN                                    79
  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"
D13V12, binary
                                cls
clus                               0   1
  AMP PEAK 13(10P15.1) MUTATED     8 222
  AMP PEAK 13(10P15.1) WILD-TYPE  28 574
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(10P15.1) MUTATED      8  222
  AMP PEAK 13(10P15.1) WILD-TYPE   28  574
                        clus
vv                       AMP PEAK 13(10P15.1) MUTATED
  HISPANIC OR LATINO                                8
  NOT HISPANIC OR LATINO                          222
                        clus
vv                       AMP PEAK 13(10P15.1) WILD-TYPE
  HISPANIC OR LATINO                                 28
  NOT HISPANIC OR LATINO                            574
[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   117  24
  AMP PEAK 14(10Q22.3) WILD-TYPE 743  90
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                           141                            833 
  AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE 
                            24                             90 
$`AMP PEAK 14(10Q22.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A2-A04Q TCGA-A2-A04W TCGA-A2-A0CL TCGA-A2-A0CM 
       14.37        48.10        41.95        64.04        64.57        24.79 
TCGA-A2-A0EQ TCGA-A2-A0SX TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T7 TCGA-A2-A0YJ 
       79.76        50.43        17.13         8.38        20.75        18.61 
TCGA-A2-A1FW TCGA-A2-A25E TCGA-A7-A0CJ TCGA-A7-A26G TCGA-A7-A26I TCGA-A7-A4SB 
       17.36        91.92        30.61        23.74        21.73        13.74 
TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07L 
       13.02        17.98        31.00        17.03        19.99        17.03 
TCGA-A8-A07Z TCGA-A8-A08B TCGA-A8-A08P TCGA-A8-A092 TCGA-A8-A09Q TCGA-A8-A09X 
       28.04        23.08        31.00        16.01        25.02        14.01 
TCGA-AC-A23E TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A8OP TCGA-AN-A04C TCGA-AN-A0AJ 
        2.37         0.07         1.12         1.74         1.78         8.02 
TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FV TCGA-AN-A0XN TCGA-AO-A03N TCGA-AO-A03O 
        0.16         0.33         0.33         0.33        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J9 TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A128 
       84.69        29.13        53.03        55.33       102.58        94.59 
TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04L 
       90.58        64.04        61.87        70.39         0.53       130.09 
TCGA-AQ-A54N TCGA-AR-A0TT TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AW 
        2.56        56.88        61.84        52.77        43.07        35.24 
TCGA-AR-A24K TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A254 TCGA-AR-A2LL 
       50.89        62.07        53.36        54.18        39.85         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        82.88        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-EW-A1OV TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 
        0.69        27.22        25.94        40.41        29.82         7.86 
TCGA-EW-A423 TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A3XL TCGA-LL-A5YO TCGA-LL-A6FQ 
       10.16        53.13        42.28        69.30         3.19         2.63 
TCGA-LL-A73Z TCGA-MS-A51U TCGA-OL-A5S0 
        4.50         2.79         9.80 

$`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       125.59       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 
       14.63        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        14.07        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         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE 
        8.91        12.00         6.74         3.42        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 
       41.06        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 
       33.01        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         9.96         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        19.99        18.05 
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 
       19.07        93.04        33.99        40.01        19.07        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 
       13.02        31.00        33.07        29.98        15.02         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 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X 
        1.55         1.81         1.18         0.69         0.43         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-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF 
        7.36         6.51         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.96         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO 
        0.36         0.33         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-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
        5.59        80.28        47.84        68.75        47.87        59.05 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       32.78        21.40        17.65        24.16        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE 
       22.36        21.53        50.70        50.86        72.00        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 
       21.37        26.24        38.53        62.04        71.80        99.25 
TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       93.70        96.10        77.56        57.30        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J 
       28.37        14.73        82.62        17.79        24.79        26.93 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP 
        5.65        15.62        13.22        21.86         9.99        82.88 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
       49.32         5.26        37.41        29.75        24.30        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        70.16        83.87        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       55.36        75.55        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        40.83        46.32        42.58 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       36.26        20.22       109.58        73.02        65.46        68.19 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24W 
       65.69         0.85        66.05        57.40        53.26        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 
       48.16        51.75        56.15        45.17        40.64        34.82 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LN 
       93.83       128.65        20.25        42.87        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        20.38        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       10.59       143.38       149.59        12.13       220.90       129.57 
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-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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
      234.28        78.02       172.96       102.77       140.48        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-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 
      113.79       129.57       129.70       186.48        28.27        68.94 
TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
       58.88       101.52        73.51       139.17       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ 
       54.28        49.94        55.00        38.79        20.45        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 
       46.95        40.83        39.55        39.16        48.36        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-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-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-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-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       45.17        47.41        16.27         4.41        15.68        14.30 
TCGA-BH-A0E9 TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       46.19        24.49        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-A0HQ TCGA-BH-A0HU 
       26.50        20.38         5.85         2.50        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-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       66.05        51.39        51.16       113.82        82.85        42.28 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       55.69        49.58        25.81        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-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       63.35        55.00        45.63       144.59        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        0.72        38.60        83.31        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-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V 
       11.77        11.77        11.77         0.07        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
       12.66        12.66         1.78         0.69         0.62         3.85 
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-A1HN TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
        3.25         0.30         0.36         0.43         8.28         9.67 
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-A143 TCGA-D8-A145 
       11.90        13.25        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-A1JC 
       21.14        14.17        17.49        16.50        18.71        15.78 
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-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-A1XG TCGA-D8-A1XJ 
       18.15         2.66        17.16        15.22        14.73        21.83 
TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       14.50        17.69         7.96        16.41        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ 
        6.35        12.99        15.16        12.66        16.54        15.32 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
       15.52         3.81        14.24        14.14        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-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-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-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P 
       40.41        37.51        28.44        28.87        47.15        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V 
       38.24        38.60        33.17        33.30        43.33        34.26 
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-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-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-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-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-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 
       28.90        18.87       106.75         8.75        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 
       15.72         7.20        18.05        22.26        19.89        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 
       12.56         0.72        17.75         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO 
        0.62        15.72         0.23         0.39         0.26         0.23 
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-A1OW TCGA-EW-A1OX 
       13.25        16.57        15.68        28.77        22.82        29.95 
TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       29.85        41.13        39.78        52.96        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       30.08        18.90        19.99         6.15        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV 
       14.43        34.55        19.96        55.00        52.73        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 
       22.09        21.27        17.49        10.59         7.40       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI 
       59.57       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-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-A5PV TCGA-GM-A5PX 
       38.20        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       11.84        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        2.99         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        3.25         3.88         4.14         4.50         5.59         3.22 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        6.21        15.91         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       10.29        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         7.23         4.44         6.81         5.29 

  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 
                         25.41                          21.14 
[1] "0.0 - 162.1 (25.4)" "0.0 - 234.3 (21.1)"
[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        9        0        1        60
  AMP PEAK 14(10Q22.3) WILD-TYPE      70       68        9        8       275
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 14(10Q22.3) MUTATED          25         0         23          4
  AMP PEAK 14(10Q22.3) WILD-TYPE       199         2        115         23
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 14(10Q22.3) MUTATED            5        3         1       3
  AMP PEAK 14(10Q22.3) WILD-TYPE         54       14         0      13
D14V3, multiclass
            clus
vv           AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  STAGE I                              10                             70
  STAGE IA                              9                             68
  STAGE IB                              0                              9
  STAGE II                              1                              8
  STAGE IIA                            60                            275
  STAGE IIB                            25                            199
  STAGE III                             0                              2
  STAGE IIIA                           23                            115
  STAGE IIIB                            4                             23
  STAGE IIIC                            5                             54
  STAGE IV                              3                             14
  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    27  94  17   5
  AMP PEAK 14(10Q22.3) WILD-TYPE 231 487 100  31
D14V4, multiclass
    clus
vv   AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  T1                           27                            231
  T2                           94                            487
  T3                           17                            100
  T4                            5                             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 14(10Q22.3) MUTATED    74  41  20   7
  AMP PEAK 14(10Q22.3) WILD-TYPE 394 289  91  63
D14V5, multiclass
    clus
vv   AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  N0                           74                            394
  N1                           41                            289
  N2                           20                             91
  N3                            7                             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 14(10Q22.3) MUTATED          0 130   3  11
  AMP PEAK 14(10Q22.3) WILD-TYPE        2 715  14 120
D14V6, multiclass
          clus
vv         AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                130                            715
  M1                                  3                             14
  MX                                 11                            120
[1] 4 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   142   2
  AMP PEAK 14(10Q22.3) WILD-TYPE 842   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED    142    2
  AMP PEAK 14(10Q22.3) WILD-TYPE  842    9
        clus
vv       AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  FEMALE                          142                            842
  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                             122
  AMP PEAK 14(10Q22.3) WILD-TYPE                           613
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 14(10Q22.3) MUTATED                               11
  AMP PEAK 14(10Q22.3) WILD-TYPE                            155
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 14(10Q22.3) MUTATED                     2
  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                 14             39
D14V8, multiclass
                                  clus
vv                                 AMP PEAK 14(10Q22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             122
  INFILTRATING LOBULAR CARCINOMA                             11
  MEDULLARY CARCINOMA                                         2
  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                               613
  INFILTRATING LOBULAR CARCINOMA                              155
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             25
  MUCINOUS CARCINOMA                                           14
  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  95
  AMP PEAK 14(10Q22.3) WILD-TYPE 233 618
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED     49   95
  AMP PEAK 14(10Q22.3) WILD-TYPE  233  618
     clus
vv    AMP PEAK 14(10Q22.3) MUTATED AMP PEAK 14(10Q22.3) WILD-TYPE
  NO                            49                            233
  YES                           95                            618
[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                          22    99
  AMP PEAK 14(10Q22.3) WILD-TYPE                       115   609
D14V11, multiclass
                                  clus
vv                                 AMP PEAK 14(10Q22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       9
  BLACK OR AFRICAN AMERICAN                                  22
  WHITE                                                      99
                                  clus
vv                                 AMP PEAK 14(10Q22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        47
  BLACK OR AFRICAN AMERICAN                                   115
  WHITE                                                       609
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V12, binary
                                cls
clus                               0   1
  AMP PEAK 14(10Q22.3) MUTATED     5 113
  AMP PEAK 14(10Q22.3) WILD-TYPE  31 683
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(10Q22.3) MUTATED      5  113
  AMP PEAK 14(10Q22.3) WILD-TYPE   31  683
                        clus
vv                       AMP PEAK 14(10Q22.3) MUTATED
  HISPANIC OR LATINO                                5
  NOT HISPANIC OR LATINO                          113
                        clus
vv                       AMP PEAK 14(10Q22.3) WILD-TYPE
  HISPANIC OR LATINO                                 31
  NOT HISPANIC OR LATINO                            683
[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   181  27
  AMP PEAK 15(11P13) WILD-TYPE 679  87
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                         208                          766 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                          27                           87 
$`AMP PEAK 15(11P13) MUTATED`
TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A2-A04P TCGA-A2-A04U 
       20.88        31.79         7.96        28.01        18.02        22.06 
TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CT TCGA-A2-A0D2 TCGA-A2-A0EO 
       64.04        55.43        24.79        75.25        33.76        80.28 
TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0T0 
       79.76        74.40        34.29        24.16        99.19        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YI 
       17.13         8.38        18.71        20.75        18.21        14.50 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A7-A0CD 
       17.36        36.79        19.20        39.65        83.01        38.30 
TCGA-A7-A0CJ TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A3J0 TCGA-A7-A425 
       30.61        24.26        23.74        20.61        10.29        14.70 
TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A8-A075 
       14.50        21.17        12.10        10.29        10.42        17.03 
TCGA-A8-A079 TCGA-A8-A07F TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A08B 
        9.01        18.97         8.98         9.99        18.05        23.08 
TCGA-A8-A08S TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A09A TCGA-A8-A09I TCGA-A8-A09K 
       19.07        19.07        17.95         9.99        33.07        29.98 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A0A1 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-AC-A23C 
       15.02        25.02        12.00        21.04         0.99         0.95 
TCGA-AC-A23H TCGA-AC-A2BK TCGA-AC-A2FM TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A8OP 
        2.66        38.53        26.04         0.07         1.81         1.74 
TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ 
        1.78         8.02         6.51         0.33         0.33         7.96 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XT TCGA-AN-A0XU 
        7.00         7.59         0.33         0.33         0.33         0.33 
TCGA-AO-A03L TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0JD TCGA-AO-A126 TCGA-AO-A129 
       80.28        32.78        21.40        72.00        93.70        96.10 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04J 
       90.58        77.56        61.87         0.53        17.79        26.93 
TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U2 
      130.09        15.62        56.88        24.30        64.83        83.87 
TCGA-AR-A1AI TCGA-AR-A1AU TCGA-AR-A24K TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24V 
       61.84        46.32        50.89        57.40        62.07        54.18 
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-E9-A1N5 TCGA-E9-A1N8 
       33.70        11.08        27.42        19.89        36.82        12.00 
TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A243 
        6.12         2.76        20.81        34.65         6.58        17.06 
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-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P5 TCGA-EW-A1P7 TCGA-EW-A1P8 
       18.90        28.77        29.85        23.11        30.08         7.86 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 
       19.99         6.15        17.49        10.16         7.40       109.87 
TCGA-GM-A2DA TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DL TCGA-LL-A5YN TCGA-LL-A5YP 
      194.27        42.71        42.28        90.84         3.65         3.25 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-OL-A5RW TCGA-OL-A66I 
        2.63         4.14        26.20        23.70 

$`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       125.59        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 
       14.63        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 
       14.07        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         9.01         8.81         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA 
        3.42        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        41.06        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        33.01        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 
        9.96        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 
       19.99        18.05        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        33.99        40.01 
TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C 
       16.01        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 
       13.02        31.00         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         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.81         1.68         1.55         1.32         1.55         1.12 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.18         0.69         0.43         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM 
        0.33         0.62         2.96         1.71         7.36         0.16 
TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        0.33         6.44         4.64         7.17         6.28         6.02 
TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN 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-A0XV TCGA-AN-A0XW TCGA-AO-A03M 
        0.30         0.33         0.33         5.33         5.59        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-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 
       29.13        17.65        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-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       26.24        38.53        62.04        55.33        71.80       102.58 
TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       99.25        94.59        64.04        57.30        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A0Y5 
       28.37        14.73        82.62        70.39        24.79         5.65 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
       13.22         2.56        21.86         9.99        82.88        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 
        5.26        37.41        29.75        55.86        76.14        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK 
       70.16        76.18        55.36        75.55        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-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       17.23        40.83        42.58        35.24        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       66.05        53.26        53.36        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       45.17        40.64        39.85        34.82        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        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       16.96        54.74        16.04        20.45        10.59        77.62 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ 
      149.59        12.13       220.90        50.70        65.72       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-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-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-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X4 TCGA-B6-A0X5 
       17.98        21.47       113.79       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-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ 
       54.28        82.88        55.00        38.79        20.45        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-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       56.98        51.68        37.22        32.02        18.21        25.71 
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-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 
       49.94        11.67        49.05        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-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-A0EE TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.49        31.00        10.78        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       24.56        41.00        52.96        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-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-A18K TCGA-BH-A18L 
        8.81         2.01         7.23        20.12        90.84        26.66 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
       37.74        30.28        55.63        37.55        66.05         7.36 
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-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC 
       17.69        25.81        89.16        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-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 
       45.63        72.07       144.59        72.07         6.90        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-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-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-A1HF TCGA-C8-A1HG 
        0.62         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         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-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z 
        0.03         0.03         0.03         0.23        11.90        20.88 
TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       20.58        13.48        21.14        14.17        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       18.71        15.78        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-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-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       17.16        14.73        21.83        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
       15.85        16.31         6.35        12.99        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G 
       15.32         3.81        14.24        17.42        16.04        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-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-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-A14P 
       37.51        40.11        28.44        28.87        47.15        40.96 
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-A14Z TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 
       31.96        28.60        17.03        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-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-A15O TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1AZ 
        9.04        20.58        13.02        19.56        14.99        60.53 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BD 
       53.62        53.03        29.95        32.35        28.50        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK 
       38.30        37.41        32.78        33.73        28.44        22.65 
TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 
        3.88        22.19        20.98        54.18        39.62        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-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA 
       18.05        22.26        19.20        13.48        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-A1R7 
       11.90        14.30         0.62         2.10         1.38        21.21 
TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI 
       32.09        40.24         0.66        21.27        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-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 
       12.89        23.51        24.10         0.69         0.85         1.94 
TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y 
       12.56         0.76        26.07        18.41        15.72         0.23 
TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.39         0.23        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OW 
       18.21        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-A1PA TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG 
       18.48        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-A424 TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI 
       10.59        59.57        53.13        53.52        43.04        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-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       32.28        69.30        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       11.84        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO 
        2.99         3.58         6.90         5.56         4.70         3.19 
TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 
        3.88         4.50         4.50         5.59         3.22         6.21 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       15.91         2.79         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       44.61        27.65        24.10        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
        9.80        14.76        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         4.44         6.81         5.29 

  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 
                      21.105                       21.550 
[1] "0.1 - 211.6 (21.1)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.1"
D15V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 15(11P13) MUTATED        13       14        3        1        73
  AMP PEAK 15(11P13) WILD-TYPE      67       63        6        8       262
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 15(11P13) MUTATED          50         0         27          8
  AMP PEAK 15(11P13) WILD-TYPE       174         2        111         19
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 15(11P13) MUTATED           10        6         0       3
  AMP PEAK 15(11P13) WILD-TYPE         49       11         1      13
D15V3, multiclass
            clus
vv           AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  STAGE I                            13                           67
  STAGE IA                           14                           63
  STAGE IB                            3                            6
  STAGE II                            1                            8
  STAGE IIA                          73                          262
  STAGE IIB                          50                          174
  STAGE III                           0                            2
  STAGE IIIA                         27                          111
  STAGE IIIB                          8                           19
  STAGE IIIC                         10                           49
  STAGE IV                            6                           11
  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    46 130  23   9
  AMP PEAK 15(11P13) WILD-TYPE 212 451  94  27
D15V4, multiclass
    clus
vv   AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  T1                         46                          212
  T2                        130                          451
  T3                         23                           94
  T4                          9                           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 15(11P13) MUTATED   100  69  23  13
  AMP PEAK 15(11P13) WILD-TYPE 368 261  88  57
D15V5, multiclass
    clus
vv   AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  N0                        100                          368
  N1                         69                          261
  N2                         23                           88
  N3                         13                           57
[1] 4 2
[1] 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          0 180   6  23
  AMP PEAK 15(11P13) WILD-TYPE        2 665  11 108
D15V6, multiclass
          clus
vv         AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CM0 (I+)                          0                            2
  M0                              180                          665
  M1                                6                           11
  MX                               23                          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"
D15V7, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED   205   4
  AMP PEAK 15(11P13) WILD-TYPE 779   7
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED    205    4
  AMP PEAK 15(11P13) WILD-TYPE  779    7
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  FEMALE                        205                          779
  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                             179
  AMP PEAK 15(11P13) WILD-TYPE                           556
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 15(11P13) MUTATED                               13
  AMP PEAK 15(11P13) WILD-TYPE                            153
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 15(11P13) MUTATED                     3
  AMP PEAK 15(11P13) WILD-TYPE                   2
                              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                 12             35
D15V8, multiclass
                                  clus
vv                                 AMP PEAK 15(11P13) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           179
  INFILTRATING LOBULAR CARCINOMA                           13
  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                             556
  INFILTRATING LOBULAR CARCINOMA                            153
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           27
  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"
D15V9, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED    66 143
  AMP PEAK 15(11P13) WILD-TYPE 216 570
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED     66  143
  AMP PEAK 15(11P13) WILD-TYPE  216  570
     clus
vv    AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  NO                          66                          216
  YES                        143                          570
[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                          29   149
  AMP PEAK 15(11P13) WILD-TYPE                       108   559
D15V11, multiclass
                                  clus
vv                                 AMP PEAK 15(11P13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                     9
  BLACK OR AFRICAN AMERICAN                                29
  WHITE                                                   149
                                  clus
vv                                 AMP PEAK 15(11P13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      47
  BLACK OR AFRICAN AMERICAN                                 108
  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"
D15V12, binary
                              cls
clus                             0   1
  AMP PEAK 15(11P13) MUTATED     6 166
  AMP PEAK 15(11P13) WILD-TYPE  30 630
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED      6  166
  AMP PEAK 15(11P13) WILD-TYPE   30  630
                        clus
vv                       AMP PEAK 15(11P13) MUTATED
  HISPANIC OR LATINO                              6
  NOT HISPANIC OR LATINO                        166
                        clus
vv                       AMP PEAK 15(11P13) WILD-TYPE
  HISPANIC OR LATINO                               30
  NOT HISPANIC OR LATINO                          630
[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   314  48
  AMP PEAK 16(11Q13.3) WILD-TYPE 546  66
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                           362                            612 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                            48                             66 
$`AMP PEAK 16(11Q13.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM 
       14.37        43.43        20.88        13.68        31.79         7.96 
TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V 
       39.32        18.21        18.02        73.84        22.06        63.12 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0D4 
      125.59        64.57        75.25        64.04        33.76        25.22 
TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EY 
       80.28        79.76        74.40        34.29        29.75        24.16 
TCGA-A2-A0SW TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YC 
       44.88        17.13        18.71        20.52        20.75        32.55 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YT 
       18.21        15.42        14.50        18.61        19.33        23.77 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A1G4 TCGA-A2-A25A TCGA-A2-A3KC 
       17.36        36.79        19.20        19.56       107.70        20.88 
TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3Y0 TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DA 
       39.65        83.01        38.37        38.30        30.61        35.67 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A425 
       24.26        23.74        20.61        10.59        10.29        14.70 
TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A8-A06O 
       13.74        21.17        12.10        10.29         9.37        13.02 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 
        1.02        17.98        29.03         1.02        17.03         9.01 
TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07R TCGA-A8-A07W 
       33.01        19.99        18.97        18.97         8.98         9.99 
TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G 
       18.05        36.95        13.02        23.08        18.05        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A091 
       12.00        37.05        31.00         0.99        19.07        19.07 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
       17.95        12.00         9.99         1.02        31.00        33.07 
TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 
       15.02        25.02         0.99        12.00        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23H TCGA-AC-A2BM TCGA-AC-A2FM 
        0.99        13.02        17.03         2.66        38.20        26.04 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IX 
        0.69        14.83         1.81         0.07         1.81         0.43 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.33         0.33         0.62         1.78         8.02         6.51 
TCGA-AN-A0AS TCGA-AN-A0FK TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0XL 
        0.33         7.00         6.28         0.36         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A0J3 
        0.33         5.59        80.28        81.63        84.69        21.40 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JM TCGA-AO-A126 TCGA-AO-A12A 
       72.00        76.77        26.24        71.80        93.70        90.58 
TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KS TCGA-AO-A1KT 
       77.56        57.30        48.36        41.62         0.53        17.79 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TV TCGA-AR-A0TW 
       24.79       130.09        15.62        21.86        29.75        24.30 
TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AK TCGA-AR-A1AN 
       76.14        83.87        76.18        55.36        51.25        43.73 
TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24R 
       39.98        46.32        42.58        50.89        73.02        57.40 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A2LL 
       54.18        51.75        56.15        34.82        42.87         7.36 
TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG 
       20.38       143.38        12.13       129.57        65.72       146.50 
TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0RS 
      112.37       110.14       110.93       211.56        81.17       100.70 
TCGA-B6-A0RV TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0X0 TCGA-B6-A0X1 
      157.41        79.63        17.98       113.79       129.70       186.48 
TCGA-B6-A1KI TCGA-B6-A408 TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AY 
       73.51        49.94        82.88        24.53        38.79        25.55 
TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       51.68        32.02        18.21        25.71        24.85        21.70 
TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DG 
       53.69        45.57        49.94        48.13        45.83        23.44 
TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DZ TCGA-BH-A0EI 
       22.13        48.23        17.26        15.65        16.27        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0HK TCGA-BH-A0HU TCGA-BH-A0HX 
       30.35        10.78        23.08         5.85        12.89        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M 
       50.79        23.93         7.23        20.12        26.66        72.56 
TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES 
       37.55         7.36        51.39        51.16        91.99       113.82 
TCGA-BH-A1EW TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FN TCGA-BH-A201 
       55.69        31.53        24.66       114.15        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28Q TCGA-BH-A42T 
        0.72        38.60        57.83       130.16         6.44         0.99 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W 
       11.93        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HK 
        3.12         1.78         1.45         3.75        11.34        12.03 
TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A278 TCGA-C8-A3M8 
       10.42         2.30         0.23         8.28         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD 
       11.90        13.25        13.97        17.49        15.78        18.15 
TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1X5 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XF 
       12.03        18.97        18.58        25.74        23.90        15.22 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XW TCGA-D8-A1XY 
       21.83        14.50        16.41        16.31        12.66        16.54 
TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27N 
       15.52        14.24        14.14        13.45        13.05         4.80 
TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10E 
       10.09        12.26        43.00        34.42        46.59        28.44 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A150 
       44.68        40.96        33.17        34.26        31.96        25.41 
TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15K TCGA-E2-A15M 
       27.12        19.43        23.34        20.71         9.04         7.73 
TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1IE 
       13.02        17.06        14.99        60.53        53.62        38.30 
TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IU TCGA-E2-A1LA TCGA-E2-A1LH TCGA-E2-A1LK 
       32.78        33.70        11.08        24.59       106.75         8.75 
TCGA-E2-A2P6 TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 
        5.52         7.20        19.89        36.82        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1QZ TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF 
       36.56        11.90         2.76        20.81        34.65         6.58 
TCGA-E9-A228 TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS 
       12.53         0.69        27.22         0.95         0.72        17.75 
TCGA-E9-A3QA TCGA-E9-A5FL TCGA-EW-A1IW TCGA-EW-A1J1 TCGA-EW-A1J3 TCGA-EW-A1J5 
        0.62         0.26        12.20        18.90        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OX TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
       28.77        29.95        23.11         7.86        18.90        19.99 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GM-A2D9 
       55.00        52.73        22.09        10.16         7.40        59.57 
TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DO 
       53.13        42.71        42.28        62.33        90.84        53.36 
TCGA-GM-A3NW TCGA-GM-A3XL TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A6FQ TCGA-LL-A7SZ 
      110.50        69.30         4.60         0.66         2.63         5.59 
TCGA-LL-A7T0 TCGA-OL-A5D7 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A66J 
        3.22        46.55        44.61        26.20        10.29        54.51 
TCGA-OL-A66O TCGA-S3-A6ZG 
        7.23         6.81 

$`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        14.63        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        14.07        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         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       12.00         6.74         3.42        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 
       41.06        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         9.96        28.04 
TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T 
       15.06         0.99        19.99         9.99        31.00        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B 
       33.99        40.01        16.01        41.98         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       13.02        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         9.40 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.12         1.68         1.55         1.32         1.55         1.12 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A 
        1.18         0.69         1.74         0.23         0.33         2.96 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        1.71         7.36         0.16         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FV 
        4.64         7.96         7.59         7.17         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FZ 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-A03N TCGA-AO-A03R 
        0.33         0.33         5.33        47.84        66.77        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        17.65        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-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 
       50.86        21.37        38.53        62.04        55.33       102.58 
TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12H TCGA-AO-A1KO 
       99.25        94.59        96.10        64.04        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       82.62        61.87        70.39        26.93         5.65        13.22 
TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
        2.56         9.99        82.88        49.32         5.26        37.41 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AH 
       56.88        64.83        55.86        65.36        70.16        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AQ 
       61.84        52.77        48.82        62.56        43.56        43.07 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
       17.23        40.83        35.24        36.26        20.22       109.58 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S 
       65.46        68.19        65.69         0.85        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 
       53.26        53.36        50.96        48.16        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN 
       39.85        93.83       128.65        20.25        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       20.81        16.96        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IJ TCGA-B6-A0IK 
       77.62       149.59       220.90        50.70       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       140.88        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-A0RU TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X4 
      131.21        97.48       188.68        21.47       129.57        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-A40C TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 
       85.35        54.28        55.00        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-A0BA TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       37.22        44.05        61.68        35.67        48.69        27.19 
TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 
       53.95        11.67        49.05        41.75        44.02        42.90 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       31.17        38.01        13.91         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 
       45.17        47.41         4.41        15.68        14.30         9.63 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H0 
       44.81        46.19        32.65        24.49        31.00        15.16 
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-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0RX 
       20.38         2.50        13.61        36.85        51.32         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-A18K TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A1EN 
       90.84        37.74        30.28        55.63        66.05        69.93 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       82.85        42.28        12.00        49.58        17.69        25.81 
TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       89.16        97.48       120.62        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU 
       36.92        63.35        55.00        45.63       144.59        72.07 
TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N 
       83.31        10.65        20.12       109.28         8.94        11.77 
TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
       12.66        12.66        12.66         0.69         0.62         3.85 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HN TCGA-C8-A26V 
       12.33        10.92        11.34         0.16         3.25         0.30 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A 
        0.36         0.43         9.67         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 
        0.99         0.03        20.88        20.58        14.17        13.48 
TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JE 
       21.14        19.20        14.17        16.50        18.71        18.90 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       12.03        14.01        20.09        20.12        20.09        19.40 
TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       20.38        21.01        12.20        13.32        14.70        17.79 
TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG 
       16.73        27.58        18.15         2.66        17.16        14.73 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU 
       19.92        17.69         7.96        15.85         6.35        12.99 
TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27I 
       15.16        15.32         3.81        17.42        16.04        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
        9.44        16.41        13.48         0.76        13.08        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
       14.50        18.51         7.33        27.52        40.41        37.51 
TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14T 
       40.11        28.87        47.15        38.24        38.60        33.30 
TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A155 
       43.33        32.02        28.60        17.03        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        25.05        22.82        17.29        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A15P 
       18.21        12.92        17.42        19.40        20.58        19.56 
TCGA-E2-A15S TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC 
       14.07        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-A1IL 
       17.10        37.41        33.73        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 
       22.19        20.98        54.18        27.42        39.62        19.66 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 
       40.47        28.90        18.87       102.61        43.04        16.93 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1NC 
       15.72        18.05        22.26        19.20        13.48        39.55 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R0 
       12.59        35.77        20.05        21.57         9.86        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA 
        0.62         2.10         6.12         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-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
        0.79        13.32        39.09        22.75        12.89        23.51 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JT 
       24.10        17.06         0.85         1.94        12.56         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO 
       26.07        18.41        15.72         0.23         0.39         0.23 
TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1OV 
       15.39        39.72         8.48        18.21        13.25        25.94 
TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       22.82        29.85        40.41        41.13        39.78        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       29.82        18.48        30.08         6.15        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 
       14.43        34.55        19.96        25.91        21.27        17.49 
TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI 
       10.59       109.87       194.27        53.52        43.04        61.91 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       76.64        77.33        38.20        32.28        53.95        57.63 
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         8.28         6.67 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        2.99         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
        3.19         3.25         3.88         4.14         4.50         4.50 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        6.21        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H 
       27.65        24.10        16.87        14.10         9.80        14.76 
TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-W8-A86G 
       23.70        33.90        31.07        18.21         4.44         5.29 

  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 
                         20.88                          21.65 
[1] "0.0 - 211.6 (20.9)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.3"
D16V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 16(11Q13.3) MUTATED        28       21        4        2       130
  AMP PEAK 16(11Q13.3) WILD-TYPE      52       56        5        7       205
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 16(11Q13.3) MUTATED          82         1         54         13
  AMP PEAK 16(11Q13.3) WILD-TYPE       142         1         84         14
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 16(11Q13.3) MUTATED           20        8         1       5
  AMP PEAK 16(11Q13.3) WILD-TYPE         39        9         0      11
D16V3, multiclass
            clus
vv           AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  STAGE I                              28                             52
  STAGE IA                             21                             56
  STAGE IB                              4                              5
  STAGE II                              2                              7
  STAGE IIA                           130                            205
  STAGE IIB                            82                            142
  STAGE III                             1                              1
  STAGE IIIA                           54                             84
  STAGE IIIB                           13                             14
  STAGE IIIC                           20                             39
  STAGE IV                              8                              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    81 232  38  16
  AMP PEAK 16(11Q13.3) WILD-TYPE 177 349  79  20
D16V4, multiclass
    clus
vv   AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  T1                           81                            177
  T2                          232                            349
  T3                           38                             79
  T4                           16                             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
  AMP PEAK 16(11Q13.3) MUTATED   170 122  47  25
  AMP PEAK 16(11Q13.3) WILD-TYPE 298 208  64  45
D16V5, multiclass
    clus
vv   AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  N0                          170                            298
  N1                          122                            208
  N2                           47                             64
  N3                           25                             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
  AMP PEAK 16(11Q13.3) MUTATED          1 320   8  40
  AMP PEAK 16(11Q13.3) WILD-TYPE        1 525   9  91
D16V6, multiclass
          clus
vv         AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                320                            525
  M1                                  8                              9
  MX                                 40                             91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V7, binary
                                cls
clus                               0   1
  AMP PEAK 16(11Q13.3) MUTATED   362   7
  AMP PEAK 16(11Q13.3) WILD-TYPE 622   4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED    362    7
  AMP PEAK 16(11Q13.3) WILD-TYPE  622    4
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  FEMALE                          362                            622
  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                             288
  AMP PEAK 16(11Q13.3) WILD-TYPE                           447
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 16(11Q13.3) MUTATED                               50
  AMP PEAK 16(11Q13.3) WILD-TYPE                            116
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 16(11Q13.3) MUTATED                     3
  AMP PEAK 16(11Q13.3) WILD-TYPE                   2
                                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                 10             29
D16V8, multiclass
                                  clus
vv                                 AMP PEAK 16(11Q13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             288
  INFILTRATING LOBULAR CARCINOMA                             50
  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                               447
  INFILTRATING LOBULAR CARCINOMA                              116
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           10
  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   106 263
  AMP PEAK 16(11Q13.3) WILD-TYPE 176 450
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED    106  263
  AMP PEAK 16(11Q13.3) WILD-TYPE  176  450
     clus
vv    AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  NO                           106                            176
  YES                          263                            450
[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                          50   248
  AMP PEAK 16(11Q13.3) WILD-TYPE                        87   460
D16V11, multiclass
                                  clus
vv                                 AMP PEAK 16(11Q13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  50
  WHITE                                                     248
                                  clus
vv                                 AMP PEAK 16(11Q13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    87
  WHITE                                                       460
[1] 4 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    15 287
  AMP PEAK 16(11Q13.3) WILD-TYPE  21 509
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED     15  287
  AMP PEAK 16(11Q13.3) WILD-TYPE   21  509
                        clus
vv                       AMP PEAK 16(11Q13.3) MUTATED
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          287
                        clus
vv                       AMP PEAK 16(11Q13.3) WILD-TYPE
  HISPANIC OR LATINO                                 21
  NOT HISPANIC OR LATINO                            509
[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   209  33
  AMP PEAK 17(11Q14.1) WILD-TYPE 651  81
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                           242                            732 
  AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE 
                            33                             81 
$`AMP PEAK 17(11Q14.1) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN 
       14.37        20.88        13.68        31.79         7.96        39.32 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CL 
       28.01        19.20        18.21        73.84        22.06        64.57 
TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
       64.04        21.14        80.28        79.76        74.40        37.05 
TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SW TCGA-A2-A0T1 
       34.29        29.75        24.16        99.19        44.88        17.13 
TCGA-A2-A0T4 TCGA-A2-A0YE TCGA-A2-A0YJ TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A3KC 
       20.52        18.21        18.61        36.79        19.20        20.88 
TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CJ 
       39.65        83.01         7.30         3.42        38.30        30.61 
TCGA-A7-A0DA TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A3IZ TCGA-A7-A3J0 
       35.67        10.72        24.26        23.74        10.59        10.29 
TCGA-A7-A4SB TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A6VW TCGA-A8-A06Q TCGA-A8-A06Z 
       13.74        17.92        12.10         9.37         1.02         1.02 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I 
       17.03         9.01        33.01        18.97        18.97        14.01 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08I 
        9.99         8.98        13.02        23.08        18.05        12.00 
TCGA-A8-A08R TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M 
        0.99         9.99         1.02        31.00        33.07        15.02 
TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 
       25.02         0.99        12.00        13.02        21.04         0.99 
TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A62Y 
       13.02        17.03        14.83         1.81         0.07         1.81 
TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AL 
        0.43         0.33         0.33         0.62         1.78         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FK TCGA-AN-A0FV TCGA-AN-A0FX 
        0.33         0.33         0.33         7.00         0.33         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A0J6 
        0.33         0.33         0.33         0.33         5.59        37.48 
TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A126 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12G 
       76.77        26.24        93.70        90.58        77.56        41.62 
TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AR-A0TT TCGA-AR-A0TV 
       17.79       130.09        15.62        21.86        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0U2 TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A24K TCGA-AR-A24R 
       24.30        83.87        39.98        46.32        50.89        57.40 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A2LR TCGA-B6-A0I2 TCGA-B6-A0I9 
       54.18        51.75        56.15        20.38       143.38        12.13 
TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IO TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0RS 
      129.57        65.72       110.14       211.56        81.17       100.70 
TCGA-B6-A0WY TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A1KI TCGA-B6-A408 TCGA-B6-A40B 
      113.79       129.70       186.48        73.51        49.94        82.88 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG 
       38.79        25.55        32.02        18.21        25.71        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DI 
       21.70        53.69        45.57        45.83        23.44        22.13 
TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0E0 TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       17.26        15.65         4.41        24.43        30.35        10.78 
TCGA-BH-A0H7 TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M 
       23.08        50.79        23.93         7.23        20.12        72.56 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       30.28        37.55         7.36        51.39        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A202 
       91.99        24.66       114.15        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28Q TCGA-C8-A12L TCGA-C8-A12P 
       38.60        57.83       130.16         6.44        11.93        11.77 
TCGA-C8-A12Q TCGA-C8-A278 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 
        0.07         0.03        12.20        11.90        13.25        13.97 
TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1X5 TCGA-D8-A1X8 TCGA-D8-A1XF 
       17.49        15.78        12.03        18.58        25.74        15.22 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY 
       21.83        14.50        16.31        12.99        12.66        16.54 
TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27R 
       15.52        14.14        13.45        13.05        13.48        10.09 
TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14X TCGA-E2-A152 
       40.41        28.44        38.60        33.17        31.96        27.12 
TCGA-E2-A155 TCGA-E2-A15A TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1IE TCGA-E2-A1II 
       21.04        23.34        60.53        53.62        38.30        33.70 
TCGA-E2-A1IU TCGA-E2-A1LK TCGA-E2-A2P6 TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1NA 
       11.08         8.75         5.52        19.89        12.00        36.56 
TCGA-E9-A1QZ TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A228 TCGA-E9-A22G TCGA-E9-A244 
       11.90         2.76        20.81        12.53        23.51         0.69 
TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A5FL TCGA-EW-A1J6 
       27.22         0.95         0.72        17.75         0.26        28.77 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A2FW TCGA-GM-A2D9 
       23.11         7.86        18.90        19.99        22.09        59.57 
TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A3NW TCGA-GM-A3XL TCGA-LL-A441 TCGA-LL-A6FQ 
       53.13        42.28       110.50        69.30         2.99         2.63 
TCGA-LL-A73Y TCGA-OL-A5D7 
        4.14        46.55 

$`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       125.59        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        14.63        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        14.07        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         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
       12.00         6.74        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        41.06        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         9.96         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        19.99        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        19.07        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       19.07        16.01        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        13.02        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         9.40         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IV 
        1.68         1.55         1.32         1.55         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D 
        0.69         1.74         0.23         0.33         2.96         1.71 
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-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0XL 
        7.59         7.17         6.28         6.02         0.36         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-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-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 
       47.87        59.05        29.13        32.78        21.40        17.65 
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-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       50.86        72.00        21.37        38.53        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12D 
       71.80       102.58        99.25        94.59        96.10        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-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
       70.39         0.53        24.79        26.93         5.65        13.22 
TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
        2.56         9.99        82.88        49.32         5.26        37.41 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 
       64.83        55.86        76.14        65.36        70.16        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       55.36        75.55        61.84        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        40.83 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L 
       42.58        35.24        36.26        20.22       109.58        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S 
       65.46        68.19        65.69         0.85        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 
       53.26        53.36        50.96        48.16        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
       39.85        34.82        93.83       128.65        20.25        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM 
        7.36        40.04        17.10        20.81        16.96        54.74 
TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA 
       16.04        20.45        10.59        77.62       149.59       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-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
       84.59       110.93       140.88        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-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-A0WZ TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC 
       21.47       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-A40C 
      101.52       139.17       170.17        85.35        54.28        55.00 
TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       24.53        20.45        28.50        46.95        40.83        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-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS 
       44.05        61.68        35.67        48.69        27.19        53.95 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 
       49.94        11.67        49.05        41.75        44.02        48.13 
TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ 
       42.90        31.17        38.01        13.91        48.23         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-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-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       52.96        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W4 
       36.85        12.89        51.32        27.25         5.59        24.95 
TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K 
       42.35        44.81        23.05         8.81         2.01        90.84 
TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A1ES TCGA-BH-A1ET 
       26.66        37.74        55.63        66.05       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-A1FB TCGA-BH-A1FD TCGA-BH-A1FE 
       31.53        89.16        97.48       120.62        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-A204 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U 
       72.07        83.31        10.65        20.12         0.99       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12V 
        8.94        11.77        11.77        12.66        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66         3.12         1.78         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.62         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         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-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z 
        0.03         0.03         0.99         0.03         0.23        20.88 
TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 
       20.58        14.17        13.48        21.14        19.20        14.17 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH 
       16.50        18.71        18.15        18.90        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-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-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT 
       19.92        17.69         7.96        16.41        15.85         6.35 
TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F 
       15.16        15.32         3.81        14.24        17.42        16.04 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T 
       14.43         9.44        16.41         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-A10B TCGA-E2-A10C TCGA-E2-A10F 
       34.42        27.52        46.59        37.51        40.11        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14T TCGA-E2-A14U 
       47.15        44.68        40.96        38.24        33.30        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 
       34.26        32.02        28.60        17.03        25.41        23.24 
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-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-A1B6 
       14.07        14.99        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-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-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-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A3DX TCGA-E2-A56Z 
      106.75       102.61        43.04        16.93        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N9 
       18.05        22.26        19.20        36.82        13.48        13.12 
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-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-A1RA TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
       32.09        40.24         0.66        34.65         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A 
       34.59        35.64        34.13         0.79        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 
       22.75        12.89        24.10        17.06         0.85         1.94 
TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
       12.56         0.76        26.07        18.41         0.62        15.72 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
        0.23         0.39         0.23        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-A1P0 
       25.94        22.82        29.95        29.85        40.41        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PC 
       39.78        52.96        29.82        18.48        30.08         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 
       52.73        25.91        21.27        17.49        10.16        10.59 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
        7.40       109.87       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-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       38.20        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       11.84        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
        3.58         6.90         5.56         4.70         3.65         3.19 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 
        3.25         3.88         4.50         4.50         5.59         3.22 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        6.21        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       10.29         9.80        14.76        23.70        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         6.81         5.29 

  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 
                        20.845                         21.700 
[1] "0.0 - 211.6 (20.8)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.3"
D17V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 17(11Q14.1) MUTATED        18       15        2        1        94
  AMP PEAK 17(11Q14.1) WILD-TYPE      62       62        7        8       241
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 17(11Q14.1) MUTATED          45         0         36          7
  AMP PEAK 17(11Q14.1) WILD-TYPE       179         2        102         20
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 17(11Q14.1) MUTATED           17        6         1       3
  AMP PEAK 17(11Q14.1) WILD-TYPE         42       11         0      13
D17V3, multiclass
            clus
vv           AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  STAGE I                              18                             62
  STAGE IA                             15                             62
  STAGE IB                              2                              7
  STAGE II                              1                              8
  STAGE IIA                            94                            241
  STAGE IIB                            45                            179
  STAGE III                             0                              2
  STAGE IIIA                           36                            102
  STAGE IIIB                            7                             20
  STAGE IIIC                           17                             42
  STAGE IV                              6                             11
  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    56 158  21   8
  AMP PEAK 17(11Q14.1) WILD-TYPE 202 423  96  28
D17V4, multiclass
    clus
vv   AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  T1                           56                            202
  T2                          158                            423
  T3                           21                             96
  T4                            8                             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 17(11Q14.1) MUTATED   121  68  33  20
  AMP PEAK 17(11Q14.1) WILD-TYPE 347 262  78  50
D17V5, multiclass
    clus
vv   AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  N0                          121                            347
  N1                           68                            262
  N2                           33                             78
  N3                           20                             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 17(11Q14.1) MUTATED          1 216   6  22
  AMP PEAK 17(11Q14.1) WILD-TYPE        1 629  11 109
D17V6, multiclass
          clus
vv         AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                216                            629
  M1                                  6                             11
  MX                                 22                            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"
D17V7, binary
                                cls
clus                               0   1
  AMP PEAK 17(11Q14.1) MUTATED   240   5
  AMP PEAK 17(11Q14.1) WILD-TYPE 744   6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED    240    5
  AMP PEAK 17(11Q14.1) WILD-TYPE  744    6
        clus
vv       AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  FEMALE                          240                            744
  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                             199
  AMP PEAK 17(11Q14.1) WILD-TYPE                           536
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 17(11Q14.1) MUTATED                               26
  AMP PEAK 17(11Q14.1) WILD-TYPE                            140
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 17(11Q14.1) MUTATED                     2
  AMP PEAK 17(11Q14.1) WILD-TYPE                   3
                                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                 12             32
D17V8, multiclass
                                  clus
vv                                 AMP PEAK 17(11Q14.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             199
  INFILTRATING LOBULAR CARCINOMA                             26
  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                               536
  INFILTRATING LOBULAR CARCINOMA                              140
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             26
  MUCINOUS CARCINOMA                                           12
  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    67 178
  AMP PEAK 17(11Q14.1) WILD-TYPE 215 535
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED     67  178
  AMP PEAK 17(11Q14.1) WILD-TYPE  215  535
     clus
vv    AMP PEAK 17(11Q14.1) MUTATED AMP PEAK 17(11Q14.1) WILD-TYPE
  NO                            67                            215
  YES                          178                            535
[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                          33   171
  AMP PEAK 17(11Q14.1) WILD-TYPE                       104   537
D17V11, multiclass
                                  clus
vv                                 AMP PEAK 17(11Q14.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                       9
  BLACK OR AFRICAN AMERICAN                                  33
  WHITE                                                     171
                                  clus
vv                                 AMP PEAK 17(11Q14.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        47
  BLACK OR AFRICAN AMERICAN                                   104
  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"
D17V12, binary
                                cls
clus                               0   1
  AMP PEAK 17(11Q14.1) MUTATED     6 194
  AMP PEAK 17(11Q14.1) WILD-TYPE  30 602
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q14.1) MUTATED      6  194
  AMP PEAK 17(11Q14.1) WILD-TYPE   30  602
                        clus
vv                       AMP PEAK 17(11Q14.1) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          194
                        clus
vv                       AMP PEAK 17(11Q14.1) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            602
[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   231  31
  AMP PEAK 18(12P13.33) WILD-TYPE 629  83
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                            262                             712 
  AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE 
                             31                              83 
$`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         9.96        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        19.07        16.01         9.99         1.02        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A9 
       15.02         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         1.81         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 
       17.65        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        37.41        29.75 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AQ TCGA-AR-A24H 
       76.18        55.36        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 
       66.05        50.96        51.75        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        22.26        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-LL-A440 TCGA-LL-A441 
       43.04        42.71        69.30         8.28         0.66         2.99 
TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 
        3.25         2.63         4.14         5.59         3.22         6.21 
TCGA-OL-A5D7 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-S3-A6ZG 
       46.55        24.10        26.20         6.81 

$`AMP PEAK 18(12P13.33) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SM 
        8.52        14.37        43.43        14.27        20.88         7.96 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U 
       18.21       104.81        18.02        41.95        82.16        22.06 
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       125.59        64.57 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CT 
       24.79       112.08        92.48        88.60       107.93        75.25 
TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       63.45        64.04        34.55        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-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV 
       31.82        29.75        24.72        99.19        54.64        27.12 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 
       44.88        50.43        44.28        17.52        17.13         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        14.63 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       23.77        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-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        14.07 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       38.40        34.98        31.99         7.30         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0CH 
        8.91        12.00         6.74         3.42        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H 
       30.61        37.45        35.67        33.11        23.61        29.56 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IY TCGA-A7-A3IZ 
       24.26        23.74        23.80        21.73        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A5ZW 
       10.29        11.28        13.41        11.97        14.93        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q 
       11.05        10.29         8.75        13.02        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A07B 
       41.06        29.03        31.00         1.02        17.03        33.01 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O 
       19.99        18.97        18.97        14.01        12.00         9.99 
TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
       10.98         7.99         9.99        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I 
       13.02         0.99        23.08        19.99        18.05        12.00 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 
        9.99        31.00        93.04        33.99        40.01        19.07 
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        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W 
       31.00        33.07         8.98        19.04        15.02         0.99 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD 
       19.04        13.02        21.04         0.99        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-A2FO TCGA-AC-A2QI 
       40.57        55.43        36.99        38.79        50.70         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         9.40         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y 
        1.68         1.55         1.32         1.55         0.07         1.81 
TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.18         0.43         1.74         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS 
        0.62         2.96         1.71         8.02         7.36         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         6.44         4.64         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-A0XS TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03R 
        0.33         0.33         5.33         5.59        47.84        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 
       47.87        59.05        29.13        21.40        24.16        37.48 
TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       22.36        21.53        50.70        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        38.53        62.04        71.80        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12G TCGA-AO-A12H 
       94.59        90.58        77.56        64.04        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H2 
       14.73        82.62        17.79        24.79       130.09        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TT 
       13.22        21.86         9.99        82.88         5.26        56.88 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       24.30        64.83        55.86        76.14        65.36        70.16 
TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       83.87        75.55        52.77        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        40.83        46.32        42.58 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       35.24        36.26        20.22        50.89        73.02        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T 
       68.19        65.69         0.85        57.40        62.07        53.26 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       53.36        54.18        48.16        56.15        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
       39.85        34.82        93.83       128.65        20.25        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN 
        7.36        40.04        17.10        20.81        16.96        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB 
       20.45        10.59        77.62       149.59       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-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
       84.59       110.93        68.45       189.01       234.28        81.17 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU 
       78.02       172.96       102.77       140.48        89.46       131.21 
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-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KN 
      129.70        28.27        68.94        58.88       101.52       139.17 
TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY 
      170.17        85.35        82.88        55.00        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 
       28.50        46.95        40.83        39.55        39.16        56.94 
TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM 
       56.98        32.02        18.21        25.71        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV 
       35.67        48.69        27.19        53.69        53.95        49.94 
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-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO 
       31.17        23.44        38.01        22.13        13.91        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-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA 
       16.27        15.68        14.30         9.63        46.19        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-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-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-A18M 
       23.05         8.81         2.01         7.23        20.12        72.56 
TCGA-BH-A18P TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET 
       30.28        66.05        51.39        69.93       113.82        82.85 
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-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-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       63.35        55.00        45.63       144.59        72.07         6.90 
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-A12M TCGA-C8-A12N TCGA-C8-A12Q 
        0.99       109.28         8.94        11.77        11.77         0.07 
TCGA-C8-A12V 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-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Y 
       10.42         3.25         0.30         0.23         0.36         0.43 
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-A140 TCGA-D8-A141 TCGA-D8-A142 
        0.03         0.23        11.90        13.25        20.58        13.97 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JE 
       13.48        21.14        17.49        16.50        18.71        18.90 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       12.03        12.03        14.01        18.97        20.09        20.12 
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-A1XF TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
        2.66        15.22        14.73        19.92        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-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G 
       16.54         3.81        14.24        14.14        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-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A 
       12.53        14.50         7.33        43.00        27.52        40.41 
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-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 
       34.26        32.02        31.96        28.60        17.03        23.24 
TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       19.43        21.04        23.87        25.05        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-A15M TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 
       20.58         7.73        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-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       38.30        37.41        32.78        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-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A2P6 
       24.59        40.47        28.90        18.87         8.75         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1ND TCGA-E9-A1NE 
       15.72        18.05        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        12.56         0.76        26.07        18.41        15.72 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
        0.23         0.39         0.26         0.23        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-A1OV TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 
       15.68        25.94        29.95        29.85        40.41        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-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        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-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DH 
        7.40        59.57       194.27        53.13        53.52        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-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
      110.50        38.20        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A442 
       18.12        11.84        11.57         6.67         4.60         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FR 
        6.90         5.56         4.70         3.65         3.19         3.88 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        4.50         4.50        15.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
        7.53        44.61        27.65        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       18.21         7.23         4.44         5.29 

  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 
                         22.045                          21.320 
[1] "0.2 - 211.6 (22.0)" "0.0 - 234.3 (21.3)"
[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        2       100
  AMP PEAK 18(12P13.33) WILD-TYPE      62       64        8        7       235
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 18(12P13.33) MUTATED          54         0         42          9
  AMP PEAK 18(12P13.33) WILD-TYPE       170         2         96         18
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 18(12P13.33) MUTATED           17        5         0       5
  AMP PEAK 18(12P13.33) WILD-TYPE         42       12         1      11
D18V3, multiclass
            clus
vv           AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  STAGE I                               18                              62
  STAGE IA                              13                              64
  STAGE IB                               1                               8
  STAGE II                               2                               7
  STAGE IIA                            100                             235
  STAGE IIB                             54                             170
  STAGE III                              0                               2
  STAGE IIIA                            42                              96
  STAGE IIIB                             9                              18
  STAGE IIIC                            17                              42
  STAGE IV                               5                              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 18(12P13.33) MUTATED    46 174  33  12
  AMP PEAK 18(12P13.33) WILD-TYPE 212 407  84  24
D18V4, multiclass
    clus
vv   AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  T1                            46                             212
  T2                           174                             407
  T3                            33                              84
  T4                            12                              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 18(12P13.33) MUTATED   130  82  31  20
  AMP PEAK 18(12P13.33) WILD-TYPE 338 248  80  50
D18V5, multiclass
    clus
vv   AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  N0                           130                             338
  N1                            82                             248
  N2                            31                              80
  N3                            20                              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 18(12P13.33) MUTATED          0 230   5  31
  AMP PEAK 18(12P13.33) WILD-TYPE        2 615  12 100
D18V6, multiclass
          clus
vv         AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  CM0 (I+)                             0                               2
  M0                                 230                             615
  M1                                   5                              12
  MX                                  31                             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"
D18V7, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED   265   1
  AMP PEAK 18(12P13.33) WILD-TYPE 719  10
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED    265    1
  AMP PEAK 18(12P13.33) WILD-TYPE  719   10
        clus
vv       AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  FEMALE                           265                             719
  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                             220
  AMP PEAK 18(12P13.33) WILD-TYPE                           515
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 18(12P13.33) MUTATED                               23
  AMP PEAK 18(12P13.33) WILD-TYPE                            143
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 18(12P13.33) MUTATED                     4
  AMP PEAK 18(12P13.33) WILD-TYPE                   1
                                 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                 13             36
D18V8, multiclass
                                  clus
vv                                 AMP PEAK 18(12P13.33) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              220
  INFILTRATING LOBULAR CARCINOMA                              23
  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                                515
  INFILTRATING LOBULAR CARCINOMA                               143
  MEDULLARY CARCINOMA                                            1
  MIXED HISTOLOGY (PLEASE SPECIFY)                              20
  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"
D18V9, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED    82 184
  AMP PEAK 18(12P13.33) WILD-TYPE 200 529
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED     82  184
  AMP PEAK 18(12P13.33) WILD-TYPE  200  529
     clus
vv    AMP PEAK 18(12P13.33) MUTATED AMP PEAK 18(12P13.33) WILD-TYPE
  NO                             82                             200
  YES                           184                             529
[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                          52   173
  AMP PEAK 18(12P13.33) WILD-TYPE                        85   535
D18V11, multiclass
                                  clus
vv                                 AMP PEAK 18(12P13.33) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       13
  BLACK OR AFRICAN AMERICAN                                   52
  WHITE                                                      173
                                  clus
vv                                 AMP PEAK 18(12P13.33) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         43
  BLACK OR AFRICAN AMERICAN                                     85
  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"
D18V12, binary
                                 cls
clus                                0   1
  AMP PEAK 18(12P13.33) MUTATED     5 219
  AMP PEAK 18(12P13.33) WILD-TYPE  31 577
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 18(12P13.33) MUTATED      5  219
  AMP PEAK 18(12P13.33) WILD-TYPE   31  577
                        clus
vv                       AMP PEAK 18(12P13.33) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           219
                        clus
vv                       AMP PEAK 18(12P13.33) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             577
[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   218  33
  AMP PEAK 19(12Q15) WILD-TYPE 642  81
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                         251                          723 
  AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE 
                          33                           81 
$`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        41.06 
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        23.08        18.05 
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        19.07 
TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09M 
       16.01         9.99         1.02        13.02        33.07        15.02 
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         1.81         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        21.86        82.88        49.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AV 
       56.88        24.30        64.83        83.87        51.25        42.58 
TCGA-AR-A24M TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A256 
       65.46        54.18        50.96        51.75        56.15        93.83 
TCGA-AR-A2LN TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0RH 
       17.10        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-E9-A1N6 TCGA-E9-A1N9 
       24.59        16.93         7.20        19.89        13.48        13.12 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R6 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RF 
       20.05         9.86         2.76        20.81        40.24         6.58 
TCGA-E9-A1RG TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS 
       21.27        23.51         0.69        27.22         0.72        17.75 
TCGA-E9-A54Y TCGA-E9-A5UO TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P5 
        0.23         0.23        28.77        22.82        29.85        23.11 
TCGA-EW-A1PD TCGA-EW-A2FV TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DH TCGA-GM-A2DK 
       13.94        25.91       109.87        59.57        42.28        62.33 
TCGA-LD-A66U TCGA-LL-A440 TCGA-LL-A5YM TCGA-LL-A6FQ TCGA-LL-A740 TCGA-LL-A7SZ 
        8.28         0.66         4.70         2.63         4.50         5.59 
TCGA-LL-A7T0 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A66O TCGA-S3-A6ZG 
        3.22        24.10        26.20         7.23         6.81 

$`AMP PEAK 19(12Q15) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        47.24        20.88 
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-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       18.02        41.95        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 
      125.59        64.57       112.08        92.48        88.60       107.93 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D1 TCGA-A2-A0D2 
       75.25         5.19        63.45        64.04        34.55        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-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       79.76        74.40        37.05        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 
       99.19        54.64        27.12        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-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-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       14.63        31.73        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-A25C 
       19.20        19.56        16.47        52.47       107.70        17.19 
TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT 
       18.15        10.59        20.88        39.65        33.93        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW 
       29.98        14.07        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 
        9.01         8.81         8.91        12.00         6.74         3.42 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA 
       35.31        34.29        35.47        30.61        37.45        35.67 
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-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A3IY TCGA-A7-A3IZ 
       24.26        23.74        23.80        21.73        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD 
       10.29        11.28        13.41        11.97        14.93        14.50 
TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW 
       21.17        12.10        10.72        11.05        10.29         9.37 
TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A07B 
        8.75        13.02        13.02        31.00        26.01        33.01 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O 
       19.99        18.97        14.01        12.00        17.03         9.99 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 
        7.99         9.96        18.05        15.06        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A08T TCGA-A8-A08X 
        0.99        19.99        12.00        31.00        93.04        33.99 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       40.01        19.07        17.95        41.98        12.00         9.99 
TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       12.00        31.00        29.98         1.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0AB 
       15.02         0.99        19.04        13.02        21.04        17.03 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
       38.04         0.95        10.85         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QI 
       40.57        55.43        36.99        38.79         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         9.40         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X 
        1.68         1.55         1.32         1.55         0.07         1.12 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X 
        1.81         1.18         0.69         0.43         1.74         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK 
        0.23         0.33         0.62         2.96         1.78         7.36 
TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         0.33         6.44         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-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M 
        0.33         0.33         0.33         5.33         5.59        47.84 
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        17.65        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE 
       37.48        22.36        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-A124 
       21.37        26.24        38.53        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        93.70        94.59        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       64.04        48.36        41.62        28.37        14.73        82.62 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 
       70.39        17.79        24.79        26.93       130.09        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TY 
       13.22         2.56         9.99        37.41        29.75        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       76.14        65.36        70.16        76.18        55.36        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       61.84        52.77        48.82        62.56        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        40.83        46.32        35.24 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24N 
       36.26        20.22       109.58        50.89        73.02        68.19 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T 
       65.69         0.85        66.05        57.40        62.07        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 
       53.36        48.16        45.17        40.64        39.85        34.82 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LO 
      128.65        20.25        42.87         7.36        40.04        20.81 
TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       16.96        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-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      146.50       112.37        18.77       126.12        84.59       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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU 
      172.96       102.77       140.48       100.70        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-A401 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
      170.17        85.35        54.28        82.88        55.00        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B6 
       20.45        25.55        28.50        46.95        40.83        56.94 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ 
       56.98        51.68        32.02        18.21        25.71        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-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE 
       49.94        49.05        41.75        48.13        42.90        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-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 
       15.65         2.56        38.47        45.17        16.27         4.41 
TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI 
       15.68         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-A0HA 
       10.78        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-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-A18J 
       44.81        23.05         8.81         2.01         7.23        20.12 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       72.56        30.28        55.63        66.05         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX TCGA-BH-A1EY 
       51.16        69.93       113.82        82.85        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD 
       25.81        31.53        89.16        24.66       120.62        33.17 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN 
       74.73       122.89        36.92        63.35        55.00        72.07 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 
      144.59        72.07         6.90         0.72        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-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-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE 
        1.78         1.45         0.69         0.62         3.85        12.33 
TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W 
       10.92         0.16        10.42         2.30         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A27A 
        0.36         0.43         9.67         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 
        0.99         0.03         0.23        20.58        13.97        14.17 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.48        21.14        19.20        17.49        16.50        18.71 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       12.03        12.03        14.01        18.97        20.09        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.09        19.40        20.38        12.20        13.32        14.70 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB 
       18.58        17.79        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-A1XM 
        2.66        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-A1XV 
        7.96        16.41        15.85        16.31         6.35        15.16 
TCGA-D8-A1XW TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
       12.66         3.81        14.24        14.14        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-A27T TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 
        4.80         0.76        13.08        14.50         7.33        43.00 
TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P 
       27.52        40.41        28.44        28.87        47.15        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y 
       38.24        38.60        33.17        43.33        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-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-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
       19.56        17.06        14.99        60.53        53.62        53.03 
TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF 
       29.95        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-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       54.18        27.42        19.66        40.47        28.90        18.87 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
      106.75       102.61         8.75        43.04         5.52        15.72 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NA 
       18.05        22.26        19.20        36.82        12.00        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 
       39.55        12.59        35.77        21.57        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RA 
        0.62         2.10         6.12         1.38        21.21        32.09 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
        0.66        34.65        34.59        35.64        34.13         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H 
       12.53        13.32        39.09        22.75        12.89        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT 
       17.06         0.85         1.94         0.95        12.56         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL 
       26.07        18.41         0.62        15.72         0.39         0.26 
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-A1OZ 
       13.25        16.57        15.68        25.94        29.95        40.41 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 
       41.13        39.78        52.96        29.82        18.48        30.08 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF 
        7.86        18.90        19.99         6.15        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 
       34.55        19.96        55.00        52.73        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2DA TCGA-GM-A2DB 
       17.49        10.16        10.59         7.40       194.27        53.13 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DM 
       53.52        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-A3XL 
       77.33        53.36       110.50        38.20        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        6.67         4.60         2.99         3.58         6.90         5.56 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
        3.65         3.19         3.25         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        15.91         2.79         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
        7.53        44.61        27.65        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66P TCGA-W8-A86G 
       18.21         4.44         5.29 

  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 
                       21.47                        21.37 
[1] "0.0 - 189.0 (21.5)" "0.0 - 234.3 (21.4)"
[1] "hr=" "1.4"
D19V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 19(12Q15) MUTATED        20       13        1        2        80
  AMP PEAK 19(12Q15) WILD-TYPE      60       64        8        7       255
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 19(12Q15) MUTATED          56         0         49         11
  AMP PEAK 19(12Q15) WILD-TYPE       168         2         89         16
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 19(12Q15) MUTATED           17        5         0       3
  AMP PEAK 19(12Q15) WILD-TYPE         42       12         1      13
D19V3, multiclass
            clus
vv           AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  STAGE I                            20                           60
  STAGE IA                           13                           64
  STAGE IB                            1                            8
  STAGE II                            2                            7
  STAGE IIA                          80                          255
  STAGE IIB                          56                          168
  STAGE III                           0                            2
  STAGE IIIA                         49                           89
  STAGE IIIB                         11                           16
  STAGE IIIC                         17                           42
  STAGE IV                            5                           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 19(12Q15) MUTATED    50 164  29  15
  AMP PEAK 19(12Q15) WILD-TYPE 208 417  88  21
D19V4, multiclass
    clus
vv   AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  T1                         50                          208
  T2                        164                          417
  T3                         29                           88
  T4                         15                           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 19(12Q15) MUTATED   105  85  43  20
  AMP PEAK 19(12Q15) WILD-TYPE 363 245  68  50
D19V5, multiclass
    clus
vv   AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  N0                        105                          363
  N1                         85                          245
  N2                         43                           68
  N3                         20                           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 19(12Q15) MUTATED          0 228   5  25
  AMP PEAK 19(12Q15) WILD-TYPE        2 617  12 106
D19V6, multiclass
          clus
vv         AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  CM0 (I+)                          0                            2
  M0                              228                          617
  M1                                5                           12
  MX                               25                          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"
D19V7, binary
                              cls
clus                             0   1
  AMP PEAK 19(12Q15) MUTATED   251   7
  AMP PEAK 19(12Q15) WILD-TYPE 733   4
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED    251    7
  AMP PEAK 19(12Q15) WILD-TYPE  733    4
        clus
vv       AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  FEMALE                        251                          733
  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                             213
  AMP PEAK 19(12Q15) WILD-TYPE                           522
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 19(12Q15) MUTATED                               28
  AMP PEAK 19(12Q15) WILD-TYPE                            138
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 19(12Q15) MUTATED                     1
  AMP PEAK 19(12Q15) WILD-TYPE                   4
                              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                 12             38
D19V8, multiclass
                                  clus
vv                                 AMP PEAK 19(12Q15) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           213
  INFILTRATING LOBULAR CARCINOMA                           28
  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                             522
  INFILTRATING LOBULAR CARCINOMA                            138
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           21
  MUCINOUS CARCINOMA                                         12
  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    72 186
  AMP PEAK 19(12Q15) WILD-TYPE 210 527
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED     72  186
  AMP PEAK 19(12Q15) WILD-TYPE  210  527
     clus
vv    AMP PEAK 19(12Q15) MUTATED AMP PEAK 19(12Q15) WILD-TYPE
  NO                          72                          210
  YES                        186                          527
[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                          40   164
  AMP PEAK 19(12Q15) WILD-TYPE                        97   544
D19V11, multiclass
                                  clus
vv                                 AMP PEAK 19(12Q15) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    16
  BLACK OR AFRICAN AMERICAN                                40
  WHITE                                                   164
                                  clus
vv                                 AMP PEAK 19(12Q15) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      40
  BLACK OR AFRICAN AMERICAN                                  97
  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"
D19V12, binary
                              cls
clus                             0   1
  AMP PEAK 19(12Q15) MUTATED     6 196
  AMP PEAK 19(12Q15) WILD-TYPE  30 600
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 19(12Q15) MUTATED      6  196
  AMP PEAK 19(12Q15) WILD-TYPE   30  600
                        clus
vv                       AMP PEAK 19(12Q15) MUTATED
  HISPANIC OR LATINO                              6
  NOT HISPANIC OR LATINO                        196
                        clus
vv                       AMP PEAK 19(12Q15) WILD-TYPE
  HISPANIC OR LATINO                               30
  NOT HISPANIC OR LATINO                          600
[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   148  19
  AMP PEAK 20(13Q34) WILD-TYPE 712  95
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                         167                          807 
  AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE 
                          19                           95 
$`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        19.07        41.98        12.00         1.02        15.02 
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         1.81         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        82.88        56.88        76.18        43.73 
TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24U TCGA-AR-A256 TCGA-AR-A2LR TCGA-B6-A0IB 
       35.24       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 
       22.26        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-LL-A6FQ TCGA-LL-A73Y TCGA-MS-A51U TCGA-S3-A6ZG 
       11.57         2.63         4.14         2.79         6.81 

$`AMP PEAK 20(13Q34) 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-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88         7.96        39.32        19.20        18.21       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W 
       18.02        41.95        82.16        22.06        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       125.59        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-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-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SU TCGA-A2-A0SV 
       34.29        31.82        29.75        24.72        54.64        27.12 
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-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-A0YT 
       21.90        21.67        14.50        19.33        14.63        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-A3XU TCGA-A2-A3XV 
       91.92        10.59        20.88        39.65        29.98        14.07 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX 
       49.48        38.40        34.98        31.99         7.30         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
        8.81         8.91        12.00         6.74         3.42        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E 
       34.29        35.47        30.61        37.45        33.11        10.72 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H 
       12.72        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-A3J1 
       21.73        20.61        22.32        11.34        10.59        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-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-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z 
       17.98        41.06        29.03        31.00        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        33.01        19.99        18.97 
TCGA-A8-A07G 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 
        9.96         9.99        28.04        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08O 
       13.02         0.99        23.08        19.99        18.05        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00         0.99        19.07        93.04        33.99        40.01 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D 
       16.01        17.95         9.99         9.99        12.00        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R 
       31.00        33.07        29.98         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-A0AD TCGA-AC-A23C 
       13.02        21.04         0.99        13.02        38.04         0.95 
TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FB 
        2.37        10.85         2.66        38.53        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-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 
        2.27         0.99         0.69         9.40         1.12         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y 
        1.55         1.32         1.55         0.07         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A046 TCGA-AN-A049 
        1.18         0.69         0.43         0.33         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD 
        2.96         8.02         7.36         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0XL 
        4.64         7.00         7.59         7.17         6.28         0.33 
TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.30         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-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       47.87        29.13        32.78        21.40        17.65        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD 
       37.48        22.36        53.03        21.53        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        38.53        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12E TCGA-AO-A12F 
       71.80        99.25        93.70        94.59        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-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-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR 
       13.22         2.56        21.86         9.99        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       37.41        29.75        24.30        64.83        55.86        76.14 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       65.36        70.16        83.87        55.36        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP 
       52.77        51.25        48.82        62.56        43.56        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX 
       43.07        17.23        40.83        46.32        42.58        36.26 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22        50.89        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24V 
        0.85        66.05        57.40        62.07        53.26        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       50.96        48.16        51.75        56.15        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL 
       39.85        34.82       128.65        20.25        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        17.10        20.81        16.96        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-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK 
      220.90        50.70        65.72       146.50       112.37        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       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-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-A1KC 
      129.70       186.48        28.27        68.94        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-A0AW TCGA-BH-A0AY 
       49.94        82.88        55.00        24.53        20.45        25.55 
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-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       56.94        56.98        37.22        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       24.85        21.70        44.05        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-A0DD TCGA-BH-A0DE TCGA-BH-A0DG 
       41.75        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-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-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE 
       15.68         9.63        44.81        46.19        32.65        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-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-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
        5.85         2.50        13.61        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-A18L TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
       26.66        72.56        30.28        37.55        66.05         7.36 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       51.39        69.93        91.99       113.82        82.85        42.28 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       12.00        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-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
      122.89        36.92        63.35        55.00       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-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-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 
       12.66         3.12         1.45         0.62         3.85         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK 
       12.33        10.92        11.34        11.34         0.16        12.03 
TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
       10.42         2.30         3.25         0.30         0.23         0.36 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 
        8.28         9.67         0.03         0.03        12.20         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A145 
        0.23        11.90        20.88        13.25        13.97        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-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       15.78        18.15        18.90        12.03        14.01        18.97 
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-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XK 
       27.58        18.15         2.66        17.16        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       19.92        17.69         7.96        15.85        16.31         6.35 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       12.99        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-A27I 
       14.24        14.14        17.42        16.04        13.45        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
        9.44        16.41         4.80         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-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-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V 
       47.15        44.68        38.24        33.17        43.33        34.26 
TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 
       32.02        17.03        25.41        27.12        23.24        21.04 
TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        25.05        23.34        22.82        17.29        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M 
       18.21        12.92        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-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-A1LA TCGA-E2-A1LB TCGA-E2-A1LK TCGA-E2-A1LL 
       27.42        39.62        24.59        40.47         8.75        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 
       16.93         5.52        15.72        18.05        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        12.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        18.41         0.62        15.72         0.23         0.39 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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-A1OY TCGA-EW-A1OZ TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       29.95        29.85        40.41        39.78        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD 
       23.11        18.48         7.86        18.90         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-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-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       53.13        53.52        43.04        42.28        61.91        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NY TCGA-GM-A3XG 
       90.84        76.64        77.33        53.36        38.20        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-LD-A66U 
       69.30        53.95        57.63        13.55        18.12         8.28 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR 
        5.56         4.70         3.65         3.19         3.25         3.88 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 
        4.50         4.50         5.59         3.22         6.21        15.91 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       24.10        26.20        16.87        14.10        10.29         9.80 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       14.76        23.70        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
        7.23         4.44         5.29 

  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 
                       20.32                        21.70 
[1] "0.0 - 211.6 (20.3)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.2"
D20V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 20(13Q34) MUTATED         6       11        1        0        74
  AMP PEAK 20(13Q34) WILD-TYPE      74       66        8        9       261
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 20(13Q34) MUTATED          36         0         23          3
  AMP PEAK 20(13Q34) WILD-TYPE       188         2        115         24
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 20(13Q34) MUTATED            9        3         0       3
  AMP PEAK 20(13Q34) WILD-TYPE         50       14         1      13
D20V3, multiclass
            clus
vv           AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  STAGE I                             6                           74
  STAGE IA                           11                           66
  STAGE IB                            1                            8
  STAGE II                            0                            9
  STAGE IIA                          74                          261
  STAGE IIB                          36                          188
  STAGE III                           0                            2
  STAGE IIIA                         23                          115
  STAGE IIIB                          3                           24
  STAGE IIIC                          9                           50
  STAGE IV                            3                           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 20(13Q34) MUTATED    30 117  17   4
  AMP PEAK 20(13Q34) WILD-TYPE 228 464 100  32
D20V4, multiclass
    clus
vv   AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  T1                         30                          228
  T2                        117                          464
  T3                         17                          100
  T4                          4                           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
  AMP PEAK 20(13Q34) MUTATED    92  48  18  11
  AMP PEAK 20(13Q34) WILD-TYPE 376 282  93  59
D20V5, multiclass
    clus
vv   AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  N0                         92                          376
  N1                         48                          282
  N2                         18                           93
  N3                         11                           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
  AMP PEAK 20(13Q34) MUTATED          0 153   3  13
  AMP PEAK 20(13Q34) WILD-TYPE        2 692  14 118
D20V6, multiclass
          clus
vv         AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  CM0 (I+)                          0                            2
  M0                              153                          692
  M1                                3                           14
  MX                               13                          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"
D20V7, binary
                              cls
clus                             0   1
  AMP PEAK 20(13Q34) MUTATED   169   0
  AMP PEAK 20(13Q34) WILD-TYPE 815  11
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED    169    0
  AMP PEAK 20(13Q34) WILD-TYPE  815   11
        clus
vv       AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  FEMALE                        169                          815
  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                             141
  AMP PEAK 20(13Q34) WILD-TYPE                           594
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 20(13Q34) MUTATED                               13
  AMP PEAK 20(13Q34) WILD-TYPE                            153
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 20(13Q34) MUTATED                     0
  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                 12             34
D20V8, multiclass
                                  clus
vv                                 AMP PEAK 20(13Q34) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           141
  INFILTRATING LOBULAR CARCINOMA                           13
  MEDULLARY CARCINOMA                                       0
  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                             594
  INFILTRATING LOBULAR CARCINOMA                            153
  MEDULLARY CARCINOMA                                         5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           26
  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"
D20V9, binary
                              cls
clus                             0   1
  AMP PEAK 20(13Q34) MUTATED    47 122
  AMP PEAK 20(13Q34) WILD-TYPE 235 591
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED     47  122
  AMP PEAK 20(13Q34) WILD-TYPE  235  591
     clus
vv    AMP PEAK 20(13Q34) MUTATED AMP PEAK 20(13Q34) WILD-TYPE
  NO                          47                          235
  YES                        122                          591
[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                          27   119
  AMP PEAK 20(13Q34) WILD-TYPE                       110   589
D20V11, multiclass
                                  clus
vv                                 AMP PEAK 20(13Q34) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    11
  BLACK OR AFRICAN AMERICAN                                27
  WHITE                                                   119
                                  clus
vv                                 AMP PEAK 20(13Q34) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      45
  BLACK OR AFRICAN AMERICAN                                 110
  WHITE                                                     589
[1] 4 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     7 141
  AMP PEAK 20(13Q34) WILD-TYPE  29 655
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(13Q34) MUTATED      7  141
  AMP PEAK 20(13Q34) WILD-TYPE   29  655
                        clus
vv                       AMP PEAK 20(13Q34) MUTATED
  HISPANIC OR LATINO                              7
  NOT HISPANIC OR LATINO                        141
                        clus
vv                       AMP PEAK 20(13Q34) WILD-TYPE
  HISPANIC OR LATINO                               29
  NOT HISPANIC OR LATINO                          655
[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   176  25
  AMP PEAK 21(14Q21.1) WILD-TYPE 684  89
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                           201                            773 
  AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE 
                            25                             89 
$`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 
        9.01         3.42        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        23.08        18.05        12.00 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 
       31.00        31.00        19.07        33.99        19.07        16.01 
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        13.02        15.02 
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        24.30 
TCGA-AR-A0U4 TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24R 
       55.36        39.98        35.24        50.89        65.46        57.40 
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-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI 
        7.20        36.82        13.48        36.56        20.05         9.86 
TCGA-E9-A1R4 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
        6.12        20.81        40.24        34.65         6.58        21.27 
TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A295 
       34.13        12.89         0.69        27.22         1.94         0.72 
TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1IY TCGA-EW-A1OY 
       17.75         0.23         0.39         0.26         8.48        29.85 
TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1PC TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FV 
       40.41        52.96         6.15        34.55        52.73        25.91 
TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ 
       17.49        53.13         4.70         3.65         3.19         2.63 
TCGA-MS-A51U TCGA-OL-A5RW TCGA-S3-A6ZG 
        2.79        26.20         6.81 

$`AMP PEAK 21(14Q21.1) 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-A04U 
      104.81        18.02        41.95        82.16        73.84        22.06 
TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       63.12        55.43        36.13       125.59        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-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-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-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-A0SX 
       24.72        24.16        99.19        54.64        27.12        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-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        14.63        31.73 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       23.77        23.47        36.79        22.45        20.25        19.20 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D TCGA-A2-A25E 
       19.56        16.47        52.47       107.70        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV 
       10.59        20.88        33.93        83.01        29.98        14.07 
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-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE 
        8.81         8.91        12.00         6.74        38.30        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
       34.29        35.47        37.45        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-A4SB TCGA-A7-A4SD 
       11.28        13.41        14.70        11.97        13.74        14.50 
TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       21.17        17.92        12.10        10.72        11.05        10.29 
TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U 
        9.37         8.75        13.02         1.02        41.06        29.03 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
       26.01         1.02         9.01        33.01        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-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
        7.99         9.96        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-A08L 
       13.02         0.99        19.99        19.96        37.05         9.99 
TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A093 TCGA-A8-A099 TCGA-A8-A09B 
        0.99        93.04        40.01        17.95         9.99        12.00 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T 
       31.00        33.07        29.98         1.02        25.02        19.04 
TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB 
       15.02        12.00        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-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 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
        1.55         1.12         1.18         0.69         0.43         1.74 
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-A0AL TCGA-AN-A0AR TCGA-AN-A0AS 
        1.71         8.02         7.36         6.51         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-A0FX TCGA-AN-A0XL 
        7.17         6.28         6.02         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-A03R TCGA-AO-A03T TCGA-AO-A03U 
        5.33         5.59        47.84        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 
       29.13        17.65        24.16        37.48        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG 
       21.53        50.70        50.86        72.00        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       38.53        62.04        55.33       102.58        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       94.59        96.10        90.58        77.56        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 
       70.39        17.79        24.79        26.93       130.09        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TS 
       13.22         2.56        21.86         9.99        82.88        37.41 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       56.88        64.83        55.86        76.14        65.36        70.16 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       83.87        76.18        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-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
       40.83        46.32        42.58        36.26        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S 
       73.02        68.19        65.69         0.85        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       53.26        53.36        54.18        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       45.17        40.64        39.85        34.82        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25         7.36        40.04        17.10        20.81        16.96 
TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       20.38        16.04        20.45        10.59        77.62       143.38 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ 
      220.90        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-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-A0RV TCGA-B6-A0WS 
      172.96       102.77       140.48        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 
      188.68        21.47       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-A40B 
       58.88        43.59       101.52        73.51       170.17        82.88 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       55.00        24.53        38.79        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       46.95        40.83        39.55        48.36        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM 
       51.68        18.21        25.71        24.85        21.70        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV 
       35.67        48.69        27.19        53.69        53.95        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-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO 
       45.83        31.17        38.01        22.13        13.91        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ 
       15.65         3.22        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-A0EA 
        4.41        15.68        14.30         9.63        44.81        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-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-A0HU TCGA-BH-A0HW 
        5.85         2.50        13.61        36.85        12.89        51.32 
TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0WA 
       50.79         5.59        23.93        24.95        42.35        23.05 
TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N 
        8.81         2.01         7.23        20.12        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       30.28        55.63        37.55        66.05         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW 
       51.16        91.99       113.82        82.85        42.28        55.69 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       49.58        17.69        25.81        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-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-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-A12L TCGA-C8-A12N 
       20.12         0.99       109.28         8.94        11.93        11.77 
TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A135 
        0.07        12.66        12.66         1.78         0.69         0.62 
TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HK 
        3.85        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-A26X 
       10.42         2.30         3.25         0.30         0.23         0.36 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B 
        0.43         8.28         0.03         0.03         0.03         0.99 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A145 
        0.03         0.23        11.90        13.25        13.97        13.48 
TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE 
       19.20        17.49        16.50        18.71        15.78        18.90 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JN 
       12.03        14.01        18.97        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-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG 
       25.74        27.58        18.15         2.66        17.16        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       21.83        14.50        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-A1Y0 
       16.31         6.35        15.16        12.66        16.54        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-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-A4Z1 TCGA-E2-A105 
        0.76        13.08        12.53        14.50         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       34.42        27.52        40.41        37.51        28.44        28.87 
TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T 
       47.15        44.68        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-A155 
       43.33        32.02        31.96        28.60        25.41        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        25.05        22.82        17.29        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       18.21        12.92        19.40        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-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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 
        3.88        22.19        11.08        54.18        27.42        39.62 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL 
       24.59        40.47        28.90       102.61         8.75        43.04 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 
        5.52        15.72        18.05        22.26        19.89        19.20 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       12.00        13.12        39.55        12.59        35.77        21.57 
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-A1RD TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 
       21.21        32.09         0.66        34.59        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-A2JT TCGA-E9-A3HO 
       17.06         0.85         0.95        12.56         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       18.41         0.62        15.72         0.23        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        32.28        69.30        53.95        57.63 
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         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.25         3.88         4.14         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        3.22         6.21        15.91         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
        7.53        44.61        27.65        24.10        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       10.29         9.80        14.76        23.70        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         5.29 

  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 
                         20.32                          22.06 
[1] "0.1 - 162.1 (20.3)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.3"
D21V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 21(14Q21.1) MUTATED        14        9        2        0        58
  AMP PEAK 21(14Q21.1) WILD-TYPE      66       68        7        9       277
                                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       174         1        103         20
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 21(14Q21.1) MUTATED           17        6         0       5
  AMP PEAK 21(14Q21.1) WILD-TYPE         42       11         1      11
D21V3, multiclass
            clus
vv           AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  STAGE I                              14                             66
  STAGE IA                              9                             68
  STAGE IB                              2                              7
  STAGE II                              0                              9
  STAGE IIA                            58                            277
  STAGE IIB                            50                            174
  STAGE III                             1                              1
  STAGE IIIA                           35                            103
  STAGE IIIB                            7                             20
  STAGE IIIC                           17                             42
  STAGE IV                              6                             11
  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    38 138  20   8
  AMP PEAK 21(14Q21.1) WILD-TYPE 220 443  97  28
D21V4, multiclass
    clus
vv   AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  T1                           38                            220
  T2                          138                            443
  T3                           20                             97
  T4                            8                             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 21(14Q21.1) MUTATED    78  70  31  20
  AMP PEAK 21(14Q21.1) WILD-TYPE 390 260  80  50
D21V5, multiclass
    clus
vv   AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  N0                           78                            390
  N1                           70                            260
  N2                           31                             80
  N3                           20                             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 21(14Q21.1) MUTATED          0 178   6  20
  AMP PEAK 21(14Q21.1) WILD-TYPE        2 667  11 111
D21V6, multiclass
          clus
vv         AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                178                            667
  M1                                  6                             11
  MX                                 20                            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"
D21V7, binary
                                cls
clus                               0   1
  AMP PEAK 21(14Q21.1) MUTATED   202   2
  AMP PEAK 21(14Q21.1) WILD-TYPE 782   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED    202    2
  AMP PEAK 21(14Q21.1) WILD-TYPE  782    9
        clus
vv       AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  FEMALE                          202                            782
  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                             165
  AMP PEAK 21(14Q21.1) WILD-TYPE                           570
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 21(14Q21.1) MUTATED                               20
  AMP PEAK 21(14Q21.1) WILD-TYPE                            146
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 21(14Q21.1) MUTATED                     0
  AMP PEAK 21(14Q21.1) WILD-TYPE                   5
                                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                 12             35
D21V8, multiclass
                                  clus
vv                                 AMP PEAK 21(14Q21.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             165
  INFILTRATING LOBULAR CARCINOMA                             20
  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                               570
  INFILTRATING LOBULAR CARCINOMA                              146
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  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"
D21V9, binary
                                cls
clus                               0   1
  AMP PEAK 21(14Q21.1) MUTATED    61 143
  AMP PEAK 21(14Q21.1) WILD-TYPE 221 570
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED     61  143
  AMP PEAK 21(14Q21.1) WILD-TYPE  221  570
     clus
vv    AMP PEAK 21(14Q21.1) MUTATED AMP PEAK 21(14Q21.1) WILD-TYPE
  NO                            61                            221
  YES                          143                            570
[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                          29   133
  AMP PEAK 21(14Q21.1) WILD-TYPE                       108   575
D21V11, multiclass
                                  clus
vv                                 AMP PEAK 21(14Q21.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  29
  WHITE                                                     133
                                  clus
vv                                 AMP PEAK 21(14Q21.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                   108
  WHITE                                                       575
[1] 4 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     4 161
  AMP PEAK 21(14Q21.1) WILD-TYPE  32 635
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(14Q21.1) MUTATED      4  161
  AMP PEAK 21(14Q21.1) WILD-TYPE   32  635
                        clus
vv                       AMP PEAK 21(14Q21.1) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          161
                        clus
vv                       AMP PEAK 21(14Q21.1) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            635
[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   162  16
  AMP PEAK 22(15Q26.3) WILD-TYPE 698  98
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                           178                            796 
  AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE 
                            16                             98 
$`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         9.96        36.95        23.08        18.05        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        31.00        29.98 
TCGA-A8-A09M TCGA-AN-A04A TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT 
       15.02         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        17.65        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        82.88        37.41 
TCGA-AR-A0TT TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AV 
       56.88        55.86        70.16        83.87        55.36        42.58 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24Z TCGA-AR-A251 
       36.26        50.89        66.05        62.07        51.75        45.17 
TCGA-AR-A254 TCGA-AR-A2LH TCGA-AR-A2LR TCGA-B6-A0I5 TCGA-B6-A0IJ TCGA-B6-A0IM 
       39.85        20.25        20.38       149.59       176.98       126.12 
TCGA-B6-A0IO TCGA-B6-A0RG TCGA-B6-A0WT TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AZ 
      110.14        68.45       188.68        24.53        38.79        28.50 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0DL 
       25.71        24.85        48.69        53.69        41.75        48.23 
TCGA-BH-A0DS TCGA-BH-A0EE TCGA-BH-A0GY TCGA-BH-A0WA TCGA-BH-A18N TCGA-BH-A18V 
        2.56        31.00        30.35        23.05        37.74        51.16 
TCGA-BH-A1EW TCGA-BH-A1F6 TCGA-BH-A1FD TCGA-BH-A1FH TCGA-C8-A12O TCGA-C8-A130 
       55.69        97.48        33.17        36.92        12.66         3.12 
TCGA-C8-A132 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HM 
        1.45        11.34        11.34         0.16        10.42         2.30 
TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A1JA 
        3.25         0.36         8.28        12.20        11.90        16.50 
TCGA-D8-A1JB TCGA-D8-A1JP TCGA-D8-A1X9 TCGA-D8-A1XK TCGA-D8-A27H TCGA-D8-A27N 
       18.71        21.01        23.90        14.50        13.05         4.80 
TCGA-D8-A27R TCGA-E2-A10A TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A152 TCGA-E2-A15A 
       10.09        40.41        33.30        32.02        27.12        23.34 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15L TCGA-E2-A1IL TCGA-E2-A1L7 TCGA-E2-A1LA 
       17.29        20.71        20.58         3.88        27.42        24.59 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A56Z TCGA-E9-A1N8 TCGA-E9-A1N9 
      106.75       102.61        43.04         7.20        12.00        13.12 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RC 
       20.05         9.86        14.30         2.10        32.09        40.24 
TCGA-E9-A1RF TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A5UO TCGA-EW-A1IY TCGA-EW-A1J6 
        6.58        17.75         0.62         0.23         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         2.99         4.70         3.25         3.88 
TCGA-LL-A8F5 TCGA-OL-A5RV TCGA-OL-A5RW TCGA-W8-A86G 
        6.21        24.10        26.20         5.29 

$`AMP PEAK 22(15Q26.3) 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-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        28.01        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-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
      125.59        64.57        24.79       112.08        92.48        88.60 
TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0CX 
      107.93        75.55        75.25         5.19        64.04        56.81 
TCGA-A2-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP 
       34.55        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-A0EW 
       79.76        74.40        37.05        35.05        34.29        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX 
       24.72        24.16        99.19        27.12        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.28        17.52        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-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
       21.67        14.50        18.61        19.33        14.63        31.73 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       23.77        23.47        36.79        22.45        20.25        19.20 
TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D TCGA-A2-A25E 
       19.56        16.47        52.47       107.70        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        20.88        39.65        29.98        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       38.40        31.99        38.37         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH 
       12.00         6.74         3.42        38.30        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H 
       30.61        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-A26J 
       31.36        24.26        23.74        23.80        21.73        20.61 
TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       22.32        10.59        10.29        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       11.97        13.74        14.50        17.92        14.73        12.10 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06U 
       10.72        11.05         8.75        13.02        41.06        29.03 
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        33.01 
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-A07O TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        9.99         7.99         9.99        28.04        18.05        15.06 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O 
       13.02         0.99        19.99        12.00        37.05        31.00 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       19.07        93.04        33.99        40.01        19.07        16.01 
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-A09I TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       13.02        33.07         1.02        25.02         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-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 
        9.40         1.12         1.81         1.68         1.55         1.32 
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-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.43         1.74         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS 
        0.62         1.78         1.71         8.02         7.36         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-A0FZ TCGA-AN-A0XL 
        6.02         0.33         0.33         0.33         0.33         0.33 
TCGA-AN-A0XN 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-A03O TCGA-AO-A03R 
        5.33         5.59        47.84        66.77        81.63        68.75 
TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       59.05        32.78        21.40        24.16        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       22.36        53.03        21.53        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A126 
       26.24        38.53        62.04        55.33        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       94.59        90.58        77.56        57.30        48.36        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-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       24.79        26.93         5.65        15.62        13.22         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW 
       21.86         9.99        49.32         5.26        29.75        24.30 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI 
       64.83        76.14        65.36        76.18        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-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW 
       39.98        43.07        17.23        40.83        46.32        35.24 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
        0.85        57.40        53.26        53.36        54.18        50.96 
TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       48.16        56.15        40.64        34.82        93.83       128.65 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       42.87         7.36        40.04        17.10        20.81        16.96 
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-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-A0IK TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      112.37        18.77        84.59       110.93       140.88       211.56 
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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV 
      102.77       140.48       100.70        89.46       131.21       157.41 
TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
       97.48        79.63        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-A1KC 
      129.70       186.48        28.27        68.94        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-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 
       49.94        82.88        55.00        20.45        25.55        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-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BL 
       51.68        37.22        32.02        18.21        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-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       11.67        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-A0DO 
       31.17        23.44        38.01        22.13        13.91        17.26 
TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ 
       15.65         3.22        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-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
       32.65        24.49        24.43        10.78        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-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-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-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-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       90.84        26.66        72.56        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-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       82.85        42.28        12.00        49.58        17.69        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE 
       31.53        89.16        24.66       120.62       114.15        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-A203 TCGA-BH-A204 TCGA-BH-A208 
       72.07         6.90         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-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-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 
       12.66        12.66        12.66        12.66         1.78         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HK 
        0.62         3.85         3.75        12.33        10.92        12.03 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
        0.30         0.23         0.43         9.67         0.03         0.03 
TCGA-C8-A278 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-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-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-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-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       19.40        20.38        12.20        13.32        14.70        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       17.79        16.73        25.74        27.58        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-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-A27I 
       14.24        14.14        17.42        16.04        13.45        14.43 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V 
        9.44        16.41        13.48         0.76        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-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F 
       27.52        46.59        37.51        40.11        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-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-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-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J 
       22.82        21.63        18.21        12.92        17.42        19.40 
TCGA-E2-A15K TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S 
        9.04         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-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-A1IN TCGA-E2-A1IO 
       33.73        33.70        28.44        22.65        22.19        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE 
       11.08        54.18        39.62        19.66        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
       18.87         8.75        16.93         5.52        15.72        18.05 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA 
       22.26        19.89        19.20        36.82        13.48        36.56 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R2 
       39.55        12.59        35.77        21.57        11.90         0.62 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RD 
        6.12         1.38         2.76        21.21        20.81         0.66 
TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
       34.65        21.27        34.59        35.64        34.13         0.79 
TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
       12.53        13.32        39.09        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-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        0.95        12.56         0.72         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW 
       15.72         0.23         0.39         0.26        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-A1OV TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       25.94        29.95        29.85        40.41        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC 
       52.96        18.48        30.08         7.86        18.90         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        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-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       42.28        61.91        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        32.28        69.30        53.95        57.63 
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         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        4.60         0.66         3.58         6.90         5.56         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.19         2.63         4.14         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        3.22        15.91         2.79         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
        7.53        44.61        27.65        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       18.21         7.23         4.44         6.81 

  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 
                        23.225                         21.175 
[1] "0.2 - 188.7 (23.2)" "0.0 - 234.3 (21.2)"
[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        8        0        0        68
  AMP PEAK 22(15Q26.3) WILD-TYPE      62       69        9        9       267
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 22(15Q26.3) MUTATED          41         1         27          4
  AMP PEAK 22(15Q26.3) WILD-TYPE       183         1        111         23
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 22(15Q26.3) MUTATED           10        3         0       1
  AMP PEAK 22(15Q26.3) WILD-TYPE         49       14         1      15
D22V3, multiclass
            clus
vv           AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  STAGE I                              18                             62
  STAGE IA                              8                             69
  STAGE IB                              0                              9
  STAGE II                              0                              9
  STAGE IIA                            68                            267
  STAGE IIB                            41                            183
  STAGE III                             1                              1
  STAGE IIIA                           27                            111
  STAGE IIIB                            4                             23
  STAGE IIIC                           10                             49
  STAGE IV                              3                             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    38 115  22   7
  AMP PEAK 22(15Q26.3) WILD-TYPE 220 466  95  29
D22V4, multiclass
    clus
vv   AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  T1                           38                            220
  T2                          115                            466
  T3                           22                             95
  T4                            7                             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 22(15Q26.3) MUTATED    87  59  22  12
  AMP PEAK 22(15Q26.3) WILD-TYPE 381 271  89  58
D22V5, multiclass
    clus
vv   AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  N0                           87                            381
  N1                           59                            271
  N2                           22                             89
  N3                           12                             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
  AMP PEAK 22(15Q26.3) MUTATED          1 164   3  14
  AMP PEAK 22(15Q26.3) WILD-TYPE        1 681  14 117
D22V6, multiclass
          clus
vv         AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                164                            681
  M1                                  3                             14
  MX                                 14                            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"
D22V7, binary
                                cls
clus                               0   1
  AMP PEAK 22(15Q26.3) MUTATED   178   4
  AMP PEAK 22(15Q26.3) WILD-TYPE 806   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED    178    4
  AMP PEAK 22(15Q26.3) WILD-TYPE  806    7
        clus
vv       AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  FEMALE                          178                            806
  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                             160
  AMP PEAK 22(15Q26.3) WILD-TYPE                           575
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 22(15Q26.3) MUTATED                                7
  AMP PEAK 22(15Q26.3) WILD-TYPE                            159
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 22(15Q26.3) MUTATED                     2
  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                 11             39
D22V8, multiclass
                                  clus
vv                                 AMP PEAK 22(15Q26.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             160
  INFILTRATING LOBULAR CARCINOMA                              7
  MEDULLARY CARCINOMA                                         2
  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                               575
  INFILTRATING LOBULAR CARCINOMA                              159
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             25
  MUCINOUS CARCINOMA                                           11
  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    56 126
  AMP PEAK 22(15Q26.3) WILD-TYPE 226 587
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED     56  126
  AMP PEAK 22(15Q26.3) WILD-TYPE  226  587
     clus
vv    AMP PEAK 22(15Q26.3) MUTATED AMP PEAK 22(15Q26.3) WILD-TYPE
  NO                            56                            226
  YES                          126                            587
[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                          31   114
  AMP PEAK 22(15Q26.3) WILD-TYPE                       106   594
D22V11, multiclass
                                  clus
vv                                 AMP PEAK 22(15Q26.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      16
  BLACK OR AFRICAN AMERICAN                                  31
  WHITE                                                     114
                                  clus
vv                                 AMP PEAK 22(15Q26.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        40
  BLACK OR AFRICAN AMERICAN                                   106
  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"
D22V12, binary
                                cls
clus                               0   1
  AMP PEAK 22(15Q26.3) MUTATED     4 146
  AMP PEAK 22(15Q26.3) WILD-TYPE  32 650
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(15Q26.3) MUTATED      4  146
  AMP PEAK 22(15Q26.3) WILD-TYPE   32  650
                        clus
vv                       AMP PEAK 22(15Q26.3) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          146
                        clus
vv                       AMP PEAK 22(15Q26.3) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            650
[1] 2 2
[1] FALSE

Clustering(23) Variable = AMP PEAK 23(17Q12) MUTATION ANALYSIS
D23V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 23(17Q12) MUTATED   265  38
  AMP PEAK 23(17Q12) WILD-TYPE 595  76
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                         303                          671 
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                          38                           76 
$`AMP PEAK 23(17Q12) MUTATED`
TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04W 
       47.24        13.68         7.96        39.32        28.01        64.04 
TCGA-A2-A04X TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D4 
       55.43        75.25         5.19        56.81        34.55        25.22 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0SY TCGA-A2-A0T1 
       35.05        34.29        31.82        24.16        44.28        17.13 
TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YJ 
       18.71        20.75        32.55        18.21        21.90        18.61 
TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25E TCGA-A2-A3XU 
       31.73        36.79        20.25        19.20        91.92        29.98 
TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A7-A0CD TCGA-A7-A13D TCGA-A7-A13F 
       14.07        38.40        31.99        38.30        31.73        12.72 
TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A4SA TCGA-A7-A4SB 
       23.80        20.61        22.32        10.29        14.93        13.74 
TCGA-A7-A4SF TCGA-A8-A06O TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A07B 
       17.92        13.02        29.03         1.02        53.98        33.01 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W 
       18.97        14.01         9.99        10.98         8.98         9.99 
TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08P 
       13.02        23.08        18.05        19.96        37.05        31.00 
TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 
        0.99        19.07        33.99        16.01        17.95        12.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09R 
        9.99        12.00        31.00        33.07        15.02         8.98 
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-A2FB TCGA-AC-A2FM TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AN-A041 
        2.66        40.57        26.04         2.27         1.81         0.23 
TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FZ TCGA-AN-A0XL 
        0.62         1.78         6.02         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03P TCGA-AO-A0J7 TCGA-AO-A0JE TCGA-AO-A0JL 
        0.33        80.28        84.69        20.32        76.77        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A1KQ 
       71.80       102.58        77.56        64.04        57.30        61.87 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AR-A0TQ TCGA-AR-A0TX 
        0.53        24.79         5.65        13.22        49.32        64.83 
TCGA-AR-A0U2 TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H 
       83.87        51.25        42.58        35.24        36.26       109.58 
TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24P TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24Z 
       50.89        73.02         0.85        53.36        54.18        51.75 
TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A2LL TCGA-B6-A0I1 
       56.15        39.85        34.82        42.87         7.36        77.62 
TCGA-B6-A0I9 TCGA-B6-A0IG TCGA-B6-A0IN TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RS 
       12.13       146.50        84.59        68.45       189.01       100.70 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN 
      113.79       186.48        43.59       101.52        73.51       139.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B4 
       85.35        54.28        24.53        20.45        28.50        39.16 
TCGA-BH-A0B7 TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C7 
       56.98        45.57        11.67        49.05        41.75        42.90 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DP TCGA-BH-A0DZ TCGA-BH-A0EE TCGA-BH-A0H7 
       45.83        31.17        15.65        16.27        31.00        23.08 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A18L TCGA-BH-A18N 
       36.85        12.89        51.32        50.79        26.66        37.74 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EV 
       30.28        37.55        66.05        51.39        69.93        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FG 
       55.69        49.58        25.81        31.53       114.15       122.89 
TCGA-BH-A1FJ TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A42T 
       63.35        72.07        72.07         0.72        83.31         0.99 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12W 
       11.93        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HF 
        3.12         1.45         0.62         3.85         3.75        10.92 
TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26W 
       11.34        12.03        10.42         2.30         3.25         0.23 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M8 
        0.36         8.28         0.03         0.03        12.20         0.23 
TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.25        14.17        19.20        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X9 
       15.78        12.03        12.03        13.32        18.58        23.90 
TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XS 
       18.15        15.22        21.83        19.92        17.69        16.31 
TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1Y2 TCGA-D8-A27G TCGA-D8-A27N TCGA-D8-A27R 
        6.35        16.54        14.24        13.45         4.80        10.09 
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-A14O TCGA-E2-A14P TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y 
       44.68        40.96        33.30        34.26        32.02        28.60 
TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15H TCGA-E2-A15T 
       27.12        23.24        23.34        20.71        12.92        14.99 
TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1LA 
       53.62        53.03        32.78        33.73        28.44        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LK TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N6 
       40.47        28.90         8.75         7.20        19.89        13.48 
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-A228 TCGA-E9-A22B 
       34.65         6.58        34.59        35.64        12.53        22.75 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IW 
        0.72        17.75         0.23         0.26         0.23        12.20 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ 
       13.25        16.57        15.68        28.77        29.85        40.41 
TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A2FR 
       52.96        23.11         6.15        13.94        19.96        55.00 
TCGA-EW-A2FS TCGA-EW-A423 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DK TCGA-JL-A3YW 
       52.73        10.16       194.27        53.52        62.33        11.84 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OL-A5RY TCGA-OL-A5RZ 
        4.70         3.65         3.22         2.79        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66K TCGA-S3-A6ZG 
        9.80        33.90         6.81 

$`AMP PEAK 23(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       125.59 
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 
       14.63        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         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       12.00         6.74         3.42        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 
       41.06        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         9.96        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        19.99        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        19.07        41.98 
TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
        9.99         1.02        13.02        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         9.40         1.12         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y 
        1.55         1.32         1.55         0.07         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y 
        1.18         0.69         0.43         1.74         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        0.33         2.96         1.71         8.02         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF 
        0.16         0.33         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW 
        7.96         7.00         7.59         7.17         6.28         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY 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-A03M TCGA-AO-A03N 
        0.33         0.33         5.33         5.59        47.84        66.77 
TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
       81.63        68.75        47.87        59.05        29.13        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 
       21.40        17.65        24.16        37.48        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG 
       21.53        50.70        50.86        72.00        21.37        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       38.53        62.04        99.25        93.70        94.59        96.10 
TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       90.58        48.36        41.62        28.37        14.73        82.62 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54N 
       70.39        17.79        26.93       130.09        15.62         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
       21.86         9.99        82.88         5.26        37.41        56.88 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       29.75        24.30        55.86        76.14        65.36        70.16 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL 
       76.18        55.36        75.55        61.84        52.77        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-A24M TCGA-AR-A24N TCGA-AR-A24O 
       40.83        46.32        20.22        65.46        68.19        65.69 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24X 
       66.05        57.40        62.07        53.26        50.96        48.16 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM 
       45.17        40.64        93.83       128.65        20.25        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       17.10        20.81        16.96        20.38        54.74        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB 
       20.45        10.59       143.38       149.59       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-A0IO TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RI TCGA-B6-A0RL 
      110.14       110.93       140.88       211.56       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-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        28.27        68.94        58.88 
TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY 
      170.17        49.94        82.88        55.00        38.79        25.55 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 
       46.95        40.83        39.55        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-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-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DG TCGA-BH-A0DH 
       53.95        49.94        44.02        48.13        23.44        38.01 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS 
       22.13        13.91        48.23        17.26         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-A0EI 
        9.63        44.81        46.19        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-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-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       13.61        27.25         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-A18K TCGA-BH-A18M TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EO 
       90.84        72.56        55.63         7.36        51.16        91.99 
TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F6 
      113.82        82.85        42.28        17.69        89.16        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FL 
       24.66       120.62        33.17        74.73        36.92        55.00 
TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 
       45.63       144.59         6.90        38.60        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-A12U TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A1HE 
       12.66        12.66        12.66         1.78         0.69        12.33 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 
       11.34         0.16         0.30         0.43         9.67         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 
        0.99         0.03        11.90        20.88        20.58        13.97 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH 
       13.48        21.14        14.17        18.15        18.90        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-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       21.01        12.20        14.70        17.79        16.73        25.74 
TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XO 
       27.58         2.66        17.16        14.73        14.50         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ 
       16.41        15.85        12.99        15.16        12.66        15.32 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H 
       15.52         3.81        14.14        17.42        16.04        13.05 
TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27V 
       14.43         9.44        16.41        13.48         0.76        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
       14.50        18.51         7.33        27.52        40.41        37.51 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S 
       28.44        28.87        47.15        38.24        38.60        33.17 
TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A155 
       43.33        31.96        17.03        25.41        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        25.05        22.82        17.29        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-A15S TCGA-E2-A1AZ TCGA-E2-A1B4 
       13.02        19.56        17.06        14.07        60.53        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-A1II TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU 
       33.70        22.65         3.88        22.19        20.98        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LH 
       54.18        27.42        39.62        19.66        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
      102.61        43.04        16.93         5.52        15.72        18.05 
TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA 
       22.26        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-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-A226 TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E 
       21.27        34.13         0.79        13.32        39.09        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-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
        1.94         0.95        12.56         0.76        26.07        18.41 
TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY 
        0.62        15.72         0.39        15.39        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 
       18.21        18.90        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-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FV TCGA-EW-A2FW 
       19.99        10.52        14.43        34.55        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-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-A2DO TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XG 
       76.64        77.33        53.36       110.50        38.20        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       69.30        53.95        57.63        13.55        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR 
        6.90         5.56         3.19         3.25         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LQ-A4E4 
        4.14         4.50         4.50         5.59         6.21        15.91 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       24.10        26.20        16.87        14.76        23.70        54.51 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         5.29 

  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                      194.27                       234.28 
  AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE 
                       21.04                        21.53 
[1] "0.0 - 194.3 (21.0)" "0.0 - 234.3 (21.5)"
[1] "hr=" "1.3"
D23V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 23(17Q12) MUTATED        19       14        2        2       115
  AMP PEAK 23(17Q12) WILD-TYPE      61       63        7        7       220
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 23(17Q12) MUTATED          75         1         46         10
  AMP PEAK 23(17Q12) WILD-TYPE       149         1         92         17
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 23(17Q12) MUTATED           19        4         0       4
  AMP PEAK 23(17Q12) WILD-TYPE         40       13         1      12
D23V3, multiclass
            clus
vv           AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  STAGE I                            19                           61
  STAGE IA                           14                           63
  STAGE IB                            2                            7
  STAGE II                            2                            7
  STAGE IIA                         115                          220
  STAGE IIB                          75                          149
  STAGE III                           1                            1
  STAGE IIIA                         46                           92
  STAGE IIIB                         10                           17
  STAGE IIIC                         19                           40
  STAGE IV                            4                           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 23(17Q12) MUTATED    67 198  32  14
  AMP PEAK 23(17Q12) WILD-TYPE 191 383  85  22
D23V4, multiclass
    clus
vv   AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  T1                         67                          191
  T2                        198                          383
  T3                         32                           85
  T4                         14                           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
  AMP PEAK 23(17Q12) MUTATED   130 118  34  20
  AMP PEAK 23(17Q12) WILD-TYPE 338 212  77  50
D23V5, multiclass
    clus
vv   AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  N0                        130                          338
  N1                        118                          212
  N2                         34                           77
  N3                         20                           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 23(17Q12) MUTATED          1 278   4  28
  AMP PEAK 23(17Q12) WILD-TYPE        1 567  13 103
D23V6, multiclass
          clus
vv         AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  CM0 (I+)                          1                            1
  M0                              278                          567
  M1                                4                           13
  MX                               28                          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"
D23V7, binary
                              cls
clus                             0   1
  AMP PEAK 23(17Q12) MUTATED   303   8
  AMP PEAK 23(17Q12) WILD-TYPE 681   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 23(17Q12) MUTATED    303    8
  AMP PEAK 23(17Q12) WILD-TYPE  681    3
        clus
vv       AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  FEMALE                        303                          681
  MALE                            8                            3
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 23(17Q12) MUTATED                            0
  AMP PEAK 23(17Q12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 23(17Q12) MUTATED                             257
  AMP PEAK 23(17Q12) WILD-TYPE                           478
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 23(17Q12) MUTATED                               35
  AMP PEAK 23(17Q12) WILD-TYPE                            131
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 23(17Q12) MUTATED                     1
  AMP PEAK 23(17Q12) WILD-TYPE                   4
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 23(17Q12) MUTATED                                  3
  AMP PEAK 23(17Q12) WILD-TYPE                               26
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 23(17Q12) MUTATED                    4             11
  AMP PEAK 23(17Q12) WILD-TYPE                 10             33
D23V8, multiclass
                                  clus
vv                                 AMP PEAK 23(17Q12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           257
  INFILTRATING LOBULAR CARCINOMA                           35
  MEDULLARY CARCINOMA                                       1
  MIXED HISTOLOGY (PLEASE SPECIFY)                          3
  MUCINOUS CARCINOMA                                        4
  OTHER  SPECIFY                                           11
                                  clus
vv                                 AMP PEAK 23(17Q12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             478
  INFILTRATING LOBULAR CARCINOMA                            131
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           26
  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"
D23V9, binary
                              cls
clus                             0   1
  AMP PEAK 23(17Q12) MUTATED    95 216
  AMP PEAK 23(17Q12) WILD-TYPE 187 497
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 23(17Q12) MUTATED     95  216
  AMP PEAK 23(17Q12) WILD-TYPE  187  497
     clus
vv    AMP PEAK 23(17Q12) MUTATED AMP PEAK 23(17Q12) WILD-TYPE
  NO                          95                          187
  YES                        216                          497
[1] 2 2
[1] FALSE
D23V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 23(17Q12) MUTATED                                  1    29
  AMP PEAK 23(17Q12) WILD-TYPE                                0    27
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 23(17Q12) MUTATED                          36   204
  AMP PEAK 23(17Q12) WILD-TYPE                       101   504
D23V11, multiclass
                                  clus
vv                                 AMP PEAK 23(17Q12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                    29
  BLACK OR AFRICAN AMERICAN                                36
  WHITE                                                   204
                                  clus
vv                                 AMP PEAK 23(17Q12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      27
  BLACK OR AFRICAN AMERICAN                                 101
  WHITE                                                     504
[1] 4 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(17Q12) MUTATED    11 242
  AMP PEAK 23(17Q12) WILD-TYPE  25 554
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 23(17Q12) MUTATED     11  242
  AMP PEAK 23(17Q12) WILD-TYPE   25  554
                        clus
vv                       AMP PEAK 23(17Q12) MUTATED
  HISPANIC OR LATINO                             11
  NOT HISPANIC OR LATINO                        242
                        clus
vv                       AMP PEAK 23(17Q12) WILD-TYPE
  HISPANIC OR LATINO                               25
  NOT HISPANIC OR LATINO                          554
[1] 2 2
[1] FALSE

Clustering(24) Variable = AMP PEAK 24(17Q23.1) MUTATION ANALYSIS
D24V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 24(17Q23.1) MUTATED   342  49
  AMP PEAK 24(17Q23.1) WILD-TYPE 518  65
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                           391                            583 
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                            49                             65 
$`AMP PEAK 24(17Q23.1) MUTATED`
TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04R 
       47.24        13.68         7.96        39.32        28.01        82.16 
TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CX 
       22.06        55.43        36.13        75.25         5.19        56.81 
TCGA-A2-A0D2 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV 
       33.76        25.22        79.76        35.05        34.29        31.82 
TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YC 
       54.64        44.88        17.52        18.71        20.75        32.55 
TCGA-A2-A0YG TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX 
       21.90        14.63        31.73        23.77        17.36        36.79 
TCGA-A2-A1G0 TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3XT 
       20.25        52.47        16.31        18.15        91.92        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A4S1 TCGA-A2-A4S3 
       29.98        14.07        38.40        31.99        12.00         3.42 
TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26H TCGA-A7-A26J 
       38.30        30.61        35.67        12.72        23.80        20.61 
TCGA-A7-A2KD TCGA-A7-A3J0 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SF 
       22.32        10.29        14.93        13.74        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X 
       14.73        12.10        13.02        17.98        29.03        31.00 
TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07G TCGA-A8-A07I 
        1.02        53.98         9.01        33.01        18.97        14.01 
TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A085 
       17.03        10.98         8.98         9.99        28.04        36.95 
TCGA-A8-A086 TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       13.02        18.05        19.96        37.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 
       31.00         0.99        19.07        16.01        17.95        12.00 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K 
        9.99        12.00        13.02        31.00        33.07        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A09X 
       15.02         1.02        25.02         8.98         0.99        14.01 
TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H 
        0.99        17.03        38.04         0.95        10.85         2.66 
TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A8OP 
       26.04         1.02         2.27         0.07         1.18         1.74 
TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.23         0.62         2.96         1.78         1.71         8.02 
TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY 
        0.16         6.44         6.02         0.33         0.36         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XR TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         0.33         5.59        80.28 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 
       84.69        68.75        47.87        32.78        21.40        17.65 
TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JM 
       24.16        20.32        50.70        26.24        62.04        71.80 
TCGA-AO-A124 TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
      102.58        77.56        57.30        61.87        70.39         0.53 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AR-A0TQ 
       24.79        26.93         5.65        13.22        21.86        49.32 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AK 
       56.88        24.30        55.86        83.87        55.36        51.25 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24P 
       42.58        35.24       109.58        50.89        73.02         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 
       66.05        57.40        62.07        54.18        51.75        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LL 
       40.64        39.85        34.82        93.83        42.87         7.36 
TCGA-AR-A2LR TCGA-B6-A0I9 TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IO 
       20.38        12.13        65.72       146.50        18.77       110.14 
TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RS TCGA-B6-A0RV TCGA-B6-A0WV 
      211.56        68.45       189.01       100.70       157.41        79.63 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 
      113.79       186.48        43.59        73.51       170.17        85.35 
TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B4 
       54.28        24.53        20.45        25.55        28.50        39.16 
TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BT TCGA-BH-A0BW 
       32.02        25.71        24.85        48.69        45.57        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.05        41.75        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DP TCGA-BH-A0DZ TCGA-BH-A0E2 
       23.44        22.13        13.91        15.65        16.27        14.30 
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-A0WA TCGA-BH-A18G TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q 
       50.79        23.05         2.01        26.66        37.74        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1EW 
       37.55        66.05        51.39        69.93        12.00        55.69 
TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1FC TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ 
       49.58        31.53       114.15       122.89        36.92        63.35 
TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 
       45.63        72.07         0.72        38.60        83.31       130.16 
TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
        0.99        11.93        11.77        12.66        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF 
       12.66        12.66         3.12         0.62         3.75        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-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-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A1JB 
        0.23        11.90        13.25        13.97        14.17        18.71 
TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JT 
       15.78        12.03        12.03        20.09        20.12        13.32 
TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XM TCGA-D8-A1XQ 
       16.73        23.90        18.15        15.22        17.69        16.41 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1Y2 TCGA-D8-A27G TCGA-D8-A27H 
       16.31         6.35        16.54        14.24        13.45        13.05 
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-A10C TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V 
       40.11        44.68        40.96        38.60        33.30        34.26 
TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A15A TCGA-E2-A15H 
       32.02        28.60        23.24        21.04        23.34        12.92 
TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B5 TCGA-E2-A1IE 
       14.07        14.99        53.62        53.03        32.35        38.30 
TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1LA TCGA-E2-A1LK TCGA-E2-A56Z 
       32.78        33.73        28.44        24.59         8.75         7.20 
TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ 
       19.89        12.00        36.56        20.05         9.86        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RE 
        0.62         6.12         1.38         2.76        21.21        34.65 
TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A22A 
        6.58        34.59        35.64        34.13        12.53        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A295 
       22.75        12.89        17.06         0.69        27.22         0.72 
TCGA-E9-A2JS TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1J1 TCGA-EW-A1J2 
       17.75         0.23         0.26         0.23        18.90        13.25 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       15.68        28.77        22.82        29.95        29.85        40.41 
TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD 
       52.96        29.82        23.11        19.99         6.15        13.94 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 
       34.55        19.96        52.73        25.91        17.49        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DK TCGA-GM-A2DO 
        7.40       109.87       194.27        53.52        62.33        53.36 
TCGA-GM-A3XL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A73Y TCGA-LL-A7SZ 
       69.30         4.70         3.65         3.25         4.14         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5RZ TCGA-OL-A66K TCGA-OL-A66P 
        3.22        15.91         2.79        10.29        33.90         4.44 
TCGA-S3-A6ZG 
        6.81 

$`AMP PEAK 24(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       125.59        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         9.01         8.81         8.91         6.74 
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        41.06        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 
        9.96        18.05        15.06         0.99        23.08        19.99 
TCGA-A8-A08I TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 
       12.00        93.04        33.99        40.01        19.07        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         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.81         1.68         1.55         1.32         1.55         1.12 
TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 
        1.81         0.69         0.43         0.33         0.33         0.33 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FF 
        7.36         6.51         0.33         0.33         0.33         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FX 
        7.96         7.00         7.59         7.17         6.28         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV 
        0.33        12.33         0.30         0.33         0.33         5.33 
TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J6 
       47.84        66.77        81.63        59.05        29.13        37.48 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JE 
       22.36        53.03        21.53        50.86        72.00        76.77 
TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       21.37        38.53        55.33        99.25        93.70        94.59 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H 
       96.10        90.58        64.04        48.36        41.62        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A54N 
       14.73        82.62        17.79       130.09        15.62         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX 
        9.99        82.88         5.26        37.41        29.75        64.83 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI 
       76.14        65.36        70.16        76.18        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-A1AX TCGA-AR-A1AY 
       43.07        17.23        40.83        46.32        36.26        20.22 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
       65.46        68.19        65.69        53.26        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN 
       48.16        45.17       128.65        20.25        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       20.81        16.96        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       77.62       143.38       149.59       220.90       129.57        50.70 
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-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-A0RU TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW 
      140.48        89.46       131.21        97.48       188.68        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV 
      101.52       139.17        49.94        82.88        55.00        38.79 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       46.95        40.83        39.55        48.36        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM 
       51.68        37.22        18.21        21.70        44.05        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 
       35.67        27.19        53.69        53.95        49.94        44.02 
TCGA-BH-A0DH TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       38.01        48.23        17.26         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 
       45.17        47.41         4.41        15.68         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-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0RX 
       52.96        20.38         5.85         2.50        13.61         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18I 
       23.93        24.95        42.35        44.81         8.81         7.23 
TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18T TCGA-BH-A18V 
       20.12        90.84        72.56        30.28         7.36        51.16 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F0 
       91.99       113.82        82.85        42.28        17.69        25.81 
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-A1FL TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A208 TCGA-BH-A28O 
       55.00       144.59        72.07         6.90        57.83        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12V 
        6.44        20.12       109.28         8.94        11.77        12.66 
TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66         1.78         1.45         0.69         3.85        12.33 
TCGA-C8-A1HJ TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A27B 
        0.16         0.30         0.23         0.43         0.03         0.99 
TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 
        0.03        20.88        20.58        13.48        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH 
       14.17        17.49        16.50        18.15        18.90        14.01 
TCGA-D8-A1JI TCGA-D8-A1JL 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-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X8 TCGA-D8-A1XA TCGA-D8-A1XC 
       14.70        18.58        17.79        25.74        27.58         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO 
       17.16        14.73        21.83        14.50        19.92         7.96 
TCGA-D8-A1XR TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 
       15.85        12.99        15.16        12.66        15.32        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27K 
        3.81        14.14        17.42        16.04        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 
       16.41        13.48         0.76        13.08        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E 
        7.33        27.52        46.59        40.41        37.51        28.44 
TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X 
       28.87        47.15        38.24        33.17        43.33        31.96 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A158 
       17.03        25.41        27.12        19.43        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-A15M TCGA-E2-A15O 
       17.42        19.40         9.04        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1AZ TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC 
       19.56        17.06        60.53        29.95        28.50        16.47 
TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1II TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN 
       17.10        37.41        33.70        22.65         3.88        22.19 
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-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-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 
       16.93         5.52        15.72        18.05        22.26        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-A1NG TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
       21.57        14.30         2.10        32.09        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22G TCGA-E9-A22H 
        0.66        21.27         0.79        13.32        23.51        24.10 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO 
        0.85         1.94         0.95        12.56         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IW 
       18.41         0.62        15.72         0.39        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        32.28        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       57.63        13.55        18.12        11.84        11.57         8.28 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 
        5.56         3.19         2.63         3.88         4.50         4.50 
TCGA-LL-A8F5 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
        6.21         2.10        12.66        46.55         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 
       27.65        24.10        26.20        16.87        14.10         9.80 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       14.76        23.70        54.51        31.07        18.21         7.23 
TCGA-W8-A86G 
        5.29 

  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE 
                         21.40                          21.47 
[1] "0.0 - 211.6 (21.4)" "0.0 - 234.3 (21.5)"
[1] "hr=" "1.4"
D24V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 24(17Q23.1) MUTATED        25       22        2        2       146
  AMP PEAK 24(17Q23.1) WILD-TYPE      55       55        7        7       189
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 24(17Q23.1) MUTATED          94         1         63         15
  AMP PEAK 24(17Q23.1) WILD-TYPE       130         1         75         12
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 24(17Q23.1) MUTATED           18        9         1       2
  AMP PEAK 24(17Q23.1) WILD-TYPE         41        8         0      14
D24V3, multiclass
            clus
vv           AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  STAGE I                              25                             55
  STAGE IA                             22                             55
  STAGE IB                              2                              7
  STAGE II                              2                              7
  STAGE IIA                           146                            189
  STAGE IIB                            94                            130
  STAGE III                             1                              1
  STAGE IIIA                           63                             75
  STAGE IIIB                           15                             12
  STAGE IIIC                           18                             41
  STAGE IV                              9                              8
  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 24(17Q23.1) MUTATED    76 260  45  17
  AMP PEAK 24(17Q23.1) WILD-TYPE 182 321  72  19
D24V4, multiclass
    clus
vv   AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  T1                           76                            182
  T2                          260                            321
  T3                           45                             72
  T4                           17                             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
  AMP PEAK 24(17Q23.1) MUTATED   186 135  50  22
  AMP PEAK 24(17Q23.1) WILD-TYPE 282 195  61  48
D24V5, multiclass
    clus
vv   AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  N0                          186                            282
  N1                          135                            195
  N2                           50                             61
  N3                           22                             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
  AMP PEAK 24(17Q23.1) MUTATED          1 357   9  33
  AMP PEAK 24(17Q23.1) WILD-TYPE        1 488   8  98
D24V6, multiclass
          clus
vv         AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                357                            488
  M1                                  9                              8
  MX                                 33                             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"
D24V7, binary
                                cls
clus                               0   1
  AMP PEAK 24(17Q23.1) MUTATED   389  11
  AMP PEAK 24(17Q23.1) WILD-TYPE 595   0
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(17Q23.1) MUTATED    389   11
  AMP PEAK 24(17Q23.1) WILD-TYPE  595    0
        clus
vv       AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  FEMALE                          389                            595
  MALE                             11                              0
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 24(17Q23.1) MUTATED                            1
  AMP PEAK 24(17Q23.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 24(17Q23.1) MUTATED                             326
  AMP PEAK 24(17Q23.1) WILD-TYPE                           409
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 24(17Q23.1) MUTATED                               39
  AMP PEAK 24(17Q23.1) WILD-TYPE                            127
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 24(17Q23.1) MUTATED                     3
  AMP PEAK 24(17Q23.1) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 24(17Q23.1) MUTATED                                  9
  AMP PEAK 24(17Q23.1) WILD-TYPE                               20
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 24(17Q23.1) MUTATED                    5             16
  AMP PEAK 24(17Q23.1) WILD-TYPE                  9             28
D24V8, multiclass
                                  clus
vv                                 AMP PEAK 24(17Q23.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             326
  INFILTRATING LOBULAR CARCINOMA                             39
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            9
  MUCINOUS CARCINOMA                                          5
  OTHER  SPECIFY                                             16
                                  clus
vv                                 AMP PEAK 24(17Q23.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               409
  INFILTRATING LOBULAR CARCINOMA                              127
  MEDULLARY CARCINOMA                                           2
  MIXED HISTOLOGY (PLEASE SPECIFY)                             20
  MUCINOUS CARCINOMA                                            9
  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"
D24V9, binary
                                cls
clus                               0   1
  AMP PEAK 24(17Q23.1) MUTATED   114 286
  AMP PEAK 24(17Q23.1) WILD-TYPE 168 427
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(17Q23.1) MUTATED    114  286
  AMP PEAK 24(17Q23.1) WILD-TYPE  168  427
     clus
vv    AMP PEAK 24(17Q23.1) MUTATED AMP PEAK 24(17Q23.1) WILD-TYPE
  NO                           114                            168
  YES                          286                            427
[1] 2 2
[1] FALSE
D24V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 24(17Q23.1) MUTATED                                  0    28
  AMP PEAK 24(17Q23.1) WILD-TYPE                                1    28
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 24(17Q23.1) MUTATED                          57   265
  AMP PEAK 24(17Q23.1) WILD-TYPE                        80   443
D24V11, multiclass
                                  clus
vv                                 AMP PEAK 24(17Q23.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      28
  BLACK OR AFRICAN AMERICAN                                  57
  WHITE                                                     265
                                  clus
vv                                 AMP PEAK 24(17Q23.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        28
  BLACK OR AFRICAN AMERICAN                                    80
  WHITE                                                       443
[1] 4 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(17Q23.1) MUTATED    15 311
  AMP PEAK 24(17Q23.1) WILD-TYPE  21 485
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 24(17Q23.1) MUTATED     15  311
  AMP PEAK 24(17Q23.1) WILD-TYPE   21  485
                        clus
vv                       AMP PEAK 24(17Q23.1) MUTATED
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          311
                        clus
vv                       AMP PEAK 24(17Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                 21
  NOT HISPANIC OR LATINO                            485
[1] 2 2
[1] FALSE

Clustering(25) Variable = AMP PEAK 25(19P13.12) MUTATION ANALYSIS
D25V1, survival
                                 sevent
clus2                               0   1
  AMP PEAK 25(19P13.12) MUTATED   187  22
  AMP PEAK 25(19P13.12) WILD-TYPE 673  92
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                            209                             765 
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                             22                              92 
$`AMP PEAK 25(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         6.74 
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        18.05         0.99        33.99 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A0A6 
       17.95        12.00        12.00        31.00        15.02        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         1.81         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 
       17.65        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        21.86        82.88 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW 
       65.36        70.16        52.77        51.25        42.58        35.24 
TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W 
       36.26        50.89        66.05        62.07        54.18        50.96 
TCGA-AR-A24Z TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       51.75        34.82        93.83        16.96        20.38        54.74 
TCGA-B6-A0I2 TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IQ TCGA-B6-A0RU TCGA-B6-A0WX 
      143.38       112.37       176.98       140.88       131.21        21.47 
TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 
      113.79       129.57        43.59        73.51        85.35        54.28 
TCGA-BH-A0AU TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BJ TCGA-BH-A0C0 
       24.53        56.94        51.68        37.22        21.70        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DO TCGA-BH-A0E9 TCGA-BH-A0H0 
       44.02        42.90        45.83        17.26        46.19        15.16 
TCGA-BH-A0HQ TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1EO 
       36.85        37.74        55.63         7.36        51.16        91.99 
TCGA-BH-A1FC TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12Q TCGA-C8-A12V 
      114.15        57.83       130.16        11.93         0.07        12.66 
TCGA-C8-A130 TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A145 
        3.12         0.99        20.88        13.25        14.17        13.48 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JN TCGA-D8-A1X6 
       19.20        14.17        12.03        14.01        20.38        17.79 
TCGA-D8-A1XJ TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27W TCGA-E2-A10B 
       21.83        12.99        15.32        14.24        12.26        37.51 
TCGA-E2-A14N TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A153 
       47.15        38.60        31.96        28.60        25.41        23.24 
TCGA-E2-A15E TCGA-E2-A15M TCGA-E2-A1B1 TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1LE 
       20.71         7.73        53.03        33.73        33.70        28.90 
TCGA-E2-A1LG TCGA-E2-A574 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NF 
       18.87        19.89        12.00        13.12        36.56        20.05 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RH TCGA-E9-A22B TCGA-E9-A22E 
        2.76        32.09         0.66        34.59        22.75        12.89 
TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A295 
       23.51        17.06         0.69         1.94         0.95         0.72 
TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P4 
        0.62         0.39         0.26        28.77        29.85        29.82 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A423 TCGA-GI-A2C9 
       19.99         6.15        13.94        55.00        10.16       109.87 
TCGA-GM-A2DD TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A5YN TCGA-LL-A6FQ TCGA-LL-A73Y 
       43.04         4.60         0.66         3.65         2.63         4.14 
TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5RW TCGA-S3-A6ZG TCGA-W8-A86G 
        6.21         2.79        26.20         6.81         5.29 

$`AMP PEAK 25(19P13.12) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        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-A04N TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
      104.81        82.16        73.84        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       125.59        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-A0D0 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       56.81        21.14        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW 
       80.28       107.61        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-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T7 TCGA-A2-A0YC 
       17.13         8.38        20.52        17.46        20.75        32.55 
TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YK 
       25.28        18.21        15.42        21.90        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       14.63        31.73        23.77        23.47        17.36        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-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-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       33.93        14.07        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         9.01         8.81         8.91        12.00         3.42 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G 
       34.29        35.47        37.45        31.73        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J 
       29.56        24.26        23.74        23.80        21.73        20.61 
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-A4SF TCGA-A7-A56D TCGA-A7-A5ZW 
       14.93        13.74        14.50        17.92        14.73        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O 
       11.05        10.29         9.37        10.42         8.75        13.02 
TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 
       13.02        41.06        29.03        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        33.01        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-A084 
        7.99         9.96         9.99        28.04        18.05        15.06 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I 
       13.02         0.99        23.08        19.99        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T 
       37.05         9.99        31.00        31.00        19.07        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A 
       40.01        19.07        16.01        41.98         9.99         9.99 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
        1.02        13.02        33.07        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-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C 
       19.04        13.02         0.99        17.03        38.04         0.95 
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-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79         1.02         0.92         2.27         0.99         0.69 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        9.40         1.12         1.68         1.55         1.32         1.55 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A041 
        0.07         1.12         1.18         0.43         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AK 
        0.33         0.62         2.96         1.78         1.71         7.36 
TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FN 
        6.51         0.33         0.33         4.64         7.96         7.17 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ 
        6.28         6.02         0.33         0.36         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XU 
        0.33        12.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T 
        5.33        47.84        66.77        81.63        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 
       59.05        29.13        32.78        21.40        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-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM 
       76.77        21.37        26.24        38.53        62.04        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12F 
       99.25        93.70        94.59        96.10        57.30        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT 
       41.62        28.37        14.73        82.62        61.87        17.79 
TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       24.79        26.93       130.09         5.65        15.62        13.22 
TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99        49.32         5.26        37.41        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
       24.30        64.83        55.86        76.14        83.87        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       55.36        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        40.83        46.32 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 
        0.85        57.40        53.26        53.36        48.16        56.15 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
       45.17        40.64        39.85       128.65        20.25        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP 
        7.36        40.04        17.10        20.81        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB 
       10.59        77.62       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-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-A0RP TCGA-B6-A0RQ 
       81.17        78.02       172.96       162.05       102.77       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-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       17.98       129.70       186.48        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
      101.52       139.17       170.17        49.94        82.88        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-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD 
       39.55        39.16        48.36        56.98        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP 
       25.71        24.85        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-A0BW 
       27.19        53.69        53.95        45.57        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DI 
       49.05        48.13        31.17        23.44        38.01        22.13 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT 
       13.91        48.23        15.65         3.22         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       45.17        47.41        16.27         4.41        15.68        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI 
        9.63        44.81        32.65        24.49        31.00        24.43 
TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       30.35        10.78        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-A18U TCGA-BH-A1EN TCGA-BH-A1ES 
       30.28        37.55        66.05        51.39        69.93       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-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-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-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
       38.60        83.31        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
      109.28         8.94        11.77        11.77        12.66        11.77 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66        12.66         1.78         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.62         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         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-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-A141 TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J9 TCGA-D8-A1JA 
       11.90        20.58        13.97        21.14        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI 
       18.71        15.78        18.15        18.90        12.03        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JS 
       20.09        20.12        20.09        19.40        21.01        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       13.32        14.70        18.58        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-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       14.50        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-A1Y0 
       16.31         6.35        15.16        12.66        16.54        15.52 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H 
        3.81        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-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
       10.09        13.08        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C 
       43.00        34.42        27.52        46.59        40.41        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S 
       28.44        28.87        44.68        40.96        38.24        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 
       33.30        43.33        34.26        32.02        17.03        27.12 
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-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
       22.82        17.29        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-A1B0 TCGA-E2-A1B4 TCGA-E2-A1B5 
       14.07        14.99        60.53        53.62        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-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-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        18.05        22.26        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI 
       13.48        39.55        12.59        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-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
       21.21        20.81        40.24        34.65         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-A22H TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT 
       24.10         0.85        27.22        12.56        17.75         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A6HE 
       26.07        18.41        15.72         0.23         0.23        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        32.28        69.30        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       57.63        13.55        18.12        11.84        11.57         8.28 
TCGA-LD-A74U TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM 
        6.67         2.99         3.58         6.90         5.56         4.70 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.19         3.25         3.88         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        3.22        15.91         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       44.61        27.65        24.10        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       18.21         7.23         4.44 

  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                           0.07                            0.03 
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                         176.98                          234.28 
  AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE 
                          22.06                           21.14 
[1] "0.1 - 177.0 (22.1)" "0.0 - 234.3 (21.1)"
[1] "hr=" "1.1"
D25V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 25(19P13.12) MUTATED        16       15        1        2        84
  AMP PEAK 25(19P13.12) WILD-TYPE      64       62        8        7       251
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 25(19P13.12) MUTATED          49         0         28          4
  AMP PEAK 25(19P13.12) WILD-TYPE       175         2        110         23
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 25(19P13.12) MUTATED           10        0         0       2
  AMP PEAK 25(19P13.12) WILD-TYPE         49       17         1      14
D25V3, multiclass
            clus
vv           AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  STAGE I                               16                              64
  STAGE IA                              15                              62
  STAGE IB                               1                               8
  STAGE II                               2                               7
  STAGE IIA                             84                             251
  STAGE IIB                             49                             175
  STAGE III                              0                               2
  STAGE IIIA                            28                             110
  STAGE IIIB                             4                              23
  STAGE IIIC                            10                              49
  STAGE IV                               0                              17
  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 25(19P13.12) MUTATED    47 133  26   5
  AMP PEAK 25(19P13.12) WILD-TYPE 211 448  91  31
D25V4, multiclass
    clus
vv   AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  T1                            47                             211
  T2                           133                             448
  T3                            26                              91
  T4                             5                              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 25(19P13.12) MUTATED   115  64  22  10
  AMP PEAK 25(19P13.12) WILD-TYPE 353 266  89  60
D25V5, multiclass
    clus
vv   AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  N0                           115                             353
  N1                            64                             266
  N2                            22                              89
  N3                            10                              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 25(19P13.12) MUTATED          0 182   0  29
  AMP PEAK 25(19P13.12) WILD-TYPE        2 663  17 102
D25V6, multiclass
          clus
vv         AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  CM0 (I+)                             0                               2
  M0                                 182                             663
  M1                                   0                              17
  MX                                  29                             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"
D25V7, binary
                                 cls
clus                                0   1
  AMP PEAK 25(19P13.12) MUTATED   206   5
  AMP PEAK 25(19P13.12) WILD-TYPE 778   6
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 25(19P13.12) MUTATED    206    5
  AMP PEAK 25(19P13.12) WILD-TYPE  778    6
        clus
vv       AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  FEMALE                           206                             778
  MALE                               5                               6
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  AMP PEAK 25(19P13.12) MUTATED                            1
  AMP PEAK 25(19P13.12) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 25(19P13.12) MUTATED                             161
  AMP PEAK 25(19P13.12) WILD-TYPE                           574
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 25(19P13.12) MUTATED                               28
  AMP PEAK 25(19P13.12) WILD-TYPE                            138
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 25(19P13.12) MUTATED                     4
  AMP PEAK 25(19P13.12) WILD-TYPE                   1
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 25(19P13.12) MUTATED                                  5
  AMP PEAK 25(19P13.12) WILD-TYPE                               24
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 25(19P13.12) MUTATED                    2             10
  AMP PEAK 25(19P13.12) WILD-TYPE                 12             34
D25V8, multiclass
                                  clus
vv                                 AMP PEAK 25(19P13.12) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              161
  INFILTRATING LOBULAR CARCINOMA                              28
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             5
  MUCINOUS CARCINOMA                                           2
  OTHER  SPECIFY                                              10
                                  clus
vv                                 AMP PEAK 25(19P13.12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                574
  INFILTRATING LOBULAR CARCINOMA                               138
  MEDULLARY CARCINOMA                                            1
  MIXED HISTOLOGY (PLEASE SPECIFY)                              24
  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"
D25V9, binary
                                 cls
clus                                0   1
  AMP PEAK 25(19P13.12) MUTATED    73 138
  AMP PEAK 25(19P13.12) WILD-TYPE 209 575
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 25(19P13.12) MUTATED     73  138
  AMP PEAK 25(19P13.12) WILD-TYPE  209  575
     clus
vv    AMP PEAK 25(19P13.12) MUTATED AMP PEAK 25(19P13.12) WILD-TYPE
  NO                             73                             209
  YES                           138                             575
[1] 2 2
[1] FALSE
D25V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 25(19P13.12) MUTATED                                  0     8
  AMP PEAK 25(19P13.12) WILD-TYPE                                1    48
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 25(19P13.12) MUTATED                          36   153
  AMP PEAK 25(19P13.12) WILD-TYPE                       101   555
D25V11, multiclass
                                  clus
vv                                 AMP PEAK 25(19P13.12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                        8
  BLACK OR AFRICAN AMERICAN                                   36
  WHITE                                                      153
                                  clus
vv                                 AMP PEAK 25(19P13.12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         48
  BLACK OR AFRICAN AMERICAN                                    101
  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"
D25V12, binary
                                 cls
clus                                0   1
  AMP PEAK 25(19P13.12) MUTATED     8 169
  AMP PEAK 25(19P13.12) WILD-TYPE  28 627
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 25(19P13.12) MUTATED      8  169
  AMP PEAK 25(19P13.12) WILD-TYPE   28  627
                        clus
vv                       AMP PEAK 25(19P13.12) MUTATED
  HISPANIC OR LATINO                                 8
  NOT HISPANIC OR LATINO                           169
                        clus
vv                       AMP PEAK 25(19P13.12) WILD-TYPE
  HISPANIC OR LATINO                                  28
  NOT HISPANIC OR LATINO                             627
[1] 2 2
[1] FALSE

Clustering(26) Variable = AMP PEAK 26(19Q12) MUTATION ANALYSIS
D26V1, survival
                              sevent
clus2                            0   1
  AMP PEAK 26(19Q12) MUTATED   224  35
  AMP PEAK 26(19Q12) WILD-TYPE 636  79
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                         259                          715 
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                          35                           79 
$`AMP PEAK 26(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 
        6.74        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        33.01 
TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A08O TCGA-A8-A08R TCGA-A8-A08X 
        9.99         8.98         9.96        31.00         0.99        33.99 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09M 
       16.01        17.95        12.00        12.00        31.00        15.02 
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-AN-A03Y TCGA-AN-A0AK TCGA-AN-A0AM 
        1.81         1.81         0.69         0.33         7.36         0.16 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY 
        7.96         7.00         6.02         0.36         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03O TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J7 
        0.33         5.59        81.63        32.78        17.65        20.32 
TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       76.77        55.33       102.58        96.10        90.58        77.56 
TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A54N TCGA-AQ-A54O 
       64.04        48.36        70.39         0.53         2.56        21.86 
TCGA-AR-A0TQ TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AV 
       49.32        24.30        65.36        61.84        52.77        42.58 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
       35.24        36.26        50.89        53.36        54.18        50.96 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LQ 
       51.75        56.15        45.17        34.82        93.83        16.96 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0IH TCGA-B6-A0IJ 
       20.38        54.74        77.62       143.38       112.37       176.98 
TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A0WY 
      110.14       140.88       100.70       131.21        21.47       113.79 
TCGA-B6-A0WZ TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 TCGA-B6-A402 
      129.57       186.48        43.59        73.51        85.35        54.28 
TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BG 
       24.53        20.45        39.55        56.94        37.22        24.85 
TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C1 
       21.70        44.05        53.69        11.67        41.75        44.02 
TCGA-BH-A0DD TCGA-BH-A0DO TCGA-BH-A0E9 TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H7 
       45.83        17.26        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-A18T 
       36.85        90.84        26.66        37.74        55.63         7.36 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F6 
       51.16        69.93        91.99        12.00        55.69        97.48 
TCGA-BH-A1FC TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12V 
      114.15        38.60        57.83       130.16        11.93        12.66 
TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26Y 
       12.66         3.12        12.03         2.30         3.25         0.43 
TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27B TCGA-D8-A13Z TCGA-D8-A142 TCGA-D8-A143 
        8.28         0.03         0.99        20.88        13.97        14.17 
TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       13.48        19.20        14.17        12.03        12.03        14.01 
TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1XJ TCGA-D8-A1XU 
       20.09        20.38        14.70        17.79        21.83        12.99 
TCGA-D8-A1XW TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27V TCGA-D8-A27W TCGA-E2-A10B 
       12.66        13.48         4.80        12.53        12.26        37.51 
TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14R TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       40.11        47.15        38.60        31.96        28.60        17.03 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15M 
       25.41        27.12        23.24        20.71        21.63         7.73 
TCGA-E2-A1AZ TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1LG TCGA-E2-A574 TCGA-E9-A1N8 
       60.53        33.70        22.19        18.87        19.89        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RI 
       13.12        36.56         2.76        32.09         0.66        35.64 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A248 
       22.75        12.89        23.51        17.06         0.69         1.94 
TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL 
        0.95         0.72         0.62        15.72         0.39         0.26 
TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PC 
       28.77        29.85        29.82         7.86        19.99         6.15 
TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A423 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF 
       13.94        19.96        10.16        53.52        43.04        42.71 
TCGA-JL-A3YW TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
       11.84         3.65         3.25         2.63         3.88         4.14 
TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66I TCGA-S3-A6ZG 
        6.21        46.55        26.20         9.80        23.70         6.81 
TCGA-W8-A86G 
        5.29 

$`AMP PEAK 26(19Q12) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        47.24        20.88 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
        7.96        39.32        28.01        19.20        18.21       104.81 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        63.12        64.04        55.43        36.13       125.59 
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-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-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-A0EV TCGA-A2-A0EW TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW 
       37.05        31.82        29.75        54.64        27.12        44.88 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T7 
       44.28        17.52        17.13        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-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
       18.61        19.33        14.63        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-A3XT TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW 
       39.65        83.01        14.07        49.48        31.99         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE 
        9.01         8.81         8.91        12.00         3.42        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13F TCGA-A7-A13G 
       34.29        35.47        30.61        37.45        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD 
       29.56        24.26        23.74        23.80        20.61        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-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       14.93        13.74        17.92        12.10        10.72        11.05 
TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
        9.37         8.75        13.02         1.02        17.98        41.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07E 
       29.03        26.01         1.02        53.98         9.01        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-A07S TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
        7.99         9.99        28.04        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G 
       13.02         0.99        23.08        19.99        18.05        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        19.07        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C 
       40.01        19.07        41.98         9.99         9.99         1.02 
TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       13.02        33.07        29.98         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-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23H 
       21.04         0.99        17.03        38.04         0.95         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-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN 
       38.79         1.02         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         9.40         1.12         1.68         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP 
        1.55         0.07         1.12         1.18         0.43         1.74 
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-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-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV 
        6.44         4.64         7.59         7.17         6.28         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-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
        0.33         0.33         5.33        80.28        47.84        66.77 
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-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        38.53        62.04 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12E TCGA-AO-A12G 
       71.80        99.25        93.70        94.59        57.30        41.62 
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-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 
       26.93       130.09         5.65        15.62        13.22         9.99 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX 
       82.88         5.26        37.41        56.88        29.75        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       55.86        76.14        70.16        83.87        76.18        55.36 
TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO 
       75.55        51.25        48.82        62.56        43.73        43.56 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AY 
       39.98        43.07        17.23        40.83        46.32        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A252 
       66.05        57.40        62.07        53.26        48.16        40.64 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM 
       39.85       128.65        20.25        42.87         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I5 
       17.10        20.81        16.04        20.45        10.59       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-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG 
       18.77       126.12        84.59       110.93       211.56        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-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-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       79.63        17.98       129.70        28.27        68.94        58.88 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
      101.52       139.17       170.17        49.94        82.88        55.00 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       38.79        25.55        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-A0BF 
       48.36        56.98        51.68        32.02        18.21        25.71 
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-A0BV TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DG 
       49.94        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-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-A0EA TCGA-BH-A0EB 
       15.68        14.30         9.63        44.81        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       31.00        24.43        10.78        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-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-A18M TCGA-BH-A18P TCGA-BH-A18R 
        2.01         7.23        20.12        72.56        30.28        37.55 
TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX 
       66.05        51.39       113.82        82.85        42.28        49.58 
TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       17.69        25.81        31.53        89.16        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-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-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-A12Q 
        8.94        11.77        11.77        12.66        11.77         0.07 
TCGA-C8-A12U 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-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 
        0.16        10.42         0.30         0.23         0.36         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-A146 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.25        20.58        21.14        17.49        16.50        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       15.78        18.15        18.90        18.97        20.09        20.12 
TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X7 
       19.40        21.01        12.20        13.32        18.58        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-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       15.22        14.73        14.50        19.92        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XY 
       16.41        15.85        16.31         6.35        15.16        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-A27L 
       16.04        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        10.09        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-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-A154 TCGA-E2-A155 TCGA-E2-A156 
       43.33        34.26        32.02        19.43        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G 
       14.79        25.05        23.34        22.82        17.29        18.21 
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-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-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-A1LI TCGA-E2-A1LK 
       24.59        40.47        28.90       106.75       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        18.05 
TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1ND 
       22.26        19.20        36.82        13.48        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-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB 
        0.62         2.10         6.12         1.38        21.21        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-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22H TCGA-E9-A245 
        0.79        12.53        13.32        39.09        24.10         0.85 
TCGA-E9-A247 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       27.22        12.56        17.75         0.76        26.07        18.41 
TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.23         0.23        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-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-A1PA TCGA-EW-A1PE TCGA-EW-A1PF 
       23.11        18.48        30.08        18.90        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       34.55        55.00        52.73        25.91        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA 
       17.49        10.59         7.40       109.87        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       53.95        57.63        13.55        18.12        11.57         8.28 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        5.56         4.70         3.19         4.50         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        3.22        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       44.61        27.65        24.10        16.87        14.10        10.29 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       14.76        54.51        33.90        31.07        18.21         7.23 
TCGA-OL-A66P 
        4.44 

  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                        0.03                         0.03 
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                      186.48                       234.28 
  AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE 
                       22.75                        21.01 
[1] "0.0 - 186.5 (22.8)" "0.0 - 234.3 (21.0)"
[1] "hr=" "1.2"
D26V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 26(19Q12) MUTATED        23       15        2        2       115
  AMP PEAK 26(19Q12) WILD-TYPE      57       62        7        7       220
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 26(19Q12) MUTATED          50         0         33          6
  AMP PEAK 26(19Q12) WILD-TYPE       174         2        105         21
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 26(19Q12) MUTATED            9        4         0       2
  AMP PEAK 26(19Q12) WILD-TYPE         50       13         1      14
D26V3, multiclass
            clus
vv           AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  STAGE I                            23                           57
  STAGE IA                           15                           62
  STAGE IB                            2                            7
  STAGE II                            2                            7
  STAGE IIA                         115                          220
  STAGE IIB                          50                          174
  STAGE III                           0                            2
  STAGE IIIA                         33                          105
  STAGE IIIB                          6                           21
  STAGE IIIC                          9                           50
  STAGE IV                            4                           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
  AMP PEAK 26(19Q12) MUTATED    62 163  29   8
  AMP PEAK 26(19Q12) WILD-TYPE 196 418  88  28
D26V4, multiclass
    clus
vv   AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  T1                         62                          196
  T2                        163                          418
  T3                         29                           88
  T4                          8                           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 26(19Q12) MUTATED   144  80  26  11
  AMP PEAK 26(19Q12) WILD-TYPE 324 250  85  59
D26V5, multiclass
    clus
vv   AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  N0                        144                          324
  N1                         80                          250
  N2                         26                           85
  N3                         11                           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
  AMP PEAK 26(19Q12) MUTATED          0 233   4  25
  AMP PEAK 26(19Q12) WILD-TYPE        2 612  13 106
D26V6, multiclass
          clus
vv         AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  CM0 (I+)                          0                            2
  M0                              233                          612
  M1                                4                           13
  MX                               25                          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"
D26V7, binary
                              cls
clus                             0   1
  AMP PEAK 26(19Q12) MUTATED   258   4
  AMP PEAK 26(19Q12) WILD-TYPE 726   7
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 26(19Q12) MUTATED    258    4
  AMP PEAK 26(19Q12) WILD-TYPE  726    7
        clus
vv       AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  FEMALE                        258                          726
  MALE                            4                            7
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  AMP PEAK 26(19Q12) MUTATED                            0
  AMP PEAK 26(19Q12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 26(19Q12) MUTATED                             215
  AMP PEAK 26(19Q12) WILD-TYPE                           520
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 26(19Q12) MUTATED                               25
  AMP PEAK 26(19Q12) WILD-TYPE                            141
                              vv
clus                           MEDULLARY CARCINOMA
  AMP PEAK 26(19Q12) MUTATED                     5
  AMP PEAK 26(19Q12) WILD-TYPE                   0
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 26(19Q12) MUTATED                                  5
  AMP PEAK 26(19Q12) WILD-TYPE                               24
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 26(19Q12) MUTATED                    2             10
  AMP PEAK 26(19Q12) WILD-TYPE                 12             34
D26V8, multiclass
                                  clus
vv                                 AMP PEAK 26(19Q12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           215
  INFILTRATING LOBULAR CARCINOMA                           25
  MEDULLARY CARCINOMA                                       5
  MIXED HISTOLOGY (PLEASE SPECIFY)                          5
  MUCINOUS CARCINOMA                                        2
  OTHER  SPECIFY                                           10
                                  clus
vv                                 AMP PEAK 26(19Q12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             520
  INFILTRATING LOBULAR CARCINOMA                            141
  MEDULLARY CARCINOMA                                         0
  MIXED HISTOLOGY (PLEASE SPECIFY)                           24
  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"
D26V9, binary
                              cls
clus                             0   1
  AMP PEAK 26(19Q12) MUTATED    79 183
  AMP PEAK 26(19Q12) WILD-TYPE 203 530
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 26(19Q12) MUTATED     79  183
  AMP PEAK 26(19Q12) WILD-TYPE  203  530
     clus
vv    AMP PEAK 26(19Q12) MUTATED AMP PEAK 26(19Q12) WILD-TYPE
  NO                          79                          203
  YES                        183                          530
[1] 2 2
[1] FALSE
D26V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 26(19Q12) MUTATED                                  0    13
  AMP PEAK 26(19Q12) WILD-TYPE                                1    43
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 26(19Q12) MUTATED                          48   182
  AMP PEAK 26(19Q12) WILD-TYPE                        89   526
D26V11, multiclass
                                  clus
vv                                 AMP PEAK 26(19Q12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    13
  BLACK OR AFRICAN AMERICAN                                48
  WHITE                                                   182
                                  clus
vv                                 AMP PEAK 26(19Q12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      43
  BLACK OR AFRICAN AMERICAN                                  89
  WHITE                                                     526
[1] 4 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(19Q12) MUTATED    10 210
  AMP PEAK 26(19Q12) WILD-TYPE  26 586
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 26(19Q12) MUTATED     10  210
  AMP PEAK 26(19Q12) WILD-TYPE   26  586
                        clus
vv                       AMP PEAK 26(19Q12) MUTATED
  HISPANIC OR LATINO                             10
  NOT HISPANIC OR LATINO                        210
                        clus
vv                       AMP PEAK 26(19Q12) WILD-TYPE
  HISPANIC OR LATINO                               26
  NOT HISPANIC OR LATINO                          586
[1] 2 2
[1] FALSE

Clustering(27) Variable = AMP PEAK 27(19Q13.42) MUTATION ANALYSIS
D27V1, survival
                                 sevent
clus2                               0   1
  AMP PEAK 27(19Q13.42) MUTATED   221  31
  AMP PEAK 27(19Q13.42) WILD-TYPE 639  83
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                            252                             722 
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                             31                              83 
$`AMP PEAK 27(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 
        6.74        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        33.01         8.98 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08O 
        9.96         9.99        28.04        18.05        12.00        31.00 
TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B 
       33.99        16.01        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 
       31.00        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        94.59 
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        21.86        49.32        56.88 
TCGA-AR-A0TW TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L 
       24.30        42.58        35.24        36.26        50.89        73.02 
TCGA-AR-A24Q TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 
       66.05        54.18        50.96        51.75        56.15        34.82 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I2 TCGA-B6-A0IH TCGA-B6-A0IJ 
       16.96        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-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NG TCGA-E9-A1R6 TCGA-E9-A1RA 
       18.87        12.00        13.12        21.57         2.76        32.09 
TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A22B TCGA-E9-A22E 
        0.66         6.58        34.59        35.64        22.75        12.89 
TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL 
        0.95         0.72        17.75        15.72         0.39         0.26 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PD 
       28.77        25.94        29.82         7.86        18.90        13.94 
TCGA-EW-A1PF TCGA-EW-A423 TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-LL-A5YP 
       14.43        10.16        59.57        53.52        43.04         3.25 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-MS-A51U TCGA-S3-A6ZG TCGA-W8-A86G 
        2.63         4.14         5.59         2.79         6.81         5.29 

$`AMP PEAK 27(19Q13.42) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        47.24        20.88 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04V 
        7.96        39.32        19.20       104.81        82.16        63.12 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO 
       55.43        36.13       125.59        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-A0D1 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN 
       64.04        56.81        34.55        28.77       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW 
       80.28       107.61        74.40        37.05        31.82        29.75 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       99.19        54.64        27.12        44.88        50.43        44.28 
TCGA-A2-A0T1 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD 
       17.13        20.52        17.46        20.75        32.55        25.28 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       18.21        15.42        14.50        18.61        19.33        14.63 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1FZ 
       31.73        23.77        23.47        17.36        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-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT 
       17.19        91.92        10.59        20.88        39.65        83.01 
TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW 
       14.07        49.48        38.40        34.98        31.99         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE 
        9.01         8.81         8.91        12.00         3.42        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A13F 
       34.29        35.47        30.61        37.45        10.72        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-A4SE TCGA-A7-A4SF TCGA-A7-A5ZW 
       11.97        14.93        13.74        21.17        17.92        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T 
       11.05         9.37         8.75        13.02         1.02        41.06 
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-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-A082 TCGA-A8-A084 TCGA-A8-A085 
        9.99        10.98         7.99        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J 
       13.02         0.99        23.08        19.99        19.96        37.05 
TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z 
        9.99        31.00         0.99        19.07        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09I 
       19.07        41.98         9.99         1.02        13.02        33.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       29.98        15.02         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-A0AB 
        0.99        14.01        12.00        19.04        13.02        17.03 
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-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QI 
       40.57        55.43        36.99        38.79         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         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.81         1.68         1.55         1.32         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 
        1.12         1.18         0.43         1.74         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.33         0.62         2.96         1.71         8.02         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        0.33         0.33         0.33         6.44         4.64         7.96 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FZ 
        7.59         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0XL 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-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T 
        0.33         0.33         5.33        66.77        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       59.05        21.40        17.65        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-A0JL TCGA-AO-A0JM TCGA-AO-A125 
       26.24        38.53        62.04        55.33        71.80        99.25 
TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       93.70        96.10        57.30        28.37        14.73        82.62 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       17.79        24.79        26.93       130.09         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV 
       13.22         9.99        82.88         5.26        37.41        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 
       64.83        55.86        76.14        65.36        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       76.18        55.36        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-A1AY TCGA-AR-A24H TCGA-AR-A24M 
       17.23        40.83        46.32        20.22       109.58        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T 
       68.19        65.69         0.85        57.40        62.07        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A256 
       53.36        48.16        45.17        40.64        39.85        93.83 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
      128.65        20.25        42.87         7.36        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 
       20.81        16.04        20.45        10.59        77.62       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-A0IK TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH 
       18.77       126.12       110.93       211.56        68.45       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-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
       17.98        21.47       113.79       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        82.88        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-A0BC 
       46.95        40.83        39.16        48.36        56.98        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       18.21        25.71        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 
       53.95        49.94        11.67        49.05        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-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-A0EA TCGA-BH-A0EB 
       16.27        15.68        14.30        44.81        32.65        24.49 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       31.00        24.43        10.78        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-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-A18M TCGA-BH-A18P TCGA-BH-A18R 
        2.01         7.23        20.12        72.56        30.28        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX 
       66.05         7.36        51.16        82.85        42.28        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-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-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-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-A12P TCGA-C8-A12Q 
        8.94        11.77        11.77        12.66        11.77         0.07 
TCGA-C8-A12U 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-A1HL TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 
        0.16        10.42         0.30         0.36         0.43         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-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.25        20.58        21.14        19.20        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI 
       18.71        15.78        18.15        18.90        12.03        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1X7 
       20.09        20.12        19.40        12.20        13.32        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-A1XR TCGA-D8-A1XS 
       14.73        19.92        17.69         7.96        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
        6.35        15.16        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-A27P TCGA-D8-A27T TCGA-D8-A3Z5 
        9.44        16.41        13.48         0.76        13.08        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-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       40.41        28.44        28.87        47.15        44.68        40.96 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.60        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       17.03        25.41        19.43        21.04        23.87        14.79 
TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       23.34        22.82        17.29        20.71        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-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       17.06        14.99        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-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L6 
       33.73        28.44        22.65         3.88        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-E2-A574 TCGA-E9-A1N4 
       15.72         7.20        18.05        22.26        19.89        19.20 
TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       36.82        13.48        36.56        39.55        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R3 
       20.05         9.86        11.90        14.30         0.62         2.10 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE 
        6.12         1.38        21.21        20.81        40.24        34.65 
TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       21.27        34.13         0.79        12.53        13.32        39.09 
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-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
        1.94        12.56         0.76        26.07        18.41         0.62 
TCGA-E9-A54Y TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.23         0.23        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        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       11.57         8.28         6.67         4.60         0.66         2.99 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
        3.58         6.90         5.56         4.70         3.65         3.19 
TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 
        3.88         4.50         4.50         3.22         6.21        15.91 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.10        12.66        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       24.10        26.20        16.87        14.10        10.29         9.80 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       14.76        23.70        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P 
        7.23         4.44 

  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                           0.03                            0.03 
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                         176.98                          234.28 
  AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE 
                          21.88                           21.09 
[1] "0.0 - 177.0 (21.9)" "0.0 - 234.3 (21.1)"
[1] "hr=" "1.2"
D27V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 27(19Q13.42) MUTATED        22       18        2        2        96
  AMP PEAK 27(19Q13.42) WILD-TYPE      58       59        7        7       239
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 27(19Q13.42) MUTATED          56         0         35          7
  AMP PEAK 27(19Q13.42) WILD-TYPE       168         2        103         20
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 27(19Q13.42) MUTATED           14        3         0       2
  AMP PEAK 27(19Q13.42) WILD-TYPE         45       14         1      14
D27V3, multiclass
            clus
vv           AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  STAGE I                               22                              58
  STAGE IA                              18                              59
  STAGE IB                               2                               7
  STAGE II                               2                               7
  STAGE IIA                             96                             239
  STAGE IIB                             56                             168
  STAGE III                              0                               2
  STAGE IIIA                            35                             103
  STAGE IIIB                             7                              20
  STAGE IIIC                            14                              45
  STAGE IV                               3                              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(19Q13.42) MUTATED    61 163  25   8
  AMP PEAK 27(19Q13.42) WILD-TYPE 197 418  92  28
D27V4, multiclass
    clus
vv   AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  T1                            61                             197
  T2                           163                             418
  T3                            25                              92
  T4                             8                              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 27(19Q13.42) MUTATED   128  82  27  16
  AMP PEAK 27(19Q13.42) WILD-TYPE 340 248  84  54
D27V5, multiclass
    clus
vv   AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  N0                           128                             340
  N1                            82                             248
  N2                            27                              84
  N3                            16                              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
  AMP PEAK 27(19Q13.42) MUTATED          0 234   3  20
  AMP PEAK 27(19Q13.42) WILD-TYPE        2 611  14 111
D27V6, multiclass
          clus
vv         AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  CM0 (I+)                             0                               2
  M0                                 234                             611
  M1                                   3                              14
  MX                                  20                             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"
D27V7, binary
                                 cls
clus                                0   1
  AMP PEAK 27(19Q13.42) MUTATED   252   5
  AMP PEAK 27(19Q13.42) WILD-TYPE 732   6
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 27(19Q13.42) MUTATED    252    5
  AMP PEAK 27(19Q13.42) WILD-TYPE  732    6
        clus
vv       AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  FEMALE                           252                             732
  MALE                               5                               6
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  AMP PEAK 27(19Q13.42) MUTATED                            1
  AMP PEAK 27(19Q13.42) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 27(19Q13.42) MUTATED                             209
  AMP PEAK 27(19Q13.42) WILD-TYPE                           526
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 27(19Q13.42) MUTATED                               28
  AMP PEAK 27(19Q13.42) WILD-TYPE                            138
                                 vv
clus                              MEDULLARY CARCINOMA
  AMP PEAK 27(19Q13.42) MUTATED                     1
  AMP PEAK 27(19Q13.42) WILD-TYPE                   4
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 27(19Q13.42) MUTATED                                  4
  AMP PEAK 27(19Q13.42) WILD-TYPE                               25
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 27(19Q13.42) MUTATED                    2             12
  AMP PEAK 27(19Q13.42) WILD-TYPE                 12             32
D27V8, multiclass
                                  clus
vv                                 AMP PEAK 27(19Q13.42) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              209
  INFILTRATING LOBULAR CARCINOMA                              28
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             4
  MUCINOUS CARCINOMA                                           2
  OTHER  SPECIFY                                              12
                                  clus
vv                                 AMP PEAK 27(19Q13.42) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                526
  INFILTRATING LOBULAR CARCINOMA                               138
  MEDULLARY CARCINOMA                                            4
  MIXED HISTOLOGY (PLEASE SPECIFY)                              25
  MUCINOUS CARCINOMA                                            12
  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"
D27V9, binary
                                 cls
clus                                0   1
  AMP PEAK 27(19Q13.42) MUTATED    81 176
  AMP PEAK 27(19Q13.42) WILD-TYPE 201 537
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 27(19Q13.42) MUTATED     81  176
  AMP PEAK 27(19Q13.42) WILD-TYPE  201  537
     clus
vv    AMP PEAK 27(19Q13.42) MUTATED AMP PEAK 27(19Q13.42) WILD-TYPE
  NO                             81                             201
  YES                           176                             537
[1] 2 2
[1] FALSE
D27V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 27(19Q13.42) MUTATED                                  0    16
  AMP PEAK 27(19Q13.42) WILD-TYPE                                1    40
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 27(19Q13.42) MUTATED                          31   188
  AMP PEAK 27(19Q13.42) WILD-TYPE                       106   520
D27V11, multiclass
                                  clus
vv                                 AMP PEAK 27(19Q13.42) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       16
  BLACK OR AFRICAN AMERICAN                                   31
  WHITE                                                      188
                                  clus
vv                                 AMP PEAK 27(19Q13.42) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         40
  BLACK OR AFRICAN AMERICAN                                    106
  WHITE                                                        520
[1] 4 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(19Q13.42) MUTATED    11 200
  AMP PEAK 27(19Q13.42) WILD-TYPE  25 596
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 27(19Q13.42) MUTATED     11  200
  AMP PEAK 27(19Q13.42) WILD-TYPE   25  596
                        clus
vv                       AMP PEAK 27(19Q13.42) MUTATED
  HISPANIC OR LATINO                                11
  NOT HISPANIC OR LATINO                           200
                        clus
vv                       AMP PEAK 27(19Q13.42) WILD-TYPE
  HISPANIC OR LATINO                                  25
  NOT HISPANIC OR LATINO                             596
[1] 2 2
[1] FALSE

Clustering(28) Variable = AMP PEAK 28(20Q13.2) MUTATION ANALYSIS
D28V1, survival
                                sevent
clus2                              0   1
  AMP PEAK 28(20Q13.2) MUTATED   442  58
  AMP PEAK 28(20Q13.2) WILD-TYPE 418  56
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                           500                            474 
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                            58                             56 
$`AMP PEAK 28(20Q13.2) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SJ TCGA-A1-A0SK 
       14.37        48.10        14.27        20.88        13.68        31.79 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04R 
        7.96        39.32        28.01        19.20        18.21        82.16 
TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CL TCGA-A2-A0CM 
       73.84        64.04        55.43        36.13        64.57        24.79 
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-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EU 
       21.14        33.76        25.22        79.76        35.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T2 
       31.82        24.16        27.12        44.88        50.43         8.38 
TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YH 
       18.71        20.75        25.28        18.21        21.90        21.67 
TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G1 
       18.61        23.77        17.36        36.79        20.25        19.20 
TCGA-A2-A25B TCGA-A2-A25E TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XX 
       16.31        91.92        20.88        33.93        83.01        38.40 
TCGA-A2-A3XY TCGA-A2-A4RX TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0D9 
       34.98         9.01         6.74        38.30        30.61        37.45 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26G 
       35.67        33.11        31.73        10.72        12.72        23.74 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SE 
       20.61        22.32        14.70        14.93        14.50        21.17 
TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06Q 
       17.92        14.73        12.10        10.29        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
       17.98        29.03        26.01         1.02        17.03        53.98 
TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07U 
        9.01        18.97        17.03        10.98         8.98         9.96 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08B TCGA-A8-A08F 
        9.99        28.04        36.95        13.02        23.08        18.05 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R 
       19.96        12.00        37.05         9.99        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       19.07        33.99        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
       12.00         9.99         1.02        13.02        31.00        33.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A0A1 TCGA-A8-A0A7 
       29.98        15.02         1.02         8.98        12.00         0.99 
TCGA-A8-A0A9 TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2BM TCGA-AC-A2FM 
       13.02         0.95        10.85         2.66        38.20        26.04 
TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3W5 TCGA-AC-A5XS TCGA-AC-A62V 
       50.70         1.02         2.27         1.81         1.55         0.07 
TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.81         0.69         1.74         0.33         0.33         0.23 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS 
        2.96         1.78         1.71         8.02         0.16         0.33 
TCGA-AN-A0FD TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL 
        6.44         6.02         0.36         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
        0.33        12.33         0.30        80.28        47.84        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J7 
       81.63        84.69        47.87        29.13        32.78        20.32 
TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JI TCGA-AO-A0JL 
       53.03        50.70        72.00        76.77        38.53        55.33 
TCGA-AO-A0JM TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E 
       71.80        94.59        96.10        90.58        77.56        57.30 
TCGA-AO-A12F TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H 
       48.36        82.62        61.87         0.53        17.79        24.79 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ 
      130.09         5.65        15.62        21.86         9.99        49.32 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ 
       56.88        29.75        24.30        64.83        55.86        76.14 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AN TCGA-AR-A1AP 
       70.16        83.87        61.84        51.25        43.73        39.98 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L 
       46.32        42.58        35.24        20.22       109.58        73.02 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z 
       66.05        57.40        62.07        54.18        50.96        51.75 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       56.15        45.17        40.64        39.85        34.82        93.83 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QM TCGA-B6-A0I1 
       42.87         7.36        20.81        20.38        54.74        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH 
      143.38       149.59        12.13       129.57        65.72       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH 
      176.98       110.14       140.88       211.56        68.45       189.01 
TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RU TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A1KC 
       81.17       162.05       131.21        79.63       113.79        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 
      101.52        73.51       139.17        85.35        54.28        49.94 
TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B4 
       82.88        24.53        20.45        25.55        39.55        39.16 
TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BT 
       56.94        37.22        25.71        44.05        48.69        45.57 
TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DG 
       49.94        49.05        41.75        44.02        45.83        23.44 
TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EE 
       48.23         3.22         4.41        14.30        46.19        31.00 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HB TCGA-BH-A0HI 
       24.43        30.35        23.08        41.00        26.50        20.38 
TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W5 
       36.85        12.89        27.25        50.79         5.59        42.35 
TCGA-BH-A0W7 TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18R 
       44.81        90.84        26.66        37.74        55.63        37.55 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EU 
        7.36        51.39        51.16        69.93        91.99        42.28 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 
       12.00        55.69        49.58        31.53        97.48        24.66 
TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 
       74.73        45.63        72.07         0.72        83.31        57.83 
TCGA-BH-A28Q TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q 
        6.44        11.93        11.77        12.66        11.77         0.07 
TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66         3.12         1.78         1.45         0.69 
TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26Y 
        3.75        11.34        11.34         2.30         3.25         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M8 
        8.28         9.67         0.03         0.03        12.20         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-A1JB TCGA-D8-A1JC TCGA-D8-A1JD 
       21.14        19.20        14.17        18.71        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK 
       18.90        12.03        12.03        14.01        18.97        20.12 
TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB 
       21.01        13.32        18.58        23.90        27.58        18.15 
TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XQ 
       17.16        15.22        21.83        14.50        19.92        16.41 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 
       16.31        12.99        12.66        16.54        15.32        15.52 
TCGA-D8-A1Y1 TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27L TCGA-D8-A27R TCGA-D8-A27W 
        3.81        13.05        14.43        16.41        10.09        12.26 
TCGA-E2-A105 TCGA-E2-A109 TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14P 
       43.00        46.59        37.51        40.11        44.68        40.96 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y 
       38.60        33.17        33.30        34.26        31.96        28.60 
TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15A 
       25.41        27.12        23.24        19.43        25.05        23.34 
TCGA-E2-A15C TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15K TCGA-E2-A15M 
       22.82        20.71        21.63        12.92         9.04         7.73 
TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1BD 
       13.02        17.06        14.07        60.53        53.62        17.10 
TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L7 
       38.30        33.73        33.70        22.19        20.98        27.42 
TCGA-E2-A1L9 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A56Z 
       19.66       106.75       102.61         8.75        43.04         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 
       18.05        22.26        19.89        36.82        13.48        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ 
       13.12        36.56        35.77        20.05         9.86        11.90 
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-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
       32.09        20.81        40.24        34.65         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A229 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A244 
       34.59        34.13        13.32        22.75        12.89         0.69 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A54Y 
       27.22         1.94         0.95         0.72        17.75         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1IY TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 
        0.39         0.26         8.48        16.57        15.68        28.77 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1PA 
       29.85        40.41        41.13        23.11        18.48        18.90 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS 
       19.99         6.15        14.43        19.96        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GM-A2DC 
       25.91        22.09        17.49        10.16         7.40        53.52 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YW 
       43.04        42.71        61.91        62.33        69.30        11.84 
TCGA-LD-A66U TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ 
        8.28         2.99         4.70         3.65         3.25         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-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5RZ TCGA-OL-A66I TCGA-OL-A66N TCGA-OL-A66P 
       15.91         2.79        10.29        23.70        18.21         4.44 
TCGA-S3-A6ZG TCGA-W8-A86G 
        6.81         5.29 

$`AMP PEAK 28(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       125.59       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        14.63 
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 
       14.07        49.48        31.99        38.37         7.30         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
        8.91        12.00         3.42        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        41.06        31.00        33.01        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        19.99        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         9.40         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX 
        1.68         1.55         1.32         1.12         1.18         0.43 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT 
        0.33         0.62         7.36         6.51         0.33         0.33 
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-A0FV TCGA-AN-A0FX TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33         0.33         0.33         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J3 TCGA-AO-A0J4 
        5.33         5.59        68.75        59.05        21.40        17.65 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JF 
       24.16        37.48        22.36        21.53        50.86        21.37 
TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A12D 
       26.24        62.04       102.58        99.25        93.70        64.04 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A1H3 
       41.62        28.37        14.73        70.39        26.93        13.22 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0U0 TCGA-AR-A0U3 
        2.56        82.88         5.26        37.41        65.36        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO 
       55.36        75.55        52.77        48.82        62.56        43.56 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24M 
       43.07        17.23        40.83        36.26        50.89        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X 
       68.19        65.69         0.85        53.26        53.36        48.16 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QN 
      128.65        20.25        40.04        17.10        16.96        16.04 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IK 
       20.45        10.59       220.90        50.70       146.50        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      126.12        84.59       110.93       234.28        78.02       172.96 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      102.77       140.48       100.70        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-A2IU TCGA-B6-A40C TCGA-BH-A0AV 
       28.27        68.94        58.88       170.17        55.00        38.79 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B9 
       28.50        46.95        40.83        48.36        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO 
       32.02        18.21        24.85        21.70        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 
       27.19        53.69        53.95        11.67        48.13        42.90 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP 
       31.17        38.01        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-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0GZ TCGA-BH-A0H0 
        9.63        44.81        32.65        24.49        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HK TCGA-BH-A0HO 
       37.78        35.51        24.56        52.96         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0WA TCGA-BH-A18F 
       13.61        51.32        23.93        24.95        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-A1ES TCGA-BH-A1ET TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1FB 
      113.82        82.85        17.69        25.81        89.16       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
      114.15        33.17       122.89        36.92        63.35        55.00 
TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A209 TCGA-BH-A28O 
      144.59        72.07         6.90        38.60       130.16        10.65 
TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12V 
       20.12         0.99       109.28         8.94        11.77        12.66 
TCGA-C8-A12X TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HJ 
       12.66         0.62         3.85        12.33        10.92         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A275 
       12.03        10.42         0.30         0.23         0.36         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A141 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JJ 
        0.99         0.03        20.58        17.49        16.50        20.09 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X6 
       20.09        19.40        20.38        12.20        14.70        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XC TCGA-D8-A1XG TCGA-D8-A1XM TCGA-D8-A1XO 
       16.73        25.74         2.66        14.73        17.69         7.96 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E 
       15.85         6.35        15.16        14.24        14.14        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27K TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       16.04        13.45         9.44        13.48         4.80         0.76 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 
       13.08        12.53        14.50        18.51         7.33        34.42 
TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q 
       27.52        40.41        28.44        28.87        47.15        38.24 
TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       43.33        32.02        17.03        21.04        23.87        14.79 
TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A15P 
       17.29        18.21        17.42        19.40        20.58        19.56 
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-A1IF TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU 
       37.41        32.78        28.44        22.65         3.88        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG 
       54.18        39.62        24.59        40.47        28.90        18.87 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E9-A1N4 TCGA-E9-A1NC TCGA-E9-A1ND 
       16.93         5.52        15.72        19.20        39.55        12.59 
TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1RD TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 
       21.57        14.30         0.66        35.64         0.79        12.53 
TCGA-E9-A22A TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A24A 
       39.09        23.51        24.10        17.06         0.85        12.56 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UO 
        0.76        26.07        18.41         0.62        15.72         0.23 
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-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 
       25.94        22.82        29.95        39.78        52.96        29.82 
TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A3E8 
       30.08         7.86        13.94        10.52        34.55        21.27 
TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH 
       10.59       109.87        59.57       194.27        53.13        42.28 
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 
       32.28        53.95        57.63        13.55        18.12        11.57 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        6.67         4.60         0.66         3.58         6.90         5.56 
TCGA-LL-A5YO TCGA-LL-A8F5 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        3.19         6.21         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O 
        9.80        14.76        54.51        33.90        31.07         7.23 

  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                          0.03                           0.03 
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                        211.56                         234.28 
  AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE 
                        21.650                         21.385 
[1] "0.0 - 211.6 (21.6)" "0.0 - 234.3 (21.4)"
[1] "hr=" "1.1"
D28V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 28(20Q13.2) MUTATED        37       32        3        4       176
  AMP PEAK 28(20Q13.2) WILD-TYPE      43       45        6        5       159
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 28(20Q13.2) MUTATED         117         1         85         14
  AMP PEAK 28(20Q13.2) WILD-TYPE       107         1         53         13
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  AMP PEAK 28(20Q13.2) MUTATED           24       10         1       5
  AMP PEAK 28(20Q13.2) WILD-TYPE         35        7         0      11
D28V3, multiclass
            clus
vv           AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  STAGE I                              37                             43
  STAGE IA                             32                             45
  STAGE IB                              3                              6
  STAGE II                              4                              5
  STAGE IIA                           176                            159
  STAGE IIB                           117                            107
  STAGE III                             1                              1
  STAGE IIIA                           85                             53
  STAGE IIIB                           14                             13
  STAGE IIIC                           24                             35
  STAGE IV                             10                              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 28(20Q13.2) MUTATED   114 320  54  20
  AMP PEAK 28(20Q13.2) WILD-TYPE 144 261  63  16
D28V4, multiclass
    clus
vv   AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  T1                          114                            144
  T2                          320                            261
  T3                           54                             63
  T4                           20                             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                              N0  N1  N2  N3
  AMP PEAK 28(20Q13.2) MUTATED   231 169  73  29
  AMP PEAK 28(20Q13.2) WILD-TYPE 237 161  38  41
D28V5, multiclass
    clus
vv   AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  N0                          231                            237
  N1                          169                            161
  N2                           73                             38
  N3                           29                             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 28(20Q13.2) MUTATED          0 443  10  57
  AMP PEAK 28(20Q13.2) WILD-TYPE        2 402   7  74
D28V6, multiclass
          clus
vv         AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                443                            402
  M1                                 10                              7
  MX                                 57                             74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V7, binary
                                cls
clus                               0   1
  AMP PEAK 28(20Q13.2) MUTATED   501   9
  AMP PEAK 28(20Q13.2) WILD-TYPE 483   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 28(20Q13.2) MUTATED    501    9
  AMP PEAK 28(20Q13.2) WILD-TYPE  483    2
        clus
vv       AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  FEMALE                          501                            483
  MALE                              9                              2
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  AMP PEAK 28(20Q13.2) MUTATED                            1
  AMP PEAK 28(20Q13.2) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  AMP PEAK 28(20Q13.2) MUTATED                             432
  AMP PEAK 28(20Q13.2) WILD-TYPE                           303
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  AMP PEAK 28(20Q13.2) MUTATED                               45
  AMP PEAK 28(20Q13.2) WILD-TYPE                            121
                                vv
clus                             MEDULLARY CARCINOMA
  AMP PEAK 28(20Q13.2) MUTATED                     1
  AMP PEAK 28(20Q13.2) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  AMP PEAK 28(20Q13.2) MUTATED                                 11
  AMP PEAK 28(20Q13.2) WILD-TYPE                               18
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  AMP PEAK 28(20Q13.2) MUTATED                    1             19
  AMP PEAK 28(20Q13.2) WILD-TYPE                 13             25
D28V8, multiclass
                                  clus
vv                                 AMP PEAK 28(20Q13.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             432
  INFILTRATING LOBULAR CARCINOMA                             45
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             19
                                  clus
vv                                 AMP PEAK 28(20Q13.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               303
  INFILTRATING LOBULAR CARCINOMA                              121
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             18
  MUCINOUS CARCINOMA                                           13
  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"
D28V9, binary
                                cls
clus                               0   1
  AMP PEAK 28(20Q13.2) MUTATED   168 342
  AMP PEAK 28(20Q13.2) WILD-TYPE 114 371
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 28(20Q13.2) MUTATED    168  342
  AMP PEAK 28(20Q13.2) WILD-TYPE  114  371
     clus
vv    AMP PEAK 28(20Q13.2) MUTATED AMP PEAK 28(20Q13.2) WILD-TYPE
  NO                           168                            114
  YES                          342                            371
[1] 2 2
[1] FALSE
D28V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  AMP PEAK 28(20Q13.2) MUTATED                                  0    30
  AMP PEAK 28(20Q13.2) WILD-TYPE                                1    26
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  AMP PEAK 28(20Q13.2) MUTATED                          76   349
  AMP PEAK 28(20Q13.2) WILD-TYPE                        61   359
D28V11, multiclass
                                  clus
vv                                 AMP PEAK 28(20Q13.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      30
  BLACK OR AFRICAN AMERICAN                                  76
  WHITE                                                     349
                                  clus
vv                                 AMP PEAK 28(20Q13.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        26
  BLACK OR AFRICAN AMERICAN                                    61
  WHITE                                                       359
[1] 4 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(20Q13.2) MUTATED    16 408
  AMP PEAK 28(20Q13.2) WILD-TYPE  20 388
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 28(20Q13.2) MUTATED     16  408
  AMP PEAK 28(20Q13.2) WILD-TYPE   20  388
                        clus
vv                       AMP PEAK 28(20Q13.2) MUTATED
  HISPANIC OR LATINO                               16
  NOT HISPANIC OR LATINO                          408
                        clus
vv                       AMP PEAK 28(20Q13.2) WILD-TYPE
  HISPANIC OR LATINO                                 20
  NOT HISPANIC OR LATINO                            388
[1] 2 2
[1] FALSE

Clustering(29) Variable = DEL PEAK  1(1P36.13) MUTATION ANALYSIS
D29V1, survival
                                sevent
clus2                              0   1
  DEL PEAK  1(1P36.13) MUTATED   360  49
  DEL PEAK  1(1P36.13) WILD-TYPE 500  65
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                           409                            565 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                            49                             65 
$`DEL PEAK  1(1P36.13) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SH TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04P 
       14.37        47.24         7.96        39.32        28.01        18.02 
TCGA-A2-A04R TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CW 
       82.16        64.04        55.43        75.55        75.25        64.04 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0ET 
       56.81        21.14        25.22        89.36        80.28        35.05 
TCGA-A2-A0EY TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T4 TCGA-A2-A0T7 TCGA-A2-A0YE 
       24.16        27.12        17.52        20.52        20.75        18.21 
TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A1FW 
       15.42        21.90        21.67        14.50        18.61        17.36 
TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A3KC 
       36.79        19.20        16.31        17.19        18.15        20.88 
TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S3 
       33.93        29.98        31.99        38.37         7.30         3.42 
TCGA-A7-A0CD TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A2KD 
       38.30        35.67        12.72        31.36        24.26        22.32 
TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VW 
       14.93        21.17        17.92        14.73        12.10         9.37 
TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
       10.42         8.75        13.02        17.98        41.06        29.03 
TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F 
       26.01        17.03        53.98         9.01        33.01        18.97 
TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08B 
       18.97        17.03        10.98         8.98        15.06        23.08 
TCGA-A8-A08F TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       18.05        37.05        31.00        31.00         0.99        19.07 
TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B 
       33.99        16.01        12.00         9.99         9.99        12.00 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09N 
        1.02        13.02        31.00        33.07        15.02         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A9 
       25.02         8.98         0.99        19.04        21.04        13.02 
TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A3BB 
       17.03         2.37        38.53        38.20        26.04         0.99 
TCGA-AC-A3OD TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IW 
       14.83         1.55         0.07         1.12         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.43         1.74         0.33         0.33         0.23         0.33 
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-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK 
        6.51         0.33         0.33         6.44         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0XP 
        7.59         7.17         6.02         0.33         0.36         0.30 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03P 
        0.33         0.33         0.33        80.28        66.77        84.69 
TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JA 
       21.40        24.16        37.48        20.32        53.03        21.53 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A0JM 
       72.00        76.77        26.24        38.53        55.33        71.80 
TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A1KP TCGA-AO-A1KQ 
      102.58        96.10        90.58        48.36        82.62        61.87 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54O 
        0.53        17.79        26.93         5.65        15.62        21.86 
TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
       49.32        56.88        24.30        55.86        76.14        70.16 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A1AY 
       83.87        76.18        75.55        39.98        35.24        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T 
      109.58        73.02        66.05        57.40        62.07        53.26 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK 
       56.15        40.64        39.85        34.82        93.83        42.87 
TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I9 
        7.36        20.81        16.04        20.45        77.62        12.13 
TCGA-B6-A0IB TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE 
      129.57       146.50       112.37       110.14       140.88       211.56 
TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RP TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WV 
       68.45        81.17       102.77       100.70       131.21        79.63 
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-B6-A40B TCGA-BH-A0AV TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 
      139.17        82.88        38.79        40.83        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BP TCGA-BH-A0BT 
       48.36        51.68        37.22        25.71        48.69        45.57 
TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.94        41.75        44.02        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E9 
       23.44        38.01        13.91        14.30         9.63        46.19 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HU 
       24.49        30.35        10.78        23.08        41.00        12.89 
TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
       51.32        23.93         8.81        20.12        90.84        26.66 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       30.28        55.63        37.55         7.36        51.39        51.16 
TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FD 
       69.93        42.28        12.00        31.53        24.66        33.17 
TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L 
       74.73        45.63        83.31       130.16         0.99        11.93 
TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12W TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A138 
       12.66        11.77        12.66         0.69         0.62         3.75 
TCGA-C8-A1HE TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26W 
       12.33         0.16        12.03        10.42         2.30         0.23 
TCGA-C8-A26X TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M7 
        0.36         0.03         0.03        12.20         0.99         0.03 
TCGA-D8-A13Y TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB 
       11.90        13.97        21.14        14.17        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-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X8 TCGA-D8-A1XF TCGA-D8-A1XG 
       19.40        21.01        18.58        25.74        15.22        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR 
       21.83        14.50        19.92         7.96        16.41        15.85 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ 
       16.31         6.35        12.99        15.16        16.54        15.32 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A107 
        3.81        14.14        16.04        13.08        12.26        34.42 
TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14O 
       46.59        40.41        40.11        28.44        47.15        44.68 
TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A154 TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15F 
       34.26        17.03        19.43        14.79        23.34        21.63 
TCGA-E2-A15H TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1IH TCGA-E2-A1II 
       12.92        13.02        17.06        14.07        33.73        33.70 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A2P5 TCGA-E2-A2P6 
       27.42        39.62        24.59        18.87        16.93         5.52 
TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI 
       13.48        36.56        39.55        12.59        20.05         9.86 
TCGA-E9-A1QZ TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RE 
       11.90         2.10         1.38        21.21        40.24        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 
        6.58        21.27        34.59        34.13        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A295 
       39.09        17.06         0.69        27.22         0.95         0.72 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-EW-A1IW TCGA-EW-A1J1 
       17.75        26.07        15.72         0.23        12.20        18.90 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 
       28.77        25.94        22.82        29.85        40.41        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       23.11         7.86         6.15        13.94        10.52        14.43 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 
       19.96        55.00        25.91        22.09        17.49        10.16 
TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A3NW TCGA-GM-A3XL TCGA-GM-A4E0 TCGA-JL-A3YX 
       10.59         7.40       110.50        69.30        57.63        11.57 
TCGA-LL-A441 TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-LL-A8F5 
        2.99         5.56         4.70         3.25         3.22         6.21 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N 
       15.91         2.10         9.80        54.51        33.90        18.21 
TCGA-S3-A6ZG 
        6.81 

$`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       125.59        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        14.63        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        14.07        49.48        38.40 
TCGA-A2-A3XY TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       34.98         9.01         8.81         8.91        12.00         6.74 
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         9.96 
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 
       19.99        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 
       19.07        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 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A62Y TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FS TCGA-AN-A0FX 
        1.81         0.16         0.33         4.64         6.28         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XR 
        0.33         0.33         0.33         0.33        12.33         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-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J8 TCGA-AO-A0JB 
       59.05        29.13        32.78        17.65        22.36        50.70 
TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       50.86        21.37        62.04        99.25        93.70        94.59 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        64.04        57.30        41.62        28.37        14.73 
TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 
       70.39        24.79       130.09        13.22         2.56         9.99 
TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0U0 
       82.88         5.26        37.41        29.75        64.83        65.36 
TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       55.36        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        40.83        46.32 
TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       42.58        36.26        50.89        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
        0.85        53.36        54.18        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ 
       45.17       128.65        20.25        40.04        17.10        16.96 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA 
       20.38        54.74        10.59       143.38       149.59       220.90 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN 
       50.70        65.72       176.98        18.77       126.12        84.59 
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-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WZ 
      140.48        89.46       157.41        97.48       188.68       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-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
       85.35        54.28        49.94        55.00        24.53        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BC 
       25.55        28.50        46.95        56.94        56.98        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       18.21        24.85        21.70        44.05        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 
       27.19        53.69        53.95        11.67        49.05        48.13 
TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0DS 
       22.13        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-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H3 
       44.81        32.65        31.00        24.43        15.16        37.78 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       35.51        24.56        52.96        26.50        20.38         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX 
        2.50        13.61        36.85        27.25        50.79         5.59 
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-A18M TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       72.56        37.74        66.05        91.99       113.82        82.85 
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-A1FB TCGA-BH-A1FC TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
      120.62       114.15       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-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V 
       57.83        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-A12X 
       11.77        11.77         0.07        12.66        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A1HF TCGA-C8-A1HG 
        3.12         1.78         1.45         3.85        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
       11.34         3.25         0.30         0.43         8.28         9.67 
TCGA-C8-A275 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 
        0.03         0.23        20.88        13.25        20.58        14.17 
TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JK 
       13.48        19.20        17.49        12.03        14.01        20.12 
TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       20.09        20.38        12.20        13.32        14.70        17.79 
TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD 
       16.73        23.90        27.58        18.15         2.66        17.16 
TCGA-D8-A1XM TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G 
       17.69        12.66        15.52        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-A27R TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        10.09        12.53        14.50        18.51         7.33 
TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10F TCGA-E2-A14P TCGA-E2-A14Q 
       43.00        27.52        37.51        28.87        40.96        38.24 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X 
       38.60        33.17        33.30        43.33        32.02        31.96 
TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       28.60        25.41        27.12        23.24        21.04        23.87 
TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15I 
       25.05        22.82        17.29        20.71        18.21        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15T 
       19.40         9.04        20.58         7.73        19.56        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-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-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-A1LL TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 
       43.04        15.72         7.20        18.05        22.26        19.89 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1NG 
       19.20        36.82        12.00        13.12        35.77        21.57 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB 
       14.30         0.62         6.12         2.76        32.09        20.81 
TCGA-E9-A1RD TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
        0.66        35.64         0.79        22.75        12.89        23.51 
TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3Q9 
       24.10         0.85         1.94        12.56         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX 
        0.62         0.39         0.26         0.23        15.39        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OX 
        8.48        18.21        13.25        16.57        15.68        29.95 
TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       41.13        39.78        29.82        18.48        30.08        18.90 
TCGA-EW-A1PB TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-GI-A2C9 TCGA-GM-A2D9 
       19.99        34.55        52.73        21.27       109.87        59.57 
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-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-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       38.20        32.28        53.95        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         6.67         4.60         0.66         3.58         6.90 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z 
        3.65         3.19         2.63         3.88         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
        4.50         5.59         2.79        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       10.29        14.76        23.70        31.07         7.23         4.44 
TCGA-W8-A86G 
        5.29 

  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 
                         20.22                          23.47 
[1] "0.0 - 211.6 (20.2)" "0.0 - 234.3 (23.5)"
[1] "hr=" "1.3"
D29V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  1(1P36.13) MUTATED        24       22        1        3       133
  DEL PEAK  1(1P36.13) WILD-TYPE      56       55        8        6       202
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  1(1P36.13) MUTATED         102         1         67         18
  DEL PEAK  1(1P36.13) WILD-TYPE       122         1         71          9
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  1(1P36.13) MUTATED           29       10         0       6
  DEL PEAK  1(1P36.13) WILD-TYPE         30        7         1      10
D29V3, multiclass
            clus
vv           DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  STAGE I                              24                             56
  STAGE IA                             22                             55
  STAGE IB                              1                              8
  STAGE II                              3                              6
  STAGE IIA                           133                            202
  STAGE IIB                           102                            122
  STAGE III                             1                              1
  STAGE IIIA                           67                             71
  STAGE IIIB                           18                              9
  STAGE IIIC                           29                             30
  STAGE IV                             10                              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    77 270  44  24
  DEL PEAK  1(1P36.13) WILD-TYPE 181 311  73  12
D29V4, multiclass
    clus
vv   DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  T1                           77                            181
  T2                          270                            311
  T3                           44                             73
  T4                           24                             12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                                vv
clus                              N0  N1  N2  N3
  DEL PEAK  1(1P36.13) MUTATED   166 154  54  36
  DEL PEAK  1(1P36.13) WILD-TYPE 302 176  57  34
D29V5, multiclass
    clus
vv   DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  N0                          166                            302
  N1                          154                            176
  N2                           54                             57
  N3                           36                             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                             CM0 (I+)  M0  M1  MX
  DEL PEAK  1(1P36.13) MUTATED          0 356  10  50
  DEL PEAK  1(1P36.13) WILD-TYPE        2 489   7  81
D29V6, multiclass
          clus
vv         DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                356                            489
  M1                                 10                              7
  MX                                 50                             81
[1] 4 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
  DEL PEAK  1(1P36.13) MUTATED   408   8
  DEL PEAK  1(1P36.13) WILD-TYPE 576   3
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED    408    8
  DEL PEAK  1(1P36.13) WILD-TYPE  576    3
        clus
vv       DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  FEMALE                          408                            576
  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                             331
  DEL PEAK  1(1P36.13) WILD-TYPE                           404
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  1(1P36.13) MUTATED                               59
  DEL PEAK  1(1P36.13) WILD-TYPE                            107
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK  1(1P36.13) MUTATED                     1
  DEL PEAK  1(1P36.13) WILD-TYPE                   4
                                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                 12             29
D29V8, multiclass
                                  clus
vv                                 DEL PEAK  1(1P36.13) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             331
  INFILTRATING LOBULAR CARCINOMA                             59
  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                               404
  INFILTRATING LOBULAR CARCINOMA                              107
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             22
  MUCINOUS CARCINOMA                                           12
  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"
D29V9, binary
                                cls
clus                               0   1
  DEL PEAK  1(1P36.13) MUTATED   128 288
  DEL PEAK  1(1P36.13) WILD-TYPE 154 425
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED    128  288
  DEL PEAK  1(1P36.13) WILD-TYPE  154  425
     clus
vv    DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  NO                           128                            154
  YES                          288                            425
[1] 2 2
[1] FALSE
D29V10, 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                          59   285
  DEL PEAK  1(1P36.13) WILD-TYPE                        78   423
D29V11, multiclass
                                  clus
vv                                 DEL PEAK  1(1P36.13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      23
  BLACK OR AFRICAN AMERICAN                                  59
  WHITE                                                     285
                                  clus
vv                                 DEL PEAK  1(1P36.13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        33
  BLACK OR AFRICAN AMERICAN                                    78
  WHITE                                                       423
[1] 4 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
  DEL PEAK  1(1P36.13) MUTATED    16 324
  DEL PEAK  1(1P36.13) WILD-TYPE  20 472
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED     16  324
  DEL PEAK  1(1P36.13) WILD-TYPE   20  472
                        clus
vv                       DEL PEAK  1(1P36.13) MUTATED
  HISPANIC OR LATINO                               16
  NOT HISPANIC OR LATINO                          324
                        clus
vv                       DEL PEAK  1(1P36.13) WILD-TYPE
  HISPANIC OR LATINO                                 20
  NOT HISPANIC OR LATINO                            472
[1] 2 2
[1] FALSE

Clustering(30) Variable = DEL PEAK  2(1P21.2) MUTATION ANALYSIS
D30V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  2(1P21.2) MUTATED   274  46
  DEL PEAK  2(1P21.2) WILD-TYPE 586  68
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                          320                           654 
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                           46                            68 
$`DEL PEAK  2(1P21.2) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SF TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A2-A04R TCGA-A2-A04Y 
       14.37        48.10        31.79        39.32        82.16        36.13 
TCGA-A2-A0CO TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D4 
      112.08        75.55        75.25        64.04        56.81        25.22 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ET TCGA-A2-A0EY TCGA-A2-A0SV 
       89.36        80.28        79.76        35.05        24.16        27.12 
TCGA-A2-A0T0 TCGA-A2-A0T4 TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YJ 
       17.52        20.52        18.21        21.90        21.67        18.61 
TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A25C TCGA-A2-A25E TCGA-A2-A3KC 
       23.77        17.36        36.79        17.19        91.92        20.88 
TCGA-A2-A3XU TCGA-A2-A3XZ TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A13E 
       29.98        31.99         6.74         3.42        30.61        10.72 
TCGA-A7-A26E TCGA-A7-A2KD TCGA-A7-A3J1 TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A6VY 
       31.36        22.32        11.28        17.92        14.73         8.75 
TCGA-A8-A06O TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A07B 
       13.02        41.06        29.03        26.01        17.03        33.01 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08B 
       18.97        18.97        14.01         8.98        15.06        23.08 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R 
       19.96        12.00        37.05         9.99        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B 
       19.07        33.99        16.01         9.99         9.99        12.00 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09R 
        1.02        13.02        31.00        33.07         1.02         8.98 
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-A0AB TCGA-AC-A23E TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A3BB TCGA-AC-A3OD 
       17.03         2.37        38.20        26.04         0.99        14.83 
TCGA-AC-A62V TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.07         1.74         0.33         0.33         0.23         0.33 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AT 
        2.96         1.78         8.02         7.36         0.16         0.33 
TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FT TCGA-AN-A0FW 
        6.44         7.96         7.00         7.17         6.02         0.36 
TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N 
        0.30         0.33         0.33         5.59        80.28        66.77 
TCGA-AO-A03P TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JI 
       84.69        21.40        20.32        21.53        72.00        38.53 
TCGA-AO-A124 TCGA-AO-A12A TCGA-AO-A12F TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR 
      102.58        90.58        48.36        82.62        61.87        70.39 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
        0.53        24.79         5.65         9.99        82.88        49.32 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AP TCGA-AR-A1AU 
       56.88        29.75        83.87        76.18        39.98        46.32 
TCGA-AR-A1AW TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24W TCGA-AR-A24Z 
       35.24        57.40        62.07        53.26        50.96        51.75 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LK 
       56.15        45.17        40.64        39.85        34.82        42.87 
TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A5QN TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IG 
        7.36        20.81        16.04        12.13       129.57       146.50 
TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RP 
      112.37       110.14       211.56        81.17       162.05       102.77 
TCGA-B6-A0RS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0X7 TCGA-B6-A1KF 
      100.70        79.63        17.98       113.79        58.88       101.52 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A40B TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B5 
       73.51       139.17        82.88        28.50        40.83        48.36 
TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL 
       56.94        37.22        18.21        25.71        21.70        44.05 
TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DX 
       49.94        41.75        44.02        42.90        45.83        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E2 TCGA-BH-A0E9 TCGA-BH-A0EB TCGA-BH-A0GZ TCGA-BH-A0H7 
       16.27        14.30        46.19        24.49        10.78        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18K 
       41.00        12.89        51.32        23.93         8.81        90.84 
TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       26.66        30.28         7.36        51.39        51.16        69.93 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FC 
       12.00        55.69        17.69        97.48        24.66       114.15 
TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A203 TCGA-C8-A12U TCGA-C8-A12W 
       74.73        45.63        72.07        38.60        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26X 
       12.66         1.78         0.62        12.03        10.42         0.36 
TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Z 
        0.43         8.28         0.03        12.20         0.03        20.88 
TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF 
       13.97        21.14        14.17        15.78        18.90        12.03 
TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JP TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM 
       18.97        20.09        21.01        15.22        14.73        17.69 
TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY 
       16.41        15.85        16.31        12.99        15.16        16.54 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27T TCGA-D8-A27W 
        3.81        14.14        13.45        14.43        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-A14R TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A154 
       38.60        34.26        28.60        17.03        27.12        19.43 
TCGA-E2-A15A TCGA-E2-A15P TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1IH TCGA-E2-A1IJ 
       23.34        19.56        14.07        60.53        33.73        28.44 
TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A2P5 TCGA-E2-A56Z 
       39.62        24.59        18.87       106.75        16.93         7.20 
TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 
       13.48        13.12        36.56         9.86         0.62         2.10 
TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A226 
        1.38        21.21        20.81        40.24        21.27        34.13 
TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A249 
       39.09        12.89        23.51         0.69        27.22         0.95 
TCGA-E9-A295 TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1IW 
        0.72        26.07        15.72         0.23         0.39        12.20 
TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1PC 
       28.77        29.85        40.41        52.96        23.11         6.15 
TCGA-EW-A1PE TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 
       10.52        19.96        55.00        25.91        22.09        17.49 
TCGA-GI-A2C8 TCGA-GM-A3NW TCGA-GM-A3NY TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A5YL 
        7.40       110.50        38.20        69.30        11.57         5.56 
TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RZ TCGA-OL-A66K 
        4.70         3.25         6.21        46.55        10.29        33.90 
TCGA-OL-A66N TCGA-S3-A6ZG 
       18.21         6.81 

$`DEL PEAK  2(1P21.2) 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-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
        7.96        28.01        19.20        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X 
       41.95        73.84        22.06        63.12        64.04        55.43 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      125.59        64.57        24.79        92.48        88.60       107.93 
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-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV 
      101.72       107.61        74.40        37.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX 
       29.75        24.72        99.19        54.64        44.88        50.43 
TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0T6 
       44.28        17.13         8.38        18.71        17.46        18.90 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YK 
       20.75        32.55        25.28        15.42        14.50        19.33 
TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       14.63        31.73        23.47        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-A25F TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        39.65        33.93        83.01        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       38.40        34.98        38.37         7.30         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
        8.91        12.00        38.30        35.31        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G 
       37.45        35.67        33.11        31.73        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J 
       29.56        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-A4SE TCGA-A7-A5ZV TCGA-A7-A5ZW 
       14.93        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-A076 TCGA-A8-A079 TCGA-A8-A07E 
       17.98        31.00         1.02        53.98         9.01        19.99 
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         9.96 
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-A08O TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 
       19.99        18.05        31.00        93.04        40.01        19.07 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q 
       17.95        41.98        12.00        29.98        15.02        25.02 
TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C 
       19.04        15.02         0.99         0.99        38.04         0.95 
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-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       36.99        38.79        50.70         1.02         0.92         2.27 
TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.69         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.32         1.55         1.12         1.81         1.18         0.69 
TCGA-AC-A6IX TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS 
        0.43         0.62         1.71         6.51         0.33         0.33 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY 
        4.64         7.59         6.28         0.33         0.33         0.33 
TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 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-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
        5.33        47.84        81.63        68.75        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       29.13        32.78        17.65        24.16        37.48        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-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       62.04        55.33        71.80        99.25        93.70        94.59 
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-A1KT TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       14.73        17.79        26.93       130.09        15.62        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TX 
        2.56        21.86         5.26        37.41        24.30        64.83 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH 
       55.86        76.14        65.36        70.16        55.36        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-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AX 
       43.56        43.07        17.23        40.83        42.58        36.26 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       20.22       109.58        50.89        73.02        65.46        68.19 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X 
       65.69         0.85        66.05        53.36        54.18        48.16 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ 
       93.83       128.65        20.25        40.04        17.10        16.96 
TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 
       20.38        54.74        20.45        10.59        77.62       143.38 
TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IJ TCGA-B6-A0IK 
      149.59       220.90        50.70        65.72       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RH 
      126.12        84.59       110.93       140.88        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-A402 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW 
       54.28        49.94        55.00        24.53        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0B9 
       25.55        46.95        39.55        39.16        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       32.02        24.85        61.68        35.67        48.69        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 
       53.69        53.95        45.57        11.67        49.05        48.13 
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-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE 
        4.41        15.68         9.63        44.81        32.65        31.00 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.43        30.35        15.16        37.78        35.51        24.56 
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-A0HQ TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        27.25        50.79         5.59        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18M 
       44.81        23.05         2.01         7.23        20.12        72.56 
TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ES 
       37.74        55.63        37.55        66.05        91.99       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       82.85        42.28        49.58        25.81        31.53        89.16 
TCGA-BH-A1FB TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
      120.62        33.17       122.89        36.92        63.35        55.00 
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-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-A130 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 
        0.07        12.66         3.12         1.45         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-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A273 TCGA-C8-A275 
        2.30         3.25         0.30         0.23         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-A27M TCGA-D8-A27N TCGA-D8-A27P 
       13.05         9.44        16.41        13.48         4.80         0.76 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
       10.09        12.53        14.50        18.51         7.33        43.00 
TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P 
       27.52        40.41        37.51        28.87        47.15        40.96 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A150 
       33.17        33.30        43.33        32.02        31.96        25.41 
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-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-A15M TCGA-E2-A15O TCGA-E2-A15R 
       19.40         9.04        20.58         7.73        13.02        17.06 
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-A1II 
       16.47        17.10        38.30        37.41        32.78        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-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LI TCGA-E2-A1LK 
       27.42        19.66        40.47        28.90       102.61         8.75 
TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 
       43.04         5.52        15.72        18.05        22.26        19.89 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       19.20        36.82        12.00        39.55        12.59        35.77 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R6 
       20.05        21.57        11.90        14.30         6.12         2.76 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI 
       32.09         0.66        34.65         6.58        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-A248 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
        0.85         1.94        12.56        17.75         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY 
        0.62         0.26         0.23        15.39        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-A1P4 TCGA-EW-A1P6 
       22.82        29.95        41.13        39.78        29.82        18.48 
TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PF 
       30.08         7.86        18.90        19.99        13.94        14.43 
TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 
       34.55        52.73        21.27        10.16        10.59       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-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-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
       53.36        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       11.84         8.28         6.67         4.60         0.66         2.99 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR 
        3.58         6.90         3.65         3.19         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        15.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H 
       24.10        26.20        16.87        14.10         9.80        14.76 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       23.70        54.51        31.07         7.23         4.44         5.29 

  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE 
                       21.335                        21.520 
[1] "0.0 - 211.6 (21.3)" "0.0 - 234.3 (21.5)"
[1] "hr=" "1.5"
D30V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  2(1P21.2) MUTATED        20       15        1        3       109
  DEL PEAK  2(1P21.2) WILD-TYPE      60       62        8        6       226
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  2(1P21.2) MUTATED          70         1         57         15
  DEL PEAK  2(1P21.2) WILD-TYPE       154         1         81         12
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  2(1P21.2) MUTATED           22        7         0       7
  DEL PEAK  2(1P21.2) WILD-TYPE         37       10         1       9
D30V3, multiclass
            clus
vv           DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  STAGE I                             20                            60
  STAGE IA                            15                            62
  STAGE IB                             1                             8
  STAGE II                             3                             6
  STAGE IIA                          109                           226
  STAGE IIB                           70                           154
  STAGE III                            1                             1
  STAGE IIIA                          57                            81
  STAGE IIIB                          15                            12
  STAGE IIIC                          22                            37
  STAGE IV                             7                            10
  STAGE TIS                            0                             1
  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  2(1P21.2) MUTATED    60 211  36  20
  DEL PEAK  2(1P21.2) WILD-TYPE 198 370  81  16
D30V4, multiclass
    clus
vv   DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  T1                          60                           198
  T2                         211                           370
  T3                          36                            81
  T4                          20                            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                             N0  N1  N2  N3
  DEL PEAK  2(1P21.2) MUTATED   135 111  51  26
  DEL PEAK  2(1P21.2) WILD-TYPE 333 219  60  44
D30V5, multiclass
    clus
vv   DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  N0                         135                           333
  N1                         111                           219
  N2                          51                            60
  N3                          26                            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(1P21.2) MUTATED          1 283   7  37
  DEL PEAK  2(1P21.2) WILD-TYPE        1 562  10  94
D30V6, multiclass
          clus
vv         DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               283                           562
  M1                                 7                            10
  MX                                37                            94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V7, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P21.2) MUTATED   324   4
  DEL PEAK  2(1P21.2) WILD-TYPE 660   7
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P21.2) MUTATED    324    4
  DEL PEAK  2(1P21.2) WILD-TYPE  660    7
        clus
vv       DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  FEMALE                         324                           660
  MALE                             4                             7
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  2(1P21.2) MUTATED                            0
  DEL PEAK  2(1P21.2) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  2(1P21.2) MUTATED                             258
  DEL PEAK  2(1P21.2) WILD-TYPE                           477
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  2(1P21.2) MUTATED                               50
  DEL PEAK  2(1P21.2) WILD-TYPE                            116
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  2(1P21.2) MUTATED                     1
  DEL PEAK  2(1P21.2) WILD-TYPE                   4
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  2(1P21.2) MUTATED                                  7
  DEL PEAK  2(1P21.2) WILD-TYPE                               22
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  2(1P21.2) MUTATED                    3              9
  DEL PEAK  2(1P21.2) WILD-TYPE                 11             35
D30V8, multiclass
                                  clus
vv                                 DEL PEAK  2(1P21.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            258
  INFILTRATING LOBULAR CARCINOMA                            50
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           7
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK  2(1P21.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              477
  INFILTRATING LOBULAR CARCINOMA                             116
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            22
  MUCINOUS CARCINOMA                                          11
  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"
D30V9, binary
                               cls
clus                              0   1
  DEL PEAK  2(1P21.2) MUTATED    96 232
  DEL PEAK  2(1P21.2) WILD-TYPE 186 481
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P21.2) MUTATED     96  232
  DEL PEAK  2(1P21.2) WILD-TYPE  186  481
     clus
vv    DEL PEAK  2(1P21.2) MUTATED DEL PEAK  2(1P21.2) WILD-TYPE
  NO                           96                           186
  YES                         232                           481
[1] 2 2
[1] FALSE
D30V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  2(1P21.2) MUTATED                                  0    18
  DEL PEAK  2(1P21.2) WILD-TYPE                                1    38
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  2(1P21.2) MUTATED                          39   227
  DEL PEAK  2(1P21.2) WILD-TYPE                        98   481
D30V11, multiclass
                                  clus
vv                                 DEL PEAK  2(1P21.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     18
  BLACK OR AFRICAN AMERICAN                                 39
  WHITE                                                    227
                                  clus
vv                                 DEL PEAK  2(1P21.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       38
  BLACK OR AFRICAN AMERICAN                                   98
  WHITE                                                      481
[1] 4 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  2(1P21.2) MUTATED     9 253
  DEL PEAK  2(1P21.2) WILD-TYPE  27 543
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P21.2) MUTATED      9  253
  DEL PEAK  2(1P21.2) WILD-TYPE   27  543
                        clus
vv                       DEL PEAK  2(1P21.2) MUTATED
  HISPANIC OR LATINO                               9
  NOT HISPANIC OR LATINO                         253
                        clus
vv                       DEL PEAK  2(1P21.2) WILD-TYPE
  HISPANIC OR LATINO                                27
  NOT HISPANIC OR LATINO                           543
[1] 2 2
[1] FALSE

Clustering(31) Variable = DEL PEAK  3(2P25.1) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  3(2P25.1) MUTATED   166  17
  DEL PEAK  3(2P25.1) WILD-TYPE 694  97
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                          183                           791 
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                           17                            97 
$`DEL PEAK  3(2P25.1) MUTATED`
TCGA-A2-A04U TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CV TCGA-A2-A0EO TCGA-A2-A0ET 
       22.06        75.55        75.25        63.45        80.28        35.05 
TCGA-A2-A0EU TCGA-A2-A0SV TCGA-A2-A0YH TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A25B 
       34.29        27.12        21.67        17.36        36.79        16.31 
TCGA-A2-A3XT TCGA-A2-A4RX TCGA-A7-A13F TCGA-A7-A26G TCGA-A7-A2KD TCGA-A7-A3IZ 
       83.01         9.01        12.72        23.74        22.32        10.59 
TCGA-A7-A3J1 TCGA-A7-A4SA TCGA-A7-A4SF TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY 
       11.28        14.93        17.92        10.29        10.42         8.75 
TCGA-A8-A06O TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A07B TCGA-A8-A07F 
       13.02        26.01         1.02        17.03        33.01        18.97 
TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08L 
       10.98         8.98         9.99        23.08        18.05         9.99 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A09B TCGA-A8-A09C 
       31.00        19.07        40.01        16.01        12.00         1.02 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-A8-A0A9 
        1.02        25.02        19.04        19.04        21.04        13.02 
TCGA-A8-A0AB TCGA-AC-A23E TCGA-AC-A2BM TCGA-AC-A2FF TCGA-AC-A2FM TCGA-AN-A03Y 
       17.03         2.37        38.20        55.43        26.04         0.33 
TCGA-AN-A0AS TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FZ TCGA-AN-A0XN 
        0.33         7.00         7.59         6.02         0.33         0.33 
TCGA-AN-A0XP TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03P 
        0.30         0.33         0.33        80.28        47.84        84.69 
TCGA-AO-A03R TCGA-AO-A0J4 TCGA-AO-A0JB TCGA-AO-A12A TCGA-AO-A1KQ TCGA-AO-A1KS 
       68.75        17.65        50.70        90.58        61.87         0.53 
TCGA-AO-A1KT TCGA-AQ-A54O TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 
       17.79        21.86        76.14        70.16        83.87        55.36 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AS TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       62.56        43.73        40.83        20.22       109.58        50.89 
TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A2LK 
       57.40        54.18        50.96        45.17        34.82        42.87 
TCGA-AR-A5QQ TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KI 
       10.59       112.37       176.98       186.48        43.59        73.51 
TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0B2 TCGA-BH-A0BA TCGA-BH-A0BP TCGA-BH-A0BT 
       49.94        38.79        40.83        37.22        48.69        45.57 
TCGA-BH-A0BV TCGA-BH-A0E2 TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0H9 
       49.94        14.30        24.49        31.00        23.08        41.00 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18Q 
       12.89        51.32        50.79         7.23        90.84        55.63 
TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1FL TCGA-BH-A1FN 
       51.16       113.82        42.28        17.69        55.00        72.07 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A138 TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A3M7 
       12.66        12.66         3.75        11.34         0.16         0.03 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1JD TCGA-D8-A1JI TCGA-D8-A1JP TCGA-D8-A1X6 
       13.48        21.14        18.15        18.97        21.01        17.79 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XY 
       27.58        18.15        21.83        15.85        15.16        16.54 
TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27M TCGA-D8-A27T TCGA-E2-A14O TCGA-E2-A14W 
        3.81        14.14        13.48        13.08        44.68        32.02 
TCGA-E2-A152 TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A1BD TCGA-E2-A1IN 
       27.12        18.21        12.92         7.73        17.10        22.19 
TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NC 
       16.93         7.20        19.20        13.48        13.12        39.55 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RE TCGA-E9-A1RG 
       20.05         9.86         2.76        32.09        34.65        21.27 
TCGA-E9-A1RI TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A249 TCGA-E9-A3HO TCGA-E9-A3X8 
       35.64        12.89         0.69         0.95        26.07        15.72 
TCGA-E9-A54Y TCGA-EW-A1J1 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P4 
        0.23        18.90        28.77        22.82        29.85        29.82 
TCGA-EW-A1P5 TCGA-EW-A1PE TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C8 
       23.11        10.52        22.09        17.49        10.16         7.40 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ 
        2.63         4.14         5.59 

$`DEL PEAK  3(2P25.1) 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-A0SN TCGA-A1-A0SO 
       20.88        13.68        31.79         7.96        39.32        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-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       73.84        63.12        64.04        55.43        36.13       125.59 
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-A0CU TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 
        5.19        64.04        56.81        21.14        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ 
       28.77        25.22       101.72        89.36       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       74.40        37.05        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        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-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-A0YM TCGA-A2-A0YT 
       14.50        18.61        19.33        14.63        31.73        23.77 
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-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
       52.47       107.70        17.19        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       20.88        39.65        33.93        29.98        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY 
       38.40        34.98        31.99        38.37         7.30         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE 
        8.91        12.00         6.74         3.42        38.30        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB 
       34.29        35.47        30.61        37.45        35.67        33.11 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       31.73        10.72        23.61        29.56        31.36        24.26 
TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF 
       23.80        21.73        20.61        11.34        10.29        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A56D 
       14.70        11.97        13.74        14.50        21.17        14.73 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A8-A06P TCGA-A8-A06Q 
       12.10        10.72        11.05         9.37        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A076 TCGA-A8-A079 
       17.98        41.06        29.03        31.00        53.98         9.01 
TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O 
       19.99        18.97        14.01        12.00        17.03         9.99 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 
        7.99         9.96        28.04        18.05        15.06        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
       13.02         0.99        19.99        19.96        12.00        37.05 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A093 
       31.00         0.99        93.04        33.99        19.07        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09E 
       41.98        12.00         9.99         9.99        13.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W 
       33.07        29.98        15.02         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-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         9.40         1.12         1.81         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y 
        1.55         1.32         1.55         0.07         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 
        1.18         0.69         0.43         1.74         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.33         0.62         2.96         1.78         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD 
        7.36         6.51         0.16         0.33         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FW 
        4.64         7.96         7.17         6.28         0.33         0.36 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XS 
        0.33         0.33         0.33        12.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03T TCGA-AO-A03U 
        5.33         5.59        66.77        81.63        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-A0JC TCGA-AO-A0JD TCGA-AO-A0JE 
       22.36        53.03        21.53        50.86        72.00        76.77 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM 
       21.37        26.24        38.53        62.04        55.33        71.80 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B 
      102.58        99.25        93.70        94.59        96.10        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-A04L TCGA-AQ-A0Y5 
       82.62        70.39        24.79        26.93       130.09         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
       15.62        13.22         2.56         9.99        82.88        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
        5.26        37.41        56.88        29.75        24.30        64.83 
TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       55.86        65.36        76.18        75.55        61.84        52.77 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR 
       51.25        48.82        43.56        39.98        43.07        17.23 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M 
       46.32        42.58        35.24        36.26        73.02        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T 
       68.19        65.69         0.85        66.05        62.07        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 
       53.36        48.16        51.75        56.15        40.64        39.85 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
       93.83       128.65        20.25         7.36        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        20.38        54.74        16.04        20.45 
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-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-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-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-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
      188.68        79.63        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-A1KN 
      129.70        28.27        68.94        58.88       101.52       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        82.88        55.00        24.53 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 
       20.45        25.55        28.50        46.95        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.94        56.98        51.68        32.02        18.21 
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-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 
       27.19        53.69        53.95        11.67        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-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-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
        4.41        15.68         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-A0HA TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       24.56        52.96        26.50        20.38         5.85         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 
       13.61        36.85        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-A18J 
       42.35        44.81        23.05         8.81         2.01        20.12 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S 
       26.66        72.56        37.74        30.28        37.55        66.05 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EV 
        7.36        51.39        69.93        91.99        82.85        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 
       55.69        49.58        25.81        31.53        89.16        97.48 
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-A1FH TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       36.92        63.35        45.63       144.59        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        0.72        38.60        83.31        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-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-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL 
        3.85        12.33        10.92        11.34        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-A278 TCGA-C8-A27A 
        8.28         9.67         0.03         0.03         0.03        12.20 
TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 
        0.99         0.23        11.90        20.88        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.97        14.17        19.20        14.17        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       18.71        15.78        18.90        12.03        12.03        14.01 
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-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       13.32        14.70        18.58        16.73        25.74        23.90 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XL 
        2.66        17.16        15.22        14.73        14.50        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU 
       17.69         7.96        16.41        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-A27N 
       13.45        13.05        14.43         9.44        16.41         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-A14N TCGA-E2-A14P 
       37.51        40.11        28.44        28.87        47.15        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V 
       38.24        38.60        33.17        33.30        43.33        34.26 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 
       31.96        28.60        17.03        25.41        23.24        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-A15E TCGA-E2-A15F TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       17.29        20.71        21.63        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T 
       20.58        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-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1II 
       16.47        38.30        37.41        32.78        33.73        33.70 
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-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P6 
       18.87       106.75       102.61         8.75        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N5 TCGA-E9-A1N8 
       15.72        18.05        22.26        19.89        36.82        12.00 
TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 
       36.56        12.59        35.77        21.57        11.90        14.30 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB 
        0.62         2.10         6.12         1.38        21.21        20.81 
TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 
       40.24         0.66         6.58        34.59        34.13         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-A247 TCGA-E9-A248 TCGA-E9-A24A TCGA-E9-A295 
       17.06         0.85        27.22         1.94        12.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL 
       17.75         0.76        18.41         0.62         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1OV TCGA-EW-A1OX TCGA-EW-A1OZ 
       13.25        16.57        15.68        25.94        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-A1PF TCGA-EW-A1PG 
       18.90        19.99         6.15        13.94        14.43        34.55 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A424 
       19.96        55.00        52.73        25.91        21.27        10.59 
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-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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
        6.90         5.56         4.70         3.65         3.19         3.25 
TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 
        3.88         4.50         4.50         3.22         6.21        15.91 
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         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        24.10        26.20        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         7.23         4.44         6.81         5.29 

  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                       186.48                        234.28 
  DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE 
                        20.22                         21.70 
[1] "0.0 - 186.5 (20.2)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1"  
D31V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  3(2P25.1) MUTATED        13       14        0        2        61
  DEL PEAK  3(2P25.1) WILD-TYPE      67       63        9        7       274
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  3(2P25.1) MUTATED          37         1         37          8
  DEL PEAK  3(2P25.1) WILD-TYPE       187         1        101         19
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  3(2P25.1) MUTATED            9        5         0       2
  DEL PEAK  3(2P25.1) WILD-TYPE         50       12         1      14
D31V3, multiclass
            clus
vv           DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  STAGE I                             13                            67
  STAGE IA                            14                            63
  STAGE IB                             0                             9
  STAGE II                             2                             7
  STAGE IIA                           61                           274
  STAGE IIB                           37                           187
  STAGE III                            1                             1
  STAGE IIIA                          37                           101
  STAGE IIIB                           8                            19
  STAGE IIIC                           9                            50
  STAGE IV                             5                            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
  DEL PEAK  3(2P25.1) MUTATED    41 120  19   9
  DEL PEAK  3(2P25.1) WILD-TYPE 217 461  98  27
D31V4, multiclass
    clus
vv   DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  T1                          41                           217
  T2                         120                           461
  T3                          19                            98
  T4                           9                            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  3(2P25.1) MUTATED    86  57  33  12
  DEL PEAK  3(2P25.1) WILD-TYPE 382 273  78  58
D31V5, multiclass
    clus
vv   DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  N0                          86                           382
  N1                          57                           273
  N2                          33                            78
  N3                          12                            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  3(2P25.1) MUTATED          1 161   5  22
  DEL PEAK  3(2P25.1) WILD-TYPE        1 684  12 109
D31V6, multiclass
          clus
vv         DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               161                           684
  M1                                 5                            12
  MX                                22                           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"
D31V7, binary
                               cls
clus                              0   1
  DEL PEAK  3(2P25.1) MUTATED   186   3
  DEL PEAK  3(2P25.1) WILD-TYPE 798   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2P25.1) MUTATED    186    3
  DEL PEAK  3(2P25.1) WILD-TYPE  798    8
        clus
vv       DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  FEMALE                         186                           798
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  3(2P25.1) MUTATED                            0
  DEL PEAK  3(2P25.1) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  3(2P25.1) MUTATED                             149
  DEL PEAK  3(2P25.1) WILD-TYPE                           586
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  3(2P25.1) MUTATED                               21
  DEL PEAK  3(2P25.1) WILD-TYPE                            145
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  3(2P25.1) MUTATED                     1
  DEL PEAK  3(2P25.1) WILD-TYPE                   4
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  3(2P25.1) MUTATED                                 10
  DEL PEAK  3(2P25.1) WILD-TYPE                               19
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  3(2P25.1) MUTATED                    2              6
  DEL PEAK  3(2P25.1) WILD-TYPE                 12             38
D31V8, multiclass
                                  clus
vv                                 DEL PEAK  3(2P25.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            149
  INFILTRATING LOBULAR CARCINOMA                            21
  MEDULLARY CARCINOMA                                        1
  MIXED HISTOLOGY (PLEASE SPECIFY)                          10
  MUCINOUS CARCINOMA                                         2
  OTHER  SPECIFY                                             6
                                  clus
vv                                 DEL PEAK  3(2P25.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              586
  INFILTRATING LOBULAR CARCINOMA                             145
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            19
  MUCINOUS CARCINOMA                                          12
  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"
D31V9, binary
                               cls
clus                              0   1
  DEL PEAK  3(2P25.1) MUTATED    61 128
  DEL PEAK  3(2P25.1) WILD-TYPE 221 585
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2P25.1) MUTATED     61  128
  DEL PEAK  3(2P25.1) WILD-TYPE  221  585
     clus
vv    DEL PEAK  3(2P25.1) MUTATED DEL PEAK  3(2P25.1) WILD-TYPE
  NO                           61                           221
  YES                         128                           585
[1] 2 2
[1] FALSE
D31V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  3(2P25.1) MUTATED                                  0    12
  DEL PEAK  3(2P25.1) WILD-TYPE                                1    44
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  3(2P25.1) MUTATED                          24   126
  DEL PEAK  3(2P25.1) WILD-TYPE                       113   582
D31V11, multiclass
                                  clus
vv                                 DEL PEAK  3(2P25.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     12
  BLACK OR AFRICAN AMERICAN                                 24
  WHITE                                                    126
                                  clus
vv                                 DEL PEAK  3(2P25.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       44
  BLACK OR AFRICAN AMERICAN                                  113
  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"
D31V12, binary
                               cls
clus                              0   1
  DEL PEAK  3(2P25.1) MUTATED     8 139
  DEL PEAK  3(2P25.1) WILD-TYPE  28 657
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2P25.1) MUTATED      8  139
  DEL PEAK  3(2P25.1) WILD-TYPE   28  657
                        clus
vv                       DEL PEAK  3(2P25.1) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         139
                        clus
vv                       DEL PEAK  3(2P25.1) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           657
[1] 2 2
[1] FALSE

Clustering(32) Variable = DEL PEAK  4(2Q37.3) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  4(2Q37.3) MUTATED   259  33
  DEL PEAK  4(2Q37.3) WILD-TYPE 601  81
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                          292                           682 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                           33                            81 
$`DEL PEAK  4(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         9.01        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 
       41.06        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 
       33.01        18.97        17.03        10.98         9.96         9.99 
TCGA-A8-A08B TCGA-A8-A08I TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 
       23.08        12.00         0.99        19.07        33.99        16.01 
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        31.00        33.07 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 
       15.02         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         1.81         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        38.53        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        21.86        82.88        37.41        29.75        55.86 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AS 
       70.16        76.18        55.36        62.56        43.73        40.83 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24W 
       20.22       109.58        50.89        57.40        54.18        50.96 
TCGA-AR-A251 TCGA-AR-A2LK TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0RE TCGA-B6-A0RH 
       45.17        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        22.26        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-EW-A1J1 
       26.07         0.62        15.72         0.23         0.26        18.90 
TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC 
       28.77        22.82        29.85        23.11         7.86         6.15 
TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW 
       10.52        14.43        19.96        55.00        25.91        22.09 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH 
       17.49        10.16       109.87        43.04        42.71        42.28 
TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 
       57.63        11.57         3.88         3.22         6.21        46.55 
TCGA-OL-A5D8 TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I 
        7.53        10.29         9.80        23.70 

$`DEL PEAK  4(2Q37.3) 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-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       13.68         7.96        19.20        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CK 
       41.95        82.16        63.12        64.04        55.43       125.59 
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-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-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW 
       89.36       107.61        74.40        37.05        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY 
       24.72        24.16        99.19        54.64        50.43        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       17.52        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-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV 
       21.90        14.50        19.33        14.63        31.73        23.47 
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-A3XX TCGA-A2-A3XY 
       39.65        29.98        14.07        49.48        38.40        34.98 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       38.37         7.30         8.81         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
        3.42        38.30        34.29        35.47        30.61        37.45 
TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G 
       33.11        31.73        23.61        29.56        31.36        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-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-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A8-A06O 
       17.92        12.10        10.72        11.05        10.29        13.02 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07E TCGA-A8-A07G 
       13.02        17.98        17.03        53.98        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07Z 
       14.01        12.00         9.99         8.98         7.99        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        19.99 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P 
       18.05        19.96        37.05         9.99        31.00        31.00 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 
       93.04        40.01        19.07        17.95        41.98         9.99 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       13.02        29.98         8.98        15.02         0.99        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       12.00        13.02         0.99        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK 
        2.66         1.48        38.53        40.57        36.99        38.79 
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-A5XS 
        9.40         1.12         1.68         1.55         1.32         1.55 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X 
        1.12         1.81         1.18         0.43         1.74         0.33 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AM 
        0.23         0.33         2.96         1.78         7.36         0.16 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV 
        6.44         4.64         7.96         7.17         6.28         0.33 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        0.36         0.33         0.33         0.33         0.33        12.33 
TCGA-AN-A0XR TCGA-AN-A0XS 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-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J4 
       66.77        81.63        68.75        59.05        32.78        17.65 
TCGA-AO-A0J5 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC 
       24.16        20.32        22.36        53.03        21.53        50.86 
TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       21.37        26.24        62.04        71.80       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       93.70        94.59        96.10        77.56        64.04        57.30 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR TCGA-AQ-A04H 
       41.62        28.37        14.73        82.62        70.39        24.79 
TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR 
      130.09        15.62        13.22         9.99        49.32         5.26 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
       56.88        24.30        64.83        76.14        65.36        83.87 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO 
       75.55        61.84        52.77        51.25        48.82        43.56 
TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       39.98        43.07        17.23        46.32        42.58        35.24 
TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       36.26        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z 
       66.05        62.07        53.26        53.36        48.16        51.75 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       56.15        40.64        39.85        34.82        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25         7.36        40.04        17.10        20.81        16.96 
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-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-A0IO 
      112.37       176.98        18.77       126.12        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      110.93       140.88        68.45       234.28        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      162.05       102.77       140.48        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ 
      188.68        79.63        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-A2IU 
      129.70        28.27        68.94        58.88       101.52       170.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AY 
       85.35        54.28        82.88        55.00        24.53        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       28.50        46.95        39.16        48.36        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       51.68        32.02        18.21        25.71        24.85        21.70 
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-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD 
       11.67        49.05        41.75        44.02        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO 
       31.17        23.44        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-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI 
       16.27        15.68        44.81        46.19        32.65        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-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-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        50.79         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M 
       44.81         8.81         2.01        20.12        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       37.74        30.28        37.55        66.05         7.36        51.39 
TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       91.99        82.85        42.28        55.69        49.58        17.69 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD 
       25.81        31.53        89.16        24.66       120.62        33.17 
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-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
       72.07         6.90        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-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V 
       11.77        11.77        12.66         0.07        12.66        12.66 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HL 
        1.78         1.45         0.62        12.33        11.34        10.42 
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-A278 TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.03         0.99         0.23        13.25        20.58 
TCGA-D8-A145 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD 
       13.48        19.20        14.17        17.49        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.90        12.03        12.03        14.01        20.09        20.12 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       19.40        20.38        12.20        13.32        14.70        18.58 
TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF 
       16.73        25.74        23.90         2.66        17.16        15.22 
TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XS 
       14.73        14.50        19.92        17.69         7.96        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 
        6.35        12.99        12.66        15.32        15.52        14.24 
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-A27V TCGA-D8-A3Z5 
       16.41        13.48         4.80         0.76        12.53        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-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-A14V TCGA-E2-A14W TCGA-E2-A150 
       33.17        33.30        43.33        34.26        32.02        25.41 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15A 
       23.24        19.43        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-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-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-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-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 
       24.59        40.47        28.90        18.87        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N5 TCGA-E9-A1N8 
       15.72         7.20        18.05        19.89        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        12.56         0.72        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       18.41         0.39         0.23        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-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-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PG 
       18.48        30.08        18.90        19.99        13.94        34.55 
TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       52.73        21.27        10.59         7.40        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        53.52        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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U 
       53.95        13.55        18.12        11.84         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y 
        4.70         3.65         3.19         3.25         2.63         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         4.50         5.59        15.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
       12.66        44.61        27.65        24.10        26.20        16.87 
TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       14.10        14.76        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         4.44         6.81         5.29 

  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE 
                        21.75                         21.32 
[1] "0.0 - 211.6 (21.8)" "0.0 - 234.3 (21.3)"
[1] "hr=" "1.1"
D32V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  4(2Q37.3) MUTATED        18       19        0        3       106
  DEL PEAK  4(2Q37.3) WILD-TYPE      62       58        9        6       229
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  4(2Q37.3) MUTATED          67         1         42         12
  DEL PEAK  4(2Q37.3) WILD-TYPE       157         1         96         15
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  4(2Q37.3) MUTATED           16        7         0       6
  DEL PEAK  4(2Q37.3) WILD-TYPE         43       10         1      10
D32V3, multiclass
            clus
vv           DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  STAGE I                             18                            62
  STAGE IA                            19                            58
  STAGE IB                             0                             9
  STAGE II                             3                             6
  STAGE IIA                          106                           229
  STAGE IIB                           67                           157
  STAGE III                            1                             1
  STAGE IIIA                          42                            96
  STAGE IIIB                          12                            15
  STAGE IIIC                          16                            43
  STAGE IV                             7                            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  4(2Q37.3) MUTATED    58 189  33  17
  DEL PEAK  4(2Q37.3) WILD-TYPE 200 392  84  19
D32V4, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  T1                          58                           200
  T2                         189                           392
  T3                          33                            84
  T4                          17                            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  4(2Q37.3) MUTATED   143  92  40  18
  DEL PEAK  4(2Q37.3) WILD-TYPE 325 238  71  52
D32V5, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  N0                         143                           325
  N1                          92                           238
  N2                          40                            71
  N3                          18                            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  4(2Q37.3) MUTATED          1 254   7  36
  DEL PEAK  4(2Q37.3) WILD-TYPE        1 591  10  95
D32V6, multiclass
          clus
vv         DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               254                           591
  M1                                 7                            10
  MX                                36                            95
[1] 4 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  4(2Q37.3) MUTATED   295   3
  DEL PEAK  4(2Q37.3) WILD-TYPE 689   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED    295    3
  DEL PEAK  4(2Q37.3) WILD-TYPE  689    8
        clus
vv       DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  FEMALE                         295                           689
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  4(2Q37.3) MUTATED                            0
  DEL PEAK  4(2Q37.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  4(2Q37.3) MUTATED                             250
  DEL PEAK  4(2Q37.3) WILD-TYPE                           485
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  4(2Q37.3) MUTATED                               21
  DEL PEAK  4(2Q37.3) WILD-TYPE                            145
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  4(2Q37.3) MUTATED                     2
  DEL PEAK  4(2Q37.3) WILD-TYPE                   3
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  4(2Q37.3) MUTATED                                 10
  DEL PEAK  4(2Q37.3) WILD-TYPE                               19
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  4(2Q37.3) MUTATED                    3             11
  DEL PEAK  4(2Q37.3) WILD-TYPE                 11             33
D32V8, multiclass
                                  clus
vv                                 DEL PEAK  4(2Q37.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            250
  INFILTRATING LOBULAR CARCINOMA                            21
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          10
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                            11
                                  clus
vv                                 DEL PEAK  4(2Q37.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              485
  INFILTRATING LOBULAR CARCINOMA                             145
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            19
  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"
D32V9, binary
                               cls
clus                              0   1
  DEL PEAK  4(2Q37.3) MUTATED    95 203
  DEL PEAK  4(2Q37.3) WILD-TYPE 187 510
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     95  203
  DEL PEAK  4(2Q37.3) WILD-TYPE  187  510
     clus
vv    DEL PEAK  4(2Q37.3) MUTATED DEL PEAK  4(2Q37.3) WILD-TYPE
  NO                           95                           187
  YES                         203                           510
[1] 2 2
[1] FALSE
D32V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  4(2Q37.3) MUTATED                                  0    25
  DEL PEAK  4(2Q37.3) WILD-TYPE                                1    31
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  4(2Q37.3) MUTATED                          46   191
  DEL PEAK  4(2Q37.3) WILD-TYPE                        91   517
D32V11, multiclass
                                  clus
vv                                 DEL PEAK  4(2Q37.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     25
  BLACK OR AFRICAN AMERICAN                                 46
  WHITE                                                    191
                                  clus
vv                                 DEL PEAK  4(2Q37.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       31
  BLACK OR AFRICAN AMERICAN                                   91
  WHITE                                                      517
[1] 4 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  4(2Q37.3) MUTATED    13 225
  DEL PEAK  4(2Q37.3) WILD-TYPE  23 571
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) MUTATED     13  225
  DEL PEAK  4(2Q37.3) WILD-TYPE   23  571
                        clus
vv                       DEL PEAK  4(2Q37.3) MUTATED
  HISPANIC OR LATINO                              13
  NOT HISPANIC OR LATINO                         225
                        clus
vv                       DEL PEAK  4(2Q37.3) WILD-TYPE
  HISPANIC OR LATINO                                23
  NOT HISPANIC OR LATINO                           571
[1] 2 2
[1] FALSE

Clustering(33) Variable = DEL PEAK  5(3P21.31) MUTATION ANALYSIS
D33V1, survival
                                sevent
clus2                              0   1
  DEL PEAK  5(3P21.31) MUTATED   270  46
  DEL PEAK  5(3P21.31) WILD-TYPE 590  68
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                           316                            658 
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                            46                             68 
$`DEL PEAK  5(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        14.63        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        12.00 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A26F 
        3.42        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        23.08         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        13.02        33.07        15.02        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         1.81 
TCGA-AC-A5XS TCGA-AC-A6IX TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D 
        1.55         0.43         0.23         0.62         1.78         1.71 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FJ 
        7.36         6.51         0.16         0.33         0.33         7.96 
TCGA-AN-A0FL TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XT TCGA-AN-A0XU 
        7.59         0.33         0.33         0.33         0.33         0.33 
TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       80.28        47.84        47.87        21.40        17.65        24.16 
TCGA-AO-A0J6 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JM 
       37.48        21.53        50.70        76.77        26.24        71.80 
TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12G TCGA-AO-A1KQ TCGA-AO-A1KR 
      102.58        93.70        96.10        41.62        61.87        70.39 
TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TS 
        0.53        26.93       130.09         2.56        82.88        37.41 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       56.88        64.83        55.86        76.14        70.16        83.87 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AQ TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q 
       55.36        75.55        43.07       109.58        73.02        66.05 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 
       62.07        53.26        51.75        45.17        34.82        93.83 
TCGA-AR-A2LO TCGA-AR-A5QP TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG 
       20.81        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-E9-A1N8 TCGA-E9-A1N9 
       28.90       106.75        43.04        19.89        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R7 
       36.56        39.55        20.05         0.62         6.12        21.21 
TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22E TCGA-E9-A22G 
       21.27        34.13        12.53        13.32        12.89        23.51 
TCGA-E9-A244 TCGA-E9-A295 TCGA-E9-A2JS TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J6 
        0.69         0.72        17.75        18.21        18.90        28.77 
TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC 
       25.94        22.82        29.82        23.11         7.86         6.15 
TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       13.94        55.00        52.73        21.27        17.49        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3NW 
        7.40       109.87        53.13        42.71        42.28       110.50 
TCGA-GM-A3NY TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A5YL TCGA-LL-A5YP TCGA-LL-A6FR 
       38.20        69.30        11.57         5.56         3.25         3.88 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OK-A5Q2 TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A5RZ 
        3.22         6.21         2.10        26.20        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66K TCGA-OL-A66N TCGA-S3-A6ZG 
        9.80        33.90        18.21         6.81 

$`DEL PEAK  5(3P21.31) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SJ 
        8.52        14.37        43.43        14.27        20.88        13.68 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
        7.96        39.32        19.20        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        63.12        64.04        55.43        36.13       125.59 
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-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP 
       63.45        33.76        28.77       101.72        89.36       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-A0SY 
       24.72        24.16        99.19        54.64        27.12        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-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-A0YM TCGA-A2-A1FV TCGA-A2-A1FW 
       14.50        18.61        19.33        31.73        23.47        17.36 
TCGA-A2-A1FX TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A 
       36.79        20.25        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-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ 
       83.01        29.98        14.07        49.48        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
       38.37         9.01         8.81         8.91         6.74        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13F 
       34.29        35.47        37.45        33.11        10.72        12.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26J TCGA-A7-A3IY 
       23.61        29.56        31.36        23.74        20.61        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-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06R 
       13.74        10.72        11.05        13.02        13.02        17.98 
TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       41.06        26.01        17.03        53.98         9.01        33.01 
TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R 
       19.99        14.01        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-A084 
        7.99         9.96         9.99        28.04        18.05        15.06 
TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G 
       36.95        13.02         0.99        19.99        18.05        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X 
       12.00        37.05         0.99        19.07        93.04        33.99 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       40.01        19.07        16.01        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N 
        9.99        12.00         1.02        31.00        29.98         1.02 
TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 
       25.02         8.98        19.04         0.99        12.00        19.04 
TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E 
       21.04         0.99        13.02        17.03        38.04         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-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       36.99        38.79        26.04         1.02         0.92         2.27 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.99         0.69         9.40         1.12         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.32         0.07         1.12         1.81         1.18         0.69 
TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A0AJ 
        1.74         0.33         0.33         0.33         2.96         8.02 
TCGA-AN-A0AS 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-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO 
        6.02         0.33         0.36         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N 
        0.30         0.33         0.33         5.33         5.59        66.77 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
       81.63        84.69        68.75        59.05        29.13        32.78 
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-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A 
       38.53        62.04        55.33        99.25        94.59        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO 
       77.56        64.04        57.30        48.36        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       82.62        17.79        24.79         5.65        15.62        13.22 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TW 
       21.86         9.99        49.32         5.26        29.75        24.30 
TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       65.36        76.18        61.84        52.77        51.25        48.82 
TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS 
       62.56        43.73        43.56        39.98        17.23        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K 
       46.32        42.58        35.24        36.26        20.22        50.89 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24U 
       65.46        68.19        65.69         0.85        57.40        53.36 
TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 
       54.18        50.96        48.16        56.15        40.64        39.85 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
      128.65        20.25        42.87         7.36        40.04        17.10 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 
       16.96        20.38        54.74        16.04        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IM TCGA-B6-A0IN 
      143.38       149.59       220.90        50.70       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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT 
       81.17        78.02       172.96       102.77       140.48        89.46 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WZ TCGA-B6-A0X0 
      131.21       157.41       188.68        79.63       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-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        82.88 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 
       55.00        38.79        20.45        25.55        46.95        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BD TCGA-BH-A0BM 
       39.55        48.36        56.98        37.22        18.21        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV 
       35.67        48.69        27.19        53.95        45.57        49.94 
TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       48.13        45.83        31.17        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E2 
        2.56        38.47        45.17        47.41        15.68        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0EI 
        9.63        44.81        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-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       41.00        26.50        20.38         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        51.32        27.25        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N 
       44.81        23.05         7.23        90.84        72.56        37.74 
TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       66.05        51.39        51.16        91.99       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F6 
       42.28        49.58        25.81        31.53        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-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-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       83.31       130.16        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12V 
        8.94        11.77        11.77        12.66        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A138 TCGA-C8-A1HE 
       12.66        12.66         1.78         1.45         3.75        12.33 
TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z 
       11.34        10.42         3.25         0.36         0.43         8.28 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A140 
        0.03         0.03        12.20         0.03        11.90        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1JA TCGA-D8-A1JE 
       20.58        13.97        14.17        21.14        16.50        18.90 
TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS 
       12.03        14.01        18.97        20.09        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-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XM 
       27.58         2.66        17.16        15.22        14.73        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW 
        7.96        16.41        15.85        16.31        15.16        12.66 
TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K 
       15.52        14.24        17.42        13.45        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 
       16.41         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-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-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14X 
       40.96        38.24        33.17        33.30        43.33        31.96 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15C 
       28.60        17.03        23.24        19.43        23.87        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-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-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       17.06        14.07        14.99        53.62        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-A1IU 
       33.73        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-A1LG 
       54.18        39.62        19.66        24.59        40.47        18.87 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
      102.61         8.75        16.93         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1ND 
       18.05        22.26        19.20        36.82        13.48        12.59 
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-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD 
        1.38         2.76        32.09        20.81        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A22A 
       34.65         6.58        34.59        35.64         0.79        39.09 
TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       22.75        24.10        17.06         0.85        27.22         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA 
        0.95        12.56         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE 
       15.72         0.23         0.39         0.26         0.23        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        32.28        53.95        57.63 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       13.55        18.12        11.84         8.28         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YM TCGA-LL-A5YN 
        0.66         2.99         3.58         6.90         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ 
        3.19         2.63         4.14         4.50         4.50         5.59 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
       15.91         2.79        12.66        46.55         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       27.65        24.10        16.87        14.76        23.70        54.51 
TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       31.07         7.23         4.44         5.29 

  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                        176.98                         234.28 
  DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE 
                        21.435                         21.470 
[1] "0.0 - 177.0 (21.4)" "0.0 - 234.3 (21.5)"
[1] "hr=" "1.6"
D33V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  5(3P21.31) MUTATED        17       17        2        2       118
  DEL PEAK  5(3P21.31) WILD-TYPE      63       60        7        7       217
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  5(3P21.31) MUTATED          79         0         48          8
  DEL PEAK  5(3P21.31) WILD-TYPE       145         2         90         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  5(3P21.31) MUTATED           17        7         1       5
  DEL PEAK  5(3P21.31) WILD-TYPE         42       10         0      11
D33V3, multiclass
            clus
vv           DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  STAGE I                              17                             63
  STAGE IA                             17                             60
  STAGE IB                              2                              7
  STAGE II                              2                              7
  STAGE IIA                           118                            217
  STAGE IIB                            79                            145
  STAGE III                             0                              2
  STAGE IIIA                           48                             90
  STAGE IIIB                            8                             19
  STAGE IIIC                           17                             42
  STAGE IV                              7                             10
  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  5(3P21.31) MUTATED    53 222  35  10
  DEL PEAK  5(3P21.31) WILD-TYPE 205 359  82  26
D33V4, multiclass
    clus
vv   DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  T1                           53                            205
  T2                          222                            359
  T3                           35                             82
  T4                           10                             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(3P21.31) MUTATED   152 104  42  19
  DEL PEAK  5(3P21.31) WILD-TYPE 316 226  69  51
D33V5, multiclass
    clus
vv   DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  N0                          152                            316
  N1                          104                            226
  N2                           42                             69
  N3                           19                             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  5(3P21.31) MUTATED          1 272   7  41
  DEL PEAK  5(3P21.31) WILD-TYPE        1 573  10  90
D33V6, multiclass
          clus
vv         DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                272                            573
  M1                                  7                             10
  MX                                 41                             90
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V7, binary
                                cls
clus                               0   1
  DEL PEAK  5(3P21.31) MUTATED   317   4
  DEL PEAK  5(3P21.31) WILD-TYPE 667   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(3P21.31) MUTATED    317    4
  DEL PEAK  5(3P21.31) WILD-TYPE  667    7
        clus
vv       DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  FEMALE                          317                            667
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK  5(3P21.31) MUTATED                            1
  DEL PEAK  5(3P21.31) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  5(3P21.31) MUTATED                             270
  DEL PEAK  5(3P21.31) WILD-TYPE                           465
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  5(3P21.31) MUTATED                               33
  DEL PEAK  5(3P21.31) WILD-TYPE                            133
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK  5(3P21.31) MUTATED                     1
  DEL PEAK  5(3P21.31) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  5(3P21.31) MUTATED                                  5
  DEL PEAK  5(3P21.31) WILD-TYPE                               24
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  5(3P21.31) MUTATED                    0             11
  DEL PEAK  5(3P21.31) WILD-TYPE                 14             33
D33V8, multiclass
                                  clus
vv                                 DEL PEAK  5(3P21.31) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             270
  INFILTRATING LOBULAR CARCINOMA                             33
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            5
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                             11
                                  clus
vv                                 DEL PEAK  5(3P21.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               465
  INFILTRATING LOBULAR CARCINOMA                              133
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  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"
D33V9, binary
                                cls
clus                               0   1
  DEL PEAK  5(3P21.31) MUTATED   100 221
  DEL PEAK  5(3P21.31) WILD-TYPE 182 492
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(3P21.31) MUTATED    100  221
  DEL PEAK  5(3P21.31) WILD-TYPE  182  492
     clus
vv    DEL PEAK  5(3P21.31) MUTATED DEL PEAK  5(3P21.31) WILD-TYPE
  NO                           100                            182
  YES                          221                            492
[1] 2 2
[1] FALSE
D33V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  5(3P21.31) MUTATED                                  0    24
  DEL PEAK  5(3P21.31) WILD-TYPE                                1    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  5(3P21.31) MUTATED                          55   218
  DEL PEAK  5(3P21.31) WILD-TYPE                        82   490
D33V11, multiclass
                                  clus
vv                                 DEL PEAK  5(3P21.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  55
  WHITE                                                     218
                                  clus
vv                                 DEL PEAK  5(3P21.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    82
  WHITE                                                       490
[1] 4 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  5(3P21.31) MUTATED    10 262
  DEL PEAK  5(3P21.31) WILD-TYPE  26 534
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  5(3P21.31) MUTATED     10  262
  DEL PEAK  5(3P21.31) WILD-TYPE   26  534
                        clus
vv                       DEL PEAK  5(3P21.31) MUTATED
  HISPANIC OR LATINO                               10
  NOT HISPANIC OR LATINO                          262
                        clus
vv                       DEL PEAK  5(3P21.31) WILD-TYPE
  HISPANIC OR LATINO                                 26
  NOT HISPANIC OR LATINO                            534
[1] 2 2
[1] FALSE

Clustering(34) Variable = DEL PEAK  6(4P16.3) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  6(4P16.3) MUTATED   271  39
  DEL PEAK  6(4P16.3) WILD-TYPE 589  75
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                          310                           664 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                           39                            75 
$`DEL PEAK  6(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         9.01         3.42        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        41.06        31.00        26.01        33.01         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        23.08        18.05        12.00 
TCGA-A8-A08L TCGA-A8-A08X TCGA-A8-A092 TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
        9.99        33.99        16.01         1.02        31.00        33.07 
TCGA-A8-A09M TCGA-A8-A09X TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2QI 
       15.02        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 
       17.65        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        82.88         5.26 
TCGA-AR-A0TS TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 
       37.41        55.86        65.36        70.16        76.18        55.36 
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        65.69        66.05        54.18        50.96        45.17 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LO TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 
       34.82        93.83        20.81        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        22.26        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         0.39         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         2.99 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A8F5 
        4.70         3.65         3.25         3.88         4.50         6.21 
TCGA-OL-A5D7 TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K 
       46.55         9.80        23.70        33.90 

$`DEL PEAK  6(4P16.3) 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-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       13.68         7.96        19.20        18.21       104.81        18.02 
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-A0CT 
      125.59       112.08        92.48        88.60       107.93        75.25 
TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
        5.19        56.81        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-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
       99.19        54.64        44.88        50.43        44.28        17.52 
TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD 
        8.38        20.52        17.46        18.90        32.55        25.28 
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        14.63        31.73 
TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 
       23.77        23.47        36.79        22.45        20.25        19.56 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25D TCGA-A2-A25E 
       16.47        52.47       107.70        16.31        18.15        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        20.88        39.65        29.98        14.07        49.48 
TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 
       38.40        34.98        31.99         8.81         8.91        12.00 
TCGA-A2-A4S2 TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB 
        6.74        34.29        35.47        37.45        35.67        33.11 
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-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-A6VY TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q 
       10.72        11.05         8.75        13.02        13.02         1.02 
TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       17.98        29.03         1.02        17.03        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-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 
       10.98         7.99         9.96         9.99        28.04        18.05 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O 
       13.02         0.99        19.99        19.96        37.05        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 
       31.00         0.99        19.07        93.04        40.01        19.07 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B 
       17.95        41.98        12.00         9.99         9.99        12.00 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       13.02        29.98         1.02        25.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
       15.02         0.99        12.00        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23G TCGA-AC-A23H 
        0.99        13.02        17.03        38.04        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 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 
        1.12         1.18         0.43         0.33         0.33         0.62 
TCGA-AN-A0AJ TCGA-AN-A0AL TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS 
        8.02         6.51         4.64         7.59         7.17         6.28 
TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XR TCGA-AN-A0XV 
        0.36         0.33         0.33         0.33         0.33         5.33 
TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        5.59        80.28        47.84        81.63        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J5 TCGA-AO-A0J8 
       47.87        59.05        29.13        32.78        24.16        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-A125 TCGA-AO-A126 
       26.24        38.53        62.04        55.33        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       94.59        77.56        57.30        28.37        14.73        82.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
       61.87        70.39        24.79        15.62        13.22         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
       21.86         9.99        49.32        56.88        29.75        24.30 
TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       64.83        76.14        83.87        52.77        51.25        48.82 
TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
       43.56        39.98        40.83        46.32        42.58        35.24 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       36.26        20.22       109.58        73.02        65.46        68.19 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X 
        0.85        57.40        62.07        53.26        53.36        48.16 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH 
       51.75        56.15        40.64        39.85       128.65        20.25 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR 
       42.87         7.36        40.04        17.10        16.96        20.38 
TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA 
       54.74        20.45       143.38       149.59        12.13       220.90 
TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
       50.70        65.72        18.77       126.12        84.59       110.93 
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-A0WW 
      140.48        89.46       157.41        97.48       188.68        17.98 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF 
      129.57       129.70        28.27        68.94        58.88       101.52 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV 
      139.17       170.17        82.88        55.00        24.53        38.79 
TCGA-BH-A0AY TCGA-BH-A0B2 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       25.55        40.83        56.94        56.98        51.68        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       18.21        24.85        61.68        35.67        48.69        27.19 
TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       53.95        11.67        49.05        48.13        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       23.44        38.01        13.91        48.23        17.26        15.65 
TCGA-BH-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E1 
        3.22         2.56        38.47        45.17        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       14.30        44.81        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-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       41.00        52.96        26.50         5.85         2.50        13.61 
TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 
       36.85        51.32        27.25        50.79        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       44.81        23.05         2.01         7.23        20.12        90.84 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S 
       26.66        72.56        37.74        30.28        37.55        66.05 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX 
       69.93        91.99       113.82        82.85        55.69        49.58 
TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD 
       17.69        31.53        89.16       120.62       114.15        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-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 
       72.07       144.59         6.90         0.72        83.31        57.83 
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-A12Q TCGA-C8-A12U 
       11.93        11.77        11.77        12.66         0.07        12.66 
TCGA-C8-A12V 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-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HN 
        0.69         3.85        12.33        11.34        11.34         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-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03        12.20         0.03         0.23        13.25        20.58 
TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC 
       13.48        21.14        14.17        17.49        18.71        15.78 
TCGA-D8-A1JD TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP 
       18.15        14.01        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-A1X7 
       12.20        13.32        14.70        18.58        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XL TCGA-D8-A1XM 
       25.74        18.15         2.66        17.16        19.92        17.69 
TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       16.41        16.31        15.16        15.32        15.52         3.81 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W 
       13.48         4.80         0.76        10.09        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-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-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       31.96        28.60        27.12        23.24        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G 
       14.79        23.34        22.82        17.29        21.63        18.21 
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-A1IE TCGA-E2-A1IF TCGA-E2-A1IG 
       32.35        28.50        16.47        38.30        37.41        32.78 
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-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       54.18        27.42        19.66        24.59        40.47        28.90 
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-A574 TCGA-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1NA 
        7.20        18.05        19.89        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        12.56         0.72        17.75         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.62         0.23        15.39        12.20         8.48        18.21 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OX TCGA-EW-A1P0 
       13.25        16.57        15.68        28.77        29.95        41.13 
TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB 
       39.78        52.96        18.48        30.08        18.90        19.99 
TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV 
       13.94        14.43        34.55        19.96        52.73        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA 
       22.09        21.27        10.16        10.59        59.57       194.27 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       53.52        43.04        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        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       18.12         8.28         6.67         4.60         0.66         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A740 
        6.90         5.56         3.19         2.63         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        5.59         3.22        15.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
        7.53        44.61        27.65        24.10        26.20        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N 
       14.10        10.29        14.76        54.51        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         4.44         6.81         5.29 

  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                        21.01                         21.60 
[1] "0.0 - 211.6 (21.0)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.1"
D34V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  6(4P16.3) MUTATED        18       14        1        3       119
  DEL PEAK  6(4P16.3) WILD-TYPE      62       63        8        6       216
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  6(4P16.3) MUTATED          75         0         48          6
  DEL PEAK  6(4P16.3) WILD-TYPE       149         2         90         21
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  6(4P16.3) MUTATED           18        7         0       5
  DEL PEAK  6(4P16.3) WILD-TYPE         41       10         1      11
D34V3, multiclass
            clus
vv           DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  STAGE I                             18                            62
  STAGE IA                            14                            63
  STAGE IB                             1                             8
  STAGE II                             3                             6
  STAGE IIA                          119                           216
  STAGE IIB                           75                           149
  STAGE III                            0                             2
  STAGE IIIA                          48                            90
  STAGE IIIB                           6                            21
  STAGE IIIC                          18                            41
  STAGE IV                             7                            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(4P16.3) MUTATED    57 212  35  10
  DEL PEAK  6(4P16.3) WILD-TYPE 201 369  82  26
D34V4, multiclass
    clus
vv   DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  T1                          57                           201
  T2                         212                           369
  T3                          35                            82
  T4                          10                            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  6(4P16.3) MUTATED   144 109  39  20
  DEL PEAK  6(4P16.3) WILD-TYPE 324 221  72  50
D34V5, multiclass
    clus
vv   DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  N0                         144                           324
  N1                         109                           221
  N2                          39                            72
  N3                          20                            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  6(4P16.3) MUTATED          1 271   7  36
  DEL PEAK  6(4P16.3) WILD-TYPE        1 574  10  95
D34V6, multiclass
          clus
vv         DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               271                           574
  M1                                 7                            10
  MX                                36                            95
[1] 4 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  6(4P16.3) MUTATED   312   3
  DEL PEAK  6(4P16.3) WILD-TYPE 672   8
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4P16.3) MUTATED    312    3
  DEL PEAK  6(4P16.3) WILD-TYPE  672    8
        clus
vv       DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  FEMALE                         312                           672
  MALE                             3                             8
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  6(4P16.3) MUTATED                            1
  DEL PEAK  6(4P16.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  6(4P16.3) MUTATED                             265
  DEL PEAK  6(4P16.3) WILD-TYPE                           470
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  6(4P16.3) MUTATED                               25
  DEL PEAK  6(4P16.3) WILD-TYPE                            141
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  6(4P16.3) MUTATED                     3
  DEL PEAK  6(4P16.3) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  6(4P16.3) MUTATED                                  7
  DEL PEAK  6(4P16.3) WILD-TYPE                               22
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  6(4P16.3) MUTATED                    0             14
  DEL PEAK  6(4P16.3) WILD-TYPE                 14             30
D34V8, multiclass
                                  clus
vv                                 DEL PEAK  6(4P16.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            265
  INFILTRATING LOBULAR CARCINOMA                            25
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           7
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                            14
                                  clus
vv                                 DEL PEAK  6(4P16.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              470
  INFILTRATING LOBULAR CARCINOMA                             141
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            22
  MUCINOUS CARCINOMA                                          14
  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  6(4P16.3) MUTATED    96 219
  DEL PEAK  6(4P16.3) WILD-TYPE 186 494
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4P16.3) MUTATED     96  219
  DEL PEAK  6(4P16.3) WILD-TYPE  186  494
     clus
vv    DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  NO                           96                           186
  YES                         219                           494
[1] 2 2
[1] FALSE
D34V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  6(4P16.3) MUTATED                                  1    17
  DEL PEAK  6(4P16.3) WILD-TYPE                                0    39
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  6(4P16.3) MUTATED                          56   218
  DEL PEAK  6(4P16.3) WILD-TYPE                        81   490
D34V11, multiclass
                                  clus
vv                                 DEL PEAK  6(4P16.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     17
  BLACK OR AFRICAN AMERICAN                                 56
  WHITE                                                    218
                                  clus
vv                                 DEL PEAK  6(4P16.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       39
  BLACK OR AFRICAN AMERICAN                                   81
  WHITE                                                      490
[1] 4 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  6(4P16.3) MUTATED    10 258
  DEL PEAK  6(4P16.3) WILD-TYPE  26 538
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4P16.3) MUTATED     10  258
  DEL PEAK  6(4P16.3) WILD-TYPE   26  538
                        clus
vv                       DEL PEAK  6(4P16.3) MUTATED
  HISPANIC OR LATINO                              10
  NOT HISPANIC OR LATINO                         258
                        clus
vv                       DEL PEAK  6(4P16.3) WILD-TYPE
  HISPANIC OR LATINO                                26
  NOT HISPANIC OR LATINO                           538
[1] 2 2
[1] FALSE

Clustering(35) Variable = DEL PEAK  7(4Q35.2) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  7(4Q35.2) MUTATED   271  45
  DEL PEAK  7(4Q35.2) WILD-TYPE 589  69
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                          316                           658 
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                           45                            69 
$`DEL PEAK  7(4Q35.2) 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-A3XU TCGA-A2-A4RW TCGA-A2-A4RX 
       17.19        33.93        83.01        29.98         7.30         9.01 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13F TCGA-A7-A26G TCGA-A7-A26I 
        3.42        35.31        35.67        12.72        23.74        21.73 
TCGA-A7-A4SA TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV 
       14.93        14.50        21.17        17.92        14.73        12.10 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06Q TCGA-A8-A06R 
       10.29         9.37        10.42         8.75         1.02        17.98 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A07B TCGA-A8-A07E 
       41.06        31.00        26.01         1.02        33.01        19.99 
TCGA-A8-A07G TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A08B TCGA-A8-A08F 
       18.97         8.98         9.99        15.06        23.08        18.05 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A092 
       12.00         9.99        31.00         0.99        33.99        16.01 
TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09X TCGA-AC-A23E 
       12.00        31.00        33.07         8.98        14.01         2.37 
TCGA-AC-A2BK TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IW 
       38.53         0.92         0.99         1.55         1.81         0.69 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A0AJ TCGA-AN-A0AL 
        0.33         0.23         0.33         0.62         8.02         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK 
        0.33         0.33         0.33         6.44         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FY TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XT 
        7.59         0.33         0.33         0.30         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J2 
        0.33         5.59        66.77        84.69        29.13        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A129 
       17.65        37.48        20.32        50.70        72.00        96.10 
TCGA-AO-A12A TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KR TCGA-AO-A1KS 
       90.58        64.04        48.36        41.62        70.39         0.53 
TCGA-AQ-A0Y5 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TY TCGA-AR-A0U0 
        5.65        82.88         5.26        56.88        55.86        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AN TCGA-AR-A1AQ 
       70.16        76.18        55.36        75.55        43.73        43.07 
TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24O TCGA-AR-A24Q 
       17.23        20.22       109.58        50.89        65.69        66.05 
TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LR 
       62.07        54.18        50.96        45.17        93.83        20.38 
TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IH TCGA-B6-A0IJ 
       20.45        10.59        77.62       129.57       112.37       176.98 
TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RL TCGA-B6-A0RS 
      110.14       140.88       211.56       189.01        81.17       100.70 
TCGA-B6-A0WV TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A401 
       79.63        21.47       113.79        43.59        73.51        85.35 
TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 
       54.28        82.88        38.79        46.95        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BJ 
       48.36        56.94        37.22        32.02        25.71        21.70 
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-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-A18V TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EY TCGA-BH-A1F0 
       51.16        69.93        42.28        12.00        17.69        25.81 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FD TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A208 
       97.48        24.66        33.17        72.07        38.60        57.83 
TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A132 
      130.16        11.93        12.66        11.77        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A26W 
        0.69         3.75        12.33        12.03         2.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z 
        0.36         0.43         0.03         0.99        11.90        20.88 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JJ 
       19.20        14.17        16.50        18.90        12.03        20.09 
TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1XG TCGA-D8-A1XK 
       20.12        20.09        19.40        21.01        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XU TCGA-D8-A27H 
       19.92         7.96        16.41        15.85        12.99        13.05 
TCGA-D8-A27M TCGA-D8-A27T TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R 
       13.48        13.08        47.15        44.68        38.24        38.60 
TCGA-E2-A154 TCGA-E2-A159 TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A1B0 
       19.43        25.05        12.92         7.73        14.07        53.62 
TCGA-E2-A1B6 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IO TCGA-E2-A1L7 
       28.50        17.10        33.73        33.70        20.98        27.42 
TCGA-E2-A1L8 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A573 TCGA-E2-A574 
       39.62        18.87       106.75       102.61        22.26        19.89 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1R3 TCGA-E9-A1R4 
       13.48        12.00        39.55        20.05         2.10         6.12 
TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RF TCGA-E9-A226 TCGA-E9-A22E TCGA-E9-A22G 
       32.09        20.81         6.58        34.13        12.89        23.51 
TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA 
        0.69         1.94         0.95        17.75        26.07         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FL TCGA-EW-A1J1 TCGA-EW-A1OV TCGA-EW-A1OW 
       15.72         0.23         0.26        18.90        25.94        22.82 
TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PE 
       40.41        29.82        23.11         7.86         6.15        10.52 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA 
       19.96        55.00        17.49         7.40       109.87       194.27 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A441 
       42.71        42.28        61.91        69.30        11.57         2.99 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z TCGA-LL-A8F5 
        4.70         3.65         3.25         3.88         4.50         6.21 
TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66K 
       46.55        26.20         9.80        33.90 

$`DEL PEAK  7(4Q35.2) 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-A0SJ TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
       13.68         7.96        19.20        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y 
       82.16        73.84        22.06        63.12        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CT 
      125.59       112.08        92.48        88.60       107.93        75.25 
TCGA-A2-A0CU TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
        5.19        56.81        34.55        33.76        28.77        25.22 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET 
       89.36        80.28       107.61        74.40        37.05        35.05 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU 
       34.29        31.82        29.75        24.72        99.19        54.64 
TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       44.88        44.28         8.38        18.71        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-A0YM TCGA-A2-A0YT TCGA-A2-A1FW 
       14.50        19.33        14.63        31.73        23.77        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-A25B TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
      107.70        16.31        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       39.65        14.07        49.48        38.40        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD 
       38.37         8.81         8.91        12.00         6.74        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D 
       34.29        35.47        30.61        37.45        33.11        31.73 
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-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-A5ZW TCGA-A7-A5ZX 
       13.41        14.70        11.97        13.74        10.72        11.05 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06U TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 
       13.02        13.02        29.03        17.03        53.98         9.01 
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-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 
        7.99         9.96        28.04        18.05        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08S 
        0.99        19.99        19.96        37.05        31.00        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       93.04        40.01        19.07        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09M 
        9.99         9.99         1.02        13.02        29.98        15.02 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 
        1.02        25.02        19.04        15.02         0.99        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-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BM 
       38.04         0.95        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-A2FO 
       40.57        55.43        36.99        38.79        26.04        50.70 
TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        1.02         2.27         0.69        14.83         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X 
        1.81         1.68         1.55         1.32         0.07         1.12 
TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A04A TCGA-AN-A04C 
        1.18         0.43         1.74         0.33         2.96         1.78 
TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS 
        1.71         7.36         0.16         4.64         7.17         6.28 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XL 
        6.02         0.33         0.36         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-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J8 
       68.75        47.87        59.05        21.40        24.16        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-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 
       38.53        62.04        55.33        71.80       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO 
       93.70        94.59        77.56        57.30        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       82.62        61.87        17.79        24.79        26.93       130.09 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ 
       15.62        13.22         2.56        21.86         9.99        49.32 
TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U2 
       37.41        29.75        24.30        64.83        76.14        83.87 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO 
       61.84        52.77        51.25        48.82        62.56        43.56 
TCGA-AR-A1AP TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       39.98        40.83        46.32        42.58        35.24        36.26 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T 
       73.02        65.46        68.19         0.85        57.40        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 
       53.36        48.16        51.75        56.15        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM 
       34.82       128.65        20.25        42.87         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-B6-A0I2 
       17.10        20.81        16.96        54.74        16.04       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-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-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WZ 
      131.21       157.41        97.48       188.68        17.98       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-A1KN TCGA-B6-A2IU TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
      139.17       170.17        49.94        55.00        24.53        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BD 
       25.55        28.50        40.83        56.98        51.68        18.21 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       24.85        44.05        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE 
       53.95        11.67        48.13        42.90        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP 
       23.44        38.01        13.91        48.23        17.26        15.65 
TCGA-BH-A0DQ TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 
        3.22        38.47        45.17        47.41        16.27        15.68 
TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY 
       14.30        44.81        32.65        31.00        24.43        30.35 
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-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
       52.96        26.50         5.85         2.50        13.61        36.85 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G 
       51.32        27.25        24.95        42.35        44.81         2.01 
TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        7.23        90.84        26.66        72.56        37.74        30.28 
TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EW 
       66.05        51.39        91.99       113.82        82.85        55.69 
TCGA-BH-A1EX TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE 
       49.58        31.53        89.16       120.62       114.15        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-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-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-A135 TCGA-C8-A137 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.85        10.92        11.34        11.34         0.16 
TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
       10.42         3.25         0.30         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03        12.20         0.03         0.23        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J9 TCGA-D8-A1JB 
       13.97        14.17        13.48        21.14        17.49        18.71 
TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JN 
       15.78        18.15        12.03        14.01        18.97        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-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-A1XJ TCGA-D8-A1XM TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV 
       15.22        21.83        17.69        16.31         6.35        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-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W 
       16.41         4.80         0.76        10.09        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-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-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 
       31.96        28.60        17.03        25.41        27.12        23.24 
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-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-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LK 
       54.18        19.66        24.59        40.47        28.90         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        18.05 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE 
       19.20        36.82        13.12        36.56        12.59        35.77 
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-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG 
        2.76        21.21        40.24         0.66        34.65        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       34.59        35.64         0.79        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A 
       22.75        24.10        17.06         0.85        27.22        12.56 
TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE 
        0.72         0.76        18.41         0.39         0.23        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-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 
       15.68        28.77        29.95        29.85        41.13        39.78 
TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD 
       52.96        18.48        30.08        18.90        19.99        13.94 
TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       14.43        34.55        52.73        25.91        22.09        21.27 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
       10.16        10.59        59.57        53.13        53.52        43.04 
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-A5PV TCGA-GM-A5PX 
       38.20        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 
       11.84         8.28         6.67         4.60         0.66         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A740 
        6.90         5.56         3.19         2.63         4.14         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        5.59         3.22        15.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
        7.53        44.61        27.65        24.10        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N 
       10.29        14.76        23.70        54.51        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         4.44         6.81         5.29 

  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE 
                        20.78                         21.98 
[1] "0.0 - 211.6 (20.8)" "0.0 - 234.3 (22.0)"
[1] "hr=" "1.4"
D35V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  7(4Q35.2) MUTATED        23       16        1        1       118
  DEL PEAK  7(4Q35.2) WILD-TYPE      57       61        8        8       217
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  7(4Q35.2) MUTATED          79         0         47          8
  DEL PEAK  7(4Q35.2) WILD-TYPE       145         2         91         19
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  7(4Q35.2) MUTATED           15        7         0       5
  DEL PEAK  7(4Q35.2) WILD-TYPE         44       10         1      11
D35V3, multiclass
            clus
vv           DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  STAGE I                             23                            57
  STAGE IA                            16                            61
  STAGE IB                             1                             8
  STAGE II                             1                             8
  STAGE IIA                          118                           217
  STAGE IIB                           79                           145
  STAGE III                            0                             2
  STAGE IIIA                          47                            91
  STAGE IIIB                           8                            19
  STAGE IIIC                          15                            44
  STAGE IV                             7                            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  7(4Q35.2) MUTATED    61 209  36  14
  DEL PEAK  7(4Q35.2) WILD-TYPE 197 372  81  22
D35V4, multiclass
    clus
vv   DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  T1                          61                           197
  T2                         209                           372
  T3                          36                            81
  T4                          14                            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  7(4Q35.2) MUTATED   151 108  39  18
  DEL PEAK  7(4Q35.2) WILD-TYPE 317 222  72  52
D35V5, multiclass
    clus
vv   DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  N0                         151                           317
  N1                         108                           222
  N2                          39                            72
  N3                          18                            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  7(4Q35.2) MUTATED          0 288   7  26
  DEL PEAK  7(4Q35.2) WILD-TYPE        2 557  10 105
D35V6, multiclass
          clus
vv         DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               288                           557
  M1                                 7                            10
  MX                                26                           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"
D35V7, binary
                               cls
clus                              0   1
  DEL PEAK  7(4Q35.2) MUTATED   320   1
  DEL PEAK  7(4Q35.2) WILD-TYPE 664  10
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.2) MUTATED    320    1
  DEL PEAK  7(4Q35.2) WILD-TYPE  664   10
        clus
vv       DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  FEMALE                         320                           664
  MALE                             1                            10
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  7(4Q35.2) MUTATED                            1
  DEL PEAK  7(4Q35.2) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  7(4Q35.2) MUTATED                             274
  DEL PEAK  7(4Q35.2) WILD-TYPE                           461
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  7(4Q35.2) MUTATED                               28
  DEL PEAK  7(4Q35.2) WILD-TYPE                            138
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  7(4Q35.2) MUTATED                     3
  DEL PEAK  7(4Q35.2) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  7(4Q35.2) MUTATED                                  4
  DEL PEAK  7(4Q35.2) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  7(4Q35.2) MUTATED                    0             10
  DEL PEAK  7(4Q35.2) WILD-TYPE                 14             34
D35V8, multiclass
                                  clus
vv                                 DEL PEAK  7(4Q35.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            274
  INFILTRATING LOBULAR CARCINOMA                            28
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                            10
                                  clus
vv                                 DEL PEAK  7(4Q35.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              461
  INFILTRATING LOBULAR CARCINOMA                             138
  MEDULLARY CARCINOMA                                          2
  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"
D35V9, binary
                               cls
clus                              0   1
  DEL PEAK  7(4Q35.2) MUTATED    95 226
  DEL PEAK  7(4Q35.2) WILD-TYPE 187 487
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.2) MUTATED     95  226
  DEL PEAK  7(4Q35.2) WILD-TYPE  187  487
     clus
vv    DEL PEAK  7(4Q35.2) MUTATED DEL PEAK  7(4Q35.2) WILD-TYPE
  NO                           95                           187
  YES                         226                           487
[1] 2 2
[1] FALSE
D35V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  7(4Q35.2) MUTATED                                  1    19
  DEL PEAK  7(4Q35.2) WILD-TYPE                                0    37
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  7(4Q35.2) MUTATED                          59   214
  DEL PEAK  7(4Q35.2) WILD-TYPE                        78   494
D35V11, multiclass
                                  clus
vv                                 DEL PEAK  7(4Q35.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     19
  BLACK OR AFRICAN AMERICAN                                 59
  WHITE                                                    214
                                  clus
vv                                 DEL PEAK  7(4Q35.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       37
  BLACK OR AFRICAN AMERICAN                                   78
  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"
D35V12, binary
                               cls
clus                              0   1
  DEL PEAK  7(4Q35.2) MUTATED     7 257
  DEL PEAK  7(4Q35.2) WILD-TYPE  29 539
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.2) MUTATED      7  257
  DEL PEAK  7(4Q35.2) WILD-TYPE   29  539
                        clus
vv                       DEL PEAK  7(4Q35.2) MUTATED
  HISPANIC OR LATINO                               7
  NOT HISPANIC OR LATINO                         257
                        clus
vv                       DEL PEAK  7(4Q35.2) WILD-TYPE
  HISPANIC OR LATINO                                29
  NOT HISPANIC OR LATINO                           539
[1] 2 2
[1] FALSE

Clustering(36) Variable = DEL PEAK  8(5Q11.2) MUTATION ANALYSIS
D36V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  8(5Q11.2) MUTATED   218  39
  DEL PEAK  8(5Q11.2) WILD-TYPE 642  75
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                          257                           717 
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                           39                            75 
$`DEL PEAK  8(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         3.42 
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         9.96        15.06        18.05         0.99 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A09A TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09T 
       93.04        33.99         9.99        29.98        15.02        19.04 
TCGA-AC-A2BK TCGA-AC-A62X TCGA-AN-A041 TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL 
       38.53         1.12         0.23         1.71         7.36         6.51 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV 
        0.33         0.33         7.96         7.59         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XU TCGA-AO-A03M TCGA-AO-A0J4 
        0.33         0.33         0.33         0.33        47.84        17.65 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A129 TCGA-AO-A12F TCGA-AO-A1KR 
       24.16        37.48        55.33        96.10        48.36        70.39 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TV 
       26.93       130.09         2.56        82.88        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH 
       24.30        65.36        70.16        83.87        55.36        75.55 
TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AU TCGA-AR-A1AY 
       61.84        52.77        43.07        17.23        46.32        20.22 
TCGA-AR-A24K TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       50.89        62.07        53.36        51.75        56.15        45.17 
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        22.26        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         2.99         4.70         3.65 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 
        3.25         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 
       26.20        10.29         9.80        23.70        54.51 

$`DEL PEAK  8(5Q11.2) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        48.10        47.24        20.88 
TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
       13.68         7.96        39.32        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       82.16        63.12        55.43        36.13       125.59        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-A0CW TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
        5.19        63.45        64.04        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-A0ST TCGA-A2-A0SU 
       35.05        34.29        31.82        29.75        99.19        54.64 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T2 TCGA-A2-A0T3 
       27.12        44.88        44.28        17.52         8.38        18.71 
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-A0YG TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT 
       15.42        21.90        14.50        19.33        14.63        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-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       10.59        20.88        39.65        29.98        14.07        49.48 
TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       31.99         9.01         8.81         8.91        12.00         6.74 
TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
       38.30        35.31        34.29        35.47        30.61        37.45 
TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F 
       33.11        12.72        23.61        29.56        31.36        24.26 
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-A4SF TCGA-A7-A5ZW TCGA-A7-A5ZX 
       13.41        14.70        11.97        17.92        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T 
       10.29        10.42        13.02        13.02         1.02        41.06 
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        33.01        19.99 
TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07R 
       18.97        14.01        12.00        17.03        10.98         8.98 
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-A08G TCGA-A8-A08I TCGA-A8-A08J 
        0.99        23.08        19.99        19.96        12.00        37.05 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A091 
        9.99        31.00        31.00        19.07        40.01        19.07 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B 
       16.01        17.95        41.98        12.00         9.99        12.00 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09Q 
        1.02        13.02        31.00        33.07         1.02        25.02 
TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
        8.98        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-A2BM 
        0.95         2.37        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-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 
        9.40         1.12         1.81         1.68         1.55         1.32 
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-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        1.74         0.33         0.33         0.33         0.62         2.96 
TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF 
        1.78         8.02         0.16         0.33         6.44         4.64 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0XL TCGA-AN-A0XN 
        7.00         7.17         6.28         0.36         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-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        5.59        80.28        66.77        81.63        84.69        68.75 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J7 
       47.87        59.05        29.13        32.78        21.40        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        38.53        62.04        71.80 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
      102.58        99.25        93.70        94.59        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 
       13.22        21.86         9.99        49.32         5.26        37.41 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AL 
       64.83        55.86        76.14        76.18        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        40.83        42.58 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N 
       35.24        36.26       109.58        73.02        65.46        68.19 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V 
       65.69         0.85        66.05        57.40        53.26        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       50.96        48.16        40.64        39.85        34.82       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        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I2 
       16.96        54.74        16.04        20.45        10.59       143.38 
TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IH TCGA-B6-A0IK 
      149.59        12.13       220.90        50.70       112.37        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG 
      126.12        84.59       110.14       110.93       211.56        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-A0WW 
      140.48        89.46       157.41        97.48       188.68        17.98 
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-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A408 
       43.59        73.51       139.17       170.17        85.35        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       82.88        55.00        20.45        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC 
       40.83        39.16        48.36        56.94        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ 
       18.21        25.71        21.70        61.68        35.67        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 
       53.69        53.95        49.94        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-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-A0E2 
       38.47        45.17        47.41        16.27        15.68        14.30 
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-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO 
       23.08        41.00        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-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-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 
       91.99        82.85        55.69        49.58        17.69        89.16 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
       97.48        24.66       120.62        36.92        63.35        55.00 
TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A28O 
       72.07       144.59         6.90         0.72        83.31        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-A12U TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A134 
       11.77         0.07        12.66        12.66         1.45         0.69 
TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL 
        3.85        12.33        11.34        11.34        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
        2.30         3.25         0.30         0.43         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 
        0.03         0.03         0.03         0.23        11.90        13.25 
TCGA-D8-A141 TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD 
       20.58        13.48        14.17        17.49        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JN TCGA-D8-A1JS 
       18.90        14.01        18.97        20.09        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-A1XD TCGA-D8-A1XG TCGA-D8-A1XM 
       23.90        18.15         2.66        17.16        14.73        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY 
        7.96        15.85        16.31        12.99        15.16        16.54 
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-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-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S 
       28.44        28.87        44.68        40.96        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-A14Z TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15A 
       17.03        27.12        23.24        19.43        23.87        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-A1B1 TCGA-E2-A1B4 
       19.56        17.06        14.07        14.99        53.03        29.95 
TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG 
       32.35        16.47        17.10        38.30        37.41        32.78 
TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       33.73        28.44        22.65         3.88        22.19        11.08 
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-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        18.05 
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        12.56         0.72         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       18.41         0.62        15.72         0.23         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        15.39        12.20        39.72         8.48        18.21 
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-A1P6 
       40.41        41.13        39.78        52.96        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF 
       30.08        19.99         6.15        13.94        10.52        14.43 
TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 
       34.55        55.00        52.73        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-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN 
       53.52        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        32.28        53.95        57.63 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       13.55        18.12        11.57         8.28         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A6FQ 
        0.66         3.58         6.90         5.56         3.19         2.63 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.14         4.50         4.50        15.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66         7.53        44.61        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       14.10        14.76        33.90        31.07        18.21         7.23 
TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        4.44         6.81         5.29 

  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                       186.48                        234.28 
  DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE 
                        22.32                         20.88 
[1] "0.0 - 186.5 (22.3)" "0.0 - 234.3 (20.9)"
[1] "hr=" "1.3"
D36V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  8(5Q11.2) MUTATED        22       14        1        0       100
  DEL PEAK  8(5Q11.2) WILD-TYPE      58       63        8        9       235
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  8(5Q11.2) MUTATED          64         0         32          5
  DEL PEAK  8(5Q11.2) WILD-TYPE       160         2        106         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  8(5Q11.2) MUTATED           12        5         1       5
  DEL PEAK  8(5Q11.2) WILD-TYPE         47       12         0      11
D36V3, multiclass
            clus
vv           DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  STAGE I                             22                            58
  STAGE IA                            14                            63
  STAGE IB                             1                             8
  STAGE II                             0                             9
  STAGE IIA                          100                           235
  STAGE IIB                           64                           160
  STAGE III                            0                             2
  STAGE IIIA                          32                           106
  STAGE IIIB                           5                            22
  STAGE IIIC                          12                            47
  STAGE IV                             5                            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  8(5Q11.2) MUTATED    57 176  18   9
  DEL PEAK  8(5Q11.2) WILD-TYPE 201 405  99  27
D36V4, multiclass
    clus
vv   DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  T1                          57                           201
  T2                         176                           405
  T3                          18                            99
  T4                           9                            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(5Q11.2) MUTATED   130  85  29  13
  DEL PEAK  8(5Q11.2) WILD-TYPE 338 245  82  57
D36V5, multiclass
    clus
vv   DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  N0                         130                           338
  N1                          85                           245
  N2                          29                            82
  N3                          13                            57
[1] 4 2
[1] 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(5Q11.2) MUTATED          0 230   5  26
  DEL PEAK  8(5Q11.2) WILD-TYPE        2 615  12 105
D36V6, multiclass
          clus
vv         DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               230                           615
  M1                                 5                            12
  MX                                26                           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"
D36V7, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q11.2) MUTATED   261   0
  DEL PEAK  8(5Q11.2) WILD-TYPE 723  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q11.2) MUTATED    261    0
  DEL PEAK  8(5Q11.2) WILD-TYPE  723   11
        clus
vv       DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  FEMALE                         261                           723
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  8(5Q11.2) MUTATED                            1
  DEL PEAK  8(5Q11.2) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  8(5Q11.2) MUTATED                             232
  DEL PEAK  8(5Q11.2) WILD-TYPE                           503
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  8(5Q11.2) MUTATED                                8
  DEL PEAK  8(5Q11.2) WILD-TYPE                            158
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  8(5Q11.2) MUTATED                     4
  DEL PEAK  8(5Q11.2) WILD-TYPE                   1
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  8(5Q11.2) MUTATED                                  4
  DEL PEAK  8(5Q11.2) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  8(5Q11.2) MUTATED                    1             10
  DEL PEAK  8(5Q11.2) WILD-TYPE                 13             34
D36V8, multiclass
                                  clus
vv                                 DEL PEAK  8(5Q11.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            232
  INFILTRATING LOBULAR CARCINOMA                             8
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         1
  OTHER  SPECIFY                                            10
                                  clus
vv                                 DEL PEAK  8(5Q11.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              503
  INFILTRATING LOBULAR CARCINOMA                             158
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  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"
D36V9, binary
                               cls
clus                              0   1
  DEL PEAK  8(5Q11.2) MUTATED    78 183
  DEL PEAK  8(5Q11.2) WILD-TYPE 204 530
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q11.2) MUTATED     78  183
  DEL PEAK  8(5Q11.2) WILD-TYPE  204  530
     clus
vv    DEL PEAK  8(5Q11.2) MUTATED DEL PEAK  8(5Q11.2) WILD-TYPE
  NO                           78                           204
  YES                         183                           530
[1] 2 2
[1] FALSE
D36V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  8(5Q11.2) MUTATED                                  1    19
  DEL PEAK  8(5Q11.2) WILD-TYPE                                0    37
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  8(5Q11.2) MUTATED                          54   167
  DEL PEAK  8(5Q11.2) WILD-TYPE                        83   541
D36V11, multiclass
                                  clus
vv                                 DEL PEAK  8(5Q11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     19
  BLACK OR AFRICAN AMERICAN                                 54
  WHITE                                                    167
                                  clus
vv                                 DEL PEAK  8(5Q11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       37
  BLACK OR AFRICAN AMERICAN                                   83
  WHITE                                                      541
[1] 4 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  8(5Q11.2) MUTATED     8 217
  DEL PEAK  8(5Q11.2) WILD-TYPE  28 579
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q11.2) MUTATED      8  217
  DEL PEAK  8(5Q11.2) WILD-TYPE   28  579
                        clus
vv                       DEL PEAK  8(5Q11.2) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         217
                        clus
vv                       DEL PEAK  8(5Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           579
[1] 2 2
[1] FALSE

Clustering(37) Variable = DEL PEAK  9(5Q21.3) MUTATION ANALYSIS
D37V1, survival
                               sevent
clus2                             0   1
  DEL PEAK  9(5Q21.3) MUTATED   214  34
  DEL PEAK  9(5Q21.3) WILD-TYPE 646  80
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                          248                           726 
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                           34                            80 
$`DEL PEAK  9(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         3.42        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         9.96        15.06 
TCGA-A8-A08F TCGA-A8-A08L TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A09A TCGA-A8-A09C 
       18.05         9.99         0.99        33.99         9.99         1.02 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-AC-A2BK TCGA-AC-A3OD TCGA-AC-A62X 
       29.98        15.02        25.02        38.53        14.83         1.12 
TCGA-AC-A6IW TCGA-AN-A041 TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR 
        0.69         0.23         1.78         7.36         6.51         0.33 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV 
        0.33         0.33         7.96         7.59         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN 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-A0JB TCGA-AO-A0JL TCGA-AO-A124 
       17.65        24.16        37.48        50.70        55.33       102.58 
TCGA-AO-A129 TCGA-AO-A12F TCGA-AO-A1KR TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A54N 
       96.10        48.36        70.39        26.93       130.09         2.56 
TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U0 
       82.88        56.88        29.75        24.30        55.86        65.36 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       70.16        83.87        55.36        75.55        61.84        52.77 
TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L 
       43.73        43.07        17.23        20.22        50.89        73.02 
TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       66.05        62.07        53.36        51.75        56.15        45.17 
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        22.26        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         2.99         4.70         3.65         3.25 
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        10.29         9.80 
TCGA-OL-A66I TCGA-OL-A66J 
       23.70        54.51 

$`DEL PEAK  9(5Q21.3) 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-A0SQ TCGA-A2-A04N 
       20.88        13.68         7.96        39.32        18.21       104.81 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL 
       82.16        63.12        55.43        36.13       125.59        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-A0CW TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 
        5.19        63.45        64.04        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-A0ST 
       35.05        34.29        31.82        29.75        24.72        99.19 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 
       54.64        27.12        44.88        44.28        17.13         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        14.63 
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-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       14.07        49.48        31.99         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
       12.00         6.74        38.30        35.31        34.29        35.47 
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-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-A6VX TCGA-A8-A06O TCGA-A8-A06P 
       17.92        10.72        11.05        10.42        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z 
        1.02        17.98        41.06        29.03        26.01         1.02 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       17.03         9.01        33.01        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W 
       14.01        12.00        17.03        10.98         7.99         9.99 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B 
       28.04        18.05        36.95        13.02         0.99        23.08 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P 
       19.99        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 
       19.07        93.04        40.01        19.07        16.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E 
       41.98        12.00         9.99        12.00        13.02        31.00 
TCGA-A8-A09I 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-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-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-A2QI TCGA-AC-A2QJ 
       38.79        26.04        50.70         1.02         0.92         2.27 
TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 
        0.99         0.69         9.40         1.12         1.81         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV 
        1.55         1.32         1.55         0.07         1.81         1.18 
TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 
        0.43         1.74         0.33         0.33         0.33         0.62 
TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0FD TCGA-AN-A0FF 
        2.96         1.71         8.02         0.16         6.44         4.64 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0XL TCGA-AN-A0XO 
        7.00         7.17         6.28         0.36         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-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
       80.28        66.77        81.63        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 
       59.05        29.13        32.78        21.40        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        38.53        62.04        71.80        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12G 
       94.59        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        13.22        21.86         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U3 
       49.32         5.26        37.41        64.83        76.14        76.18 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AS 
       51.25        48.82        62.56        43.56        39.98        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24M 
       46.32        42.58        35.24        36.26       109.58        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V 
       68.19        65.69         0.85        57.40        53.26        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       50.96        48.16        40.64        39.85        34.82       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        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       16.96        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-A0IC 
       77.62       143.38       149.59        12.13       220.90        50.70 
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-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM 
      140.88        68.45       189.01       234.28        81.17        78.02 
TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      172.96       162.05       140.48        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 
      188.68        79.63        17.98       113.79       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI 
      186.48        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        82.88        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-A0BJ 
       48.36        56.94        37.22        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-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-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-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-A0HB 
       37.78        35.51        24.56        23.08        41.00        26.50 
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-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L 
        8.81         2.01         7.23        20.12        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
       72.56        37.74        30.28        55.63        37.55        66.05 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       51.39        69.93        91.99       113.82        82.85        42.28 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       55.69        49.58        17.69        89.16        24.66       120.62 
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-A203 TCGA-BH-A204 TCGA-BH-A28O 
      144.59         6.90         0.72        38.60        83.31        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-A12V 
       11.77        12.66        11.77         0.07        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
       12.66        12.66         1.45         3.85         3.75        12.33 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V 
       11.34        11.34        12.03        10.42         3.25         0.30 
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-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 
       11.90        20.88        13.25        20.58        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-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ 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-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       13.32        14.70        18.58        17.79        16.73        25.74 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM 
       18.15         2.66        17.16        14.73        21.83        17.69 
TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY 
        7.96        15.85        16.31        12.99        15.16        16.54 
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-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-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-A14O TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S 
       28.44        28.87        44.68        40.96        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-A14Z TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A15C 
       17.03        27.12        23.24        19.43        23.87        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-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-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 
       17.06        14.07        14.99        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-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU 
       33.73        28.44        22.65         3.88        22.19        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE 
       54.18        27.42        39.62        19.66        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 
       18.87        16.93         5.52        15.72         7.20        18.05 
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        12.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        26.07        18.41        15.72         0.23         0.39 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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-A1P5 
       29.85        40.41        41.13        39.78        52.96        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-A1PF TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 
       14.43        34.55        55.00        52.73        22.09        21.27 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       17.49        10.16        10.59         7.40        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.13        53.52        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        32.28        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U 
       57.63        13.55        18.12        11.57         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO 
        4.60         0.66         3.58         6.90         5.56         3.19 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 
        2.63         4.14         4.50         4.50         5.59        15.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        12.66         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66K 
       24.10        26.20        16.87        14.10        14.76        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07        18.21         7.23         4.44         6.81         5.29 

  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE 
                       23.605                        20.845 
[1] "0.0 - 211.6 (23.6)" "0.0 - 234.3 (20.8)"
[1] "hr=" "1.2"
D37V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  9(5Q21.3) MUTATED        18       16        1        0       105
  DEL PEAK  9(5Q21.3) WILD-TYPE      62       61        8        9       230
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  9(5Q21.3) MUTATED          59         0         27          5
  DEL PEAK  9(5Q21.3) WILD-TYPE       165         2        111         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK  9(5Q21.3) MUTATED           12        3         1       4
  DEL PEAK  9(5Q21.3) WILD-TYPE         47       14         0      12
D37V3, multiclass
            clus
vv           DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  STAGE I                             18                            62
  STAGE IA                            16                            61
  STAGE IB                             1                             8
  STAGE II                             0                             9
  STAGE IIA                          105                           230
  STAGE IIB                           59                           165
  STAGE III                            0                             2
  STAGE IIIA                          27                           111
  STAGE IIIB                           5                            22
  STAGE IIIC                          12                            47
  STAGE IV                             3                            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  9(5Q21.3) MUTATED    51 173  17   9
  DEL PEAK  9(5Q21.3) WILD-TYPE 207 408 100  27
D37V4, multiclass
    clus
vv   DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  T1                          51                           207
  T2                         173                           408
  T3                          17                           100
  T4                           9                            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  9(5Q21.3) MUTATED   137  74  26  13
  DEL PEAK  9(5Q21.3) WILD-TYPE 331 256  85  57
D37V5, multiclass
    clus
vv   DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  N0                         137                           331
  N1                          74                           256
  N2                          26                            85
  N3                          13                            57
[1] 4 2
[1] 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(5Q21.3) MUTATED          0 223   3  26
  DEL PEAK  9(5Q21.3) WILD-TYPE        2 622  14 105
D37V6, multiclass
          clus
vv         DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               223                           622
  M1                                 3                            14
  MX                                26                           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"
D37V7, binary
                               cls
clus                              0   1
  DEL PEAK  9(5Q21.3) MUTATED   252   0
  DEL PEAK  9(5Q21.3) WILD-TYPE 732  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(5Q21.3) MUTATED    252    0
  DEL PEAK  9(5Q21.3) WILD-TYPE  732   11
        clus
vv       DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  FEMALE                         252                           732
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK  9(5Q21.3) MUTATED                            1
  DEL PEAK  9(5Q21.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK  9(5Q21.3) MUTATED                             228
  DEL PEAK  9(5Q21.3) WILD-TYPE                           507
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK  9(5Q21.3) MUTATED                                4
  DEL PEAK  9(5Q21.3) WILD-TYPE                            162
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK  9(5Q21.3) MUTATED                     5
  DEL PEAK  9(5Q21.3) WILD-TYPE                   0
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK  9(5Q21.3) MUTATED                                  4
  DEL PEAK  9(5Q21.3) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK  9(5Q21.3) MUTATED                    0              9
  DEL PEAK  9(5Q21.3) WILD-TYPE                 14             35
D37V8, multiclass
                                  clus
vv                                 DEL PEAK  9(5Q21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            228
  INFILTRATING LOBULAR CARCINOMA                             4
  MEDULLARY CARCINOMA                                        5
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK  9(5Q21.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              507
  INFILTRATING LOBULAR CARCINOMA                             162
  MEDULLARY CARCINOMA                                          0
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  MUCINOUS CARCINOMA                                          14
  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  9(5Q21.3) MUTATED    80 172
  DEL PEAK  9(5Q21.3) WILD-TYPE 202 541
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(5Q21.3) MUTATED     80  172
  DEL PEAK  9(5Q21.3) WILD-TYPE  202  541
     clus
vv    DEL PEAK  9(5Q21.3) MUTATED DEL PEAK  9(5Q21.3) WILD-TYPE
  NO                           80                           202
  YES                         172                           541
[1] 2 2
[1] FALSE
D37V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK  9(5Q21.3) MUTATED                                  0    17
  DEL PEAK  9(5Q21.3) WILD-TYPE                                1    39
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK  9(5Q21.3) MUTATED                          53   162
  DEL PEAK  9(5Q21.3) WILD-TYPE                        84   546
D37V11, multiclass
                                  clus
vv                                 DEL PEAK  9(5Q21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     17
  BLACK OR AFRICAN AMERICAN                                 53
  WHITE                                                    162
                                  clus
vv                                 DEL PEAK  9(5Q21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       39
  BLACK OR AFRICAN AMERICAN                                   84
  WHITE                                                      546
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V12, binary
                               cls
clus                              0   1
  DEL PEAK  9(5Q21.3) MUTATED     8 207
  DEL PEAK  9(5Q21.3) WILD-TYPE  28 589
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(5Q21.3) MUTATED      8  207
  DEL PEAK  9(5Q21.3) WILD-TYPE   28  589
                        clus
vv                       DEL PEAK  9(5Q21.3) MUTATED
  HISPANIC OR LATINO                               8
  NOT HISPANIC OR LATINO                         207
                        clus
vv                       DEL PEAK  9(5Q21.3) WILD-TYPE
  HISPANIC OR LATINO                                28
  NOT HISPANIC OR LATINO                           589
[1] 2 2
[1] FALSE

Clustering(38) Variable = DEL PEAK 10(6P25.3) MUTATION ANALYSIS
D38V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 10(6P25.3) MUTATED   168  23
  DEL PEAK 10(6P25.3) WILD-TYPE 692  91
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                          191                           783 
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                           23                            91 
$`DEL PEAK 10(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-A25B 
       80.28        27.12        17.52        18.71        20.52        16.31 
TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XW TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A7-A0DA 
       91.92        33.93        49.48         7.30         8.81        35.67 
TCGA-A7-A2KD TCGA-A7-A4SE TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06Y 
       22.32        21.17        12.10        10.29        13.02        26.01 
TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07J TCGA-A8-A082 TCGA-A8-A08G TCGA-A8-A08X 
        1.02         9.01        12.00        18.05        19.96        33.99 
TCGA-A8-A097 TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A6 
       12.00        29.98        15.02         8.98        19.04        21.04 
TCGA-A8-A0A9 TCGA-AC-A23C TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A3BB 
       13.02         0.95        38.20        26.04         0.92         0.99 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A04A 
        1.55         0.07         1.81         0.69         1.74         2.96 
TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03T 
        0.33         0.33         0.33         5.59        80.28        47.87 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A0JJ 
       37.48        20.32        22.36        72.00        26.24        62.04 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TQ 
       70.39        17.79        15.62         2.56        21.86        49.32 
TCGA-AR-A0U1 TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AU TCGA-AR-A24H TCGA-AR-A24K 
       70.16        39.98        43.07        46.32       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A252 
       73.02         0.85        57.40        54.18        51.75        40.64 
TCGA-AR-A256 TCGA-B6-A0I1 TCGA-B6-A0IA TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0WV 
       93.83        77.62       220.90       172.96       162.05        79.63 
TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A401 TCGA-BH-A0AU TCGA-BH-A0B0 TCGA-BH-A0B4 
       21.47       186.48        85.35        24.53        46.95        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0C3 TCGA-BH-A0DL TCGA-BH-A0DP 
       48.36        51.68        25.71        48.13        48.23        15.65 
TCGA-BH-A0E2 TCGA-BH-A0HB TCGA-BH-A0W3 TCGA-BH-A0W7 TCGA-BH-A18T TCGA-BH-A18U 
       14.30        26.50        23.93        44.81         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1FM 
       51.16       113.82        42.28        17.69        89.16        45.63 
TCGA-BH-A1FN TCGA-BH-A208 TCGA-C8-A12O TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A26X 
       72.07        57.83        12.66        11.34        12.03         0.36 
TCGA-C8-A274 TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A145 
        0.03        12.20         0.99         0.23        11.90        13.48 
TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JM 
       19.20        15.78        18.90        12.03        20.09        19.40 
TCGA-D8-A1JP TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XU TCGA-D8-A1Y0 
       21.01        27.58        18.15         2.66        12.99        15.52 
TCGA-D8-A1Y1 TCGA-D8-A27H TCGA-D8-A27M TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C 
        3.81        13.05        13.48        34.42        46.59        40.11 
TCGA-E2-A14R TCGA-E2-A14W TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A155 
       38.60        32.02        25.41        27.12        23.24        21.04 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A1AZ TCGA-E2-A1BD 
       17.29        20.71        21.63        12.92        60.53        17.10 
TCGA-E2-A1IG TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC 
       32.78        27.42        39.62        13.48        36.56        39.55 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1QZ TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB 
       12.59        20.05        11.90         2.76        32.09        20.81 
TCGA-E9-A1RG TCGA-E9-A22E TCGA-E9-A249 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UO 
       21.27        12.89         0.95         0.62        15.72         0.23 
TCGA-EW-A1J1 TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-GI-A2C8 TCGA-GI-A2C9 
       18.90        29.85        29.82        23.11         7.40       109.87 
TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LL-A6FR TCGA-LL-A740 
       53.52        42.28        69.30        11.84         3.88         4.50 
TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5DA TCGA-S3-A6ZG 
        6.21         2.79        12.66        44.61         6.81 

$`DEL PEAK 10(6P25.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        48.10        47.24        20.88 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
        7.96        39.32        28.01        18.21       104.81        18.02 
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-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP 
       36.13       125.59        64.57        24.79       112.08        92.48 
TCGA-A2-A0CR TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
      107.93        64.04        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-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-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD 
        8.38        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-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
       19.33        14.63        31.73        23.77        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-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XX TCGA-A2-A3XY 
       39.65        83.01        29.98        14.07        38.40        34.98 
TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       31.99        38.37         9.01         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
        3.42        38.30        35.31        34.29        35.47        30.61 
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-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-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-A4SF 
       14.70        11.97        14.93        13.74        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY 
       14.73        10.72        11.05         9.37        10.42         8.75 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X 
       13.02         1.02        17.98        41.06        29.03        31.00 
TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
       17.03        53.98        33.01        19.99        18.97        18.97 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R TCGA-A8-A07S 
       14.01        17.03         9.99        10.98         8.98         7.99 
TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 
        9.96         9.99        28.04        15.06        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J 
        0.99        23.08        19.99        18.05        12.00        37.05 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
        9.99        31.00        31.00         0.99        19.07        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 
       40.01        19.07        16.01        17.95        41.98         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        13.02        31.00        33.07 
TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 
        1.02        25.02        15.02         0.99        14.01        12.00 
TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23E 
       19.04        13.02         0.99        17.03        38.04         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-A2FO TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3HN 
       36.99        38.79        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         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y 
        1.32         1.12         1.18         0.43         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-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-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL 
        6.28         6.02         0.36         0.33         0.33         0.33 
TCGA-AN-A0XN 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-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R 
        5.33        47.84        66.77        81.63        84.69        68.75 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 
       59.05        29.13        32.78        21.40        17.65        24.16 
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-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       38.53        55.33        71.80       102.58        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       94.59        96.10        90.58        77.56        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 
        0.53        24.79        26.93       130.09         5.65        13.22 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
        9.99        82.88         5.26        37.41        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
       24.30        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 
       76.18        55.36        75.55        61.84        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        40.83 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24M TCGA-AR-A24N 
       42.58        35.24        36.26        20.22        65.46        68.19 
TCGA-AR-A24O TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W 
       65.69        66.05        62.07        53.26        53.36        50.96 
TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE 
       48.16        56.15        45.17        39.85        34.82       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        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       16.96        20.38        54.74        16.04        20.45        10.59 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59        12.13       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-A0RH 
      110.14       110.93       140.88       211.56        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS 
      234.28        81.17        78.02       102.77       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW 
       89.46       131.21       157.41        97.48       188.68        17.98 
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        82.88        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-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 
       18.05        22.26        19.89        19.20        36.82        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R0 TCGA-E9-A1R2 
       13.12        35.77        21.57         9.86        14.30         0.62 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RD 
        2.10         6.12         1.38        21.21        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 
       34.65         6.58        34.59        35.64        34.13         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-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A24A 
       17.06         0.69         0.85        27.22         1.94        12.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54Y 
        0.72        17.75         0.76        26.07        18.41         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.39         0.26        15.39        12.20        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV 
       18.21        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-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC 
       18.48        30.08         7.86        18.90        19.99         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        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-A2DD TCGA-GM-A2DF 
       10.59        59.57       194.27        53.13        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        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       18.12        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        2.99         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7SZ 
        3.19         3.25         2.63         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RU 
        3.22        15.91         2.10        46.55         7.53        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       24.10        26.20        16.87        14.10        10.29         9.80 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       14.76        23.70        54.51        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
        7.23         4.44         5.29 

  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                       220.90                        234.28 
  DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE 
                        21.14                         21.67 
[1] "0.0 - 220.9 (21.1)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.1"
D38V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 10(6P25.3) MUTATED        11       14        1        0        76
  DEL PEAK 10(6P25.3) WILD-TYPE      69       63        8        9       259
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 10(6P25.3) MUTATED          49         0         28          4
  DEL PEAK 10(6P25.3) WILD-TYPE       175         2        110         23
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 10(6P25.3) MUTATED            5        4         0       2
  DEL PEAK 10(6P25.3) WILD-TYPE         54       13         1      14
D38V3, multiclass
            clus
vv           DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  STAGE I                             11                            69
  STAGE IA                            14                            63
  STAGE IB                             1                             8
  STAGE II                             0                             9
  STAGE IIA                           76                           259
  STAGE IIB                           49                           175
  STAGE III                            0                             2
  STAGE IIIA                          28                           110
  STAGE IIIB                           4                            23
  STAGE IIIC                           5                            54
  STAGE IV                             4                            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 10(6P25.3) MUTATED    43 131  14   6
  DEL PEAK 10(6P25.3) WILD-TYPE 215 450 103  30
D38V4, multiclass
    clus
vv   DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  T1                          43                           215
  T2                         131                           450
  T3                          14                           103
  T4                           6                            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
  DEL PEAK 10(6P25.3) MUTATED    96  67  24   7
  DEL PEAK 10(6P25.3) WILD-TYPE 372 263  87  63
D38V5, multiclass
    clus
vv   DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  N0                          96                           372
  N1                          67                           263
  N2                          24                            87
  N3                           7                            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 10(6P25.3) MUTATED          0 169   4  21
  DEL PEAK 10(6P25.3) WILD-TYPE        2 676  13 110
D38V6, multiclass
          clus
vv         DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               169                           676
  M1                                 4                            13
  MX                                21                           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"
D38V7, binary
                               cls
clus                              0   1
  DEL PEAK 10(6P25.3) MUTATED   190   4
  DEL PEAK 10(6P25.3) WILD-TYPE 794   7
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P25.3) MUTATED    190    4
  DEL PEAK 10(6P25.3) WILD-TYPE  794    7
        clus
vv       DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  FEMALE                         190                           794
  MALE                             4                             7
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 10(6P25.3) MUTATED                            1
  DEL PEAK 10(6P25.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 10(6P25.3) MUTATED                             154
  DEL PEAK 10(6P25.3) WILD-TYPE                           581
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 10(6P25.3) MUTATED                               22
  DEL PEAK 10(6P25.3) WILD-TYPE                            144
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 10(6P25.3) MUTATED                     2
  DEL PEAK 10(6P25.3) WILD-TYPE                   3
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 10(6P25.3) MUTATED                                  4
  DEL PEAK 10(6P25.3) WILD-TYPE                               25
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 10(6P25.3) MUTATED                    2              9
  DEL PEAK 10(6P25.3) WILD-TYPE                 12             35
D38V8, multiclass
                                  clus
vv                                 DEL PEAK 10(6P25.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            154
  INFILTRATING LOBULAR CARCINOMA                            22
  MEDULLARY CARCINOMA                                        2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           4
  MUCINOUS CARCINOMA                                         2
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK 10(6P25.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              581
  INFILTRATING LOBULAR CARCINOMA                             144
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            25
  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"
D38V9, binary
                               cls
clus                              0   1
  DEL PEAK 10(6P25.3) MUTATED    65 129
  DEL PEAK 10(6P25.3) WILD-TYPE 217 584
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P25.3) MUTATED     65  129
  DEL PEAK 10(6P25.3) WILD-TYPE  217  584
     clus
vv    DEL PEAK 10(6P25.3) MUTATED DEL PEAK 10(6P25.3) WILD-TYPE
  NO                           65                           217
  YES                         129                           584
[1] 2 2
[1] FALSE
D38V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 10(6P25.3) MUTATED                                  0    13
  DEL PEAK 10(6P25.3) WILD-TYPE                                1    43
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 10(6P25.3) MUTATED                          32   132
  DEL PEAK 10(6P25.3) WILD-TYPE                       105   576
D38V11, multiclass
                                  clus
vv                                 DEL PEAK 10(6P25.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     13
  BLACK OR AFRICAN AMERICAN                                 32
  WHITE                                                    132
                                  clus
vv                                 DEL PEAK 10(6P25.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       43
  BLACK OR AFRICAN AMERICAN                                  105
  WHITE                                                      576
[1] 4 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 10(6P25.3) MUTATED     5 161
  DEL PEAK 10(6P25.3) WILD-TYPE  31 635
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(6P25.3) MUTATED      5  161
  DEL PEAK 10(6P25.3) WILD-TYPE   31  635
                        clus
vv                       DEL PEAK 10(6P25.3) MUTATED
  HISPANIC OR LATINO                               5
  NOT HISPANIC OR LATINO                         161
                        clus
vv                       DEL PEAK 10(6P25.3) WILD-TYPE
  HISPANIC OR LATINO                                31
  NOT HISPANIC OR LATINO                           635
[1] 2 2
[1] FALSE

Clustering(39) Variable = DEL PEAK 11(6Q15) MUTATION ANALYSIS
D39V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 11(6Q15) MUTATED   289  35
  DEL PEAK 11(6Q15) WILD-TYPE 571  79
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                        324                         650 
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                         35                          79 
$`DEL PEAK 11(6Q15) MUTATED`
TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SN TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04W 
       43.43        14.27        39.32        82.16        22.06        64.04 
TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CT 
       55.43        24.79        88.60       107.93        75.55        75.25 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D4 TCGA-A2-A0EO TCGA-A2-A0ET TCGA-A2-A0SV 
        5.19        63.45        25.22        80.28        35.05        27.12 
TCGA-A2-A0T3 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW 
       18.71        18.90        20.75        23.77        23.47        17.36 
TCGA-A2-A1FX TCGA-A2-A25A TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E 
       36.79       107.70        16.31        17.19        18.15        91.92 
TCGA-A2-A3KD TCGA-A2-A3XS TCGA-A2-A3XW TCGA-A2-A4RY TCGA-A7-A0CD TCGA-A7-A0CJ 
       39.65        33.93        49.48         8.81        38.30        30.61 
TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3J1 TCGA-A7-A426 
       31.73        12.72        20.61        11.34        11.28        11.97 
TCGA-A8-A06O TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 
       13.02         1.02        17.98        26.01         1.02        53.98 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07S 
        9.01        33.01        12.00        17.03        10.98         7.99 
TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
        9.99        18.05        18.05        19.96        12.00        37.05 
TCGA-A8-A08O TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09I 
       31.00        12.00         9.99         1.02        31.00        33.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
       29.98        15.02        25.02         8.98        19.04         0.99 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23G TCGA-AC-A2BK 
       13.02        21.04        13.02        38.04        10.85        38.53 
TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3BB TCGA-AC-A3W5 TCGA-AC-A62Y 
       38.20        26.04         1.02         0.99         1.81         1.81 
TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AL TCGA-AN-A0AS 
        1.74         0.23         2.96         1.78         6.51         0.33 
TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ 
        4.64         7.96         0.33         0.36         0.33         0.33 
TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J3 
        5.59        66.77        68.75        47.87        32.78        21.40 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JE TCGA-AO-A0JG 
       24.16        37.48        20.32        22.36        76.77        26.24 
TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A126 TCGA-AO-A1KQ TCGA-AO-A1KT 
       38.53        62.04        55.33        93.70        61.87        17.79 
TCGA-AQ-A04L TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
      130.09        15.62        13.22         2.56        21.86         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       49.32         5.26        76.14        83.87        76.18        55.36 
TCGA-AR-A1AQ TCGA-AR-A24K TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V 
       43.07        50.89         0.85        57.40        53.26        54.18 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A255 TCGA-B6-A0IJ TCGA-B6-A0RG TCGA-B6-A0RO 
       56.15        40.64        34.82       176.98        68.45       162.05 
TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KN 
      131.21        97.48        79.63       113.79        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-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BM 
       39.16        48.36        37.22        25.71        21.70        61.68 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BW TCGA-BH-A0C3 
       48.69        27.19        53.69        45.57        11.67        48.13 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ 
       31.17        38.01        22.13        48.23        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DX TCGA-BH-A0E2 TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H7 
        2.56        47.41        14.30        24.43        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-A0W7 TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18S 
       44.81         8.81         7.23        90.84        26.66        66.05 
TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EU 
        7.36        51.39        51.16        69.93       113.82        42.28 
TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FJ 
       12.00        31.53        89.16       114.15        33.17        63.35 
TCGA-BH-A1FM TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A28Q TCGA-BH-A42T TCGA-BH-A42V 
       45.63         6.90        38.60         6.44         0.99         8.94 
TCGA-C8-A12M 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-A130 TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HG 
       12.66         3.12         1.78         0.62         3.85        11.34 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A 
        0.36         0.43         8.28         9.67         0.03        12.20 
TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A145 TCGA-D8-A1J9 TCGA-D8-A1JB 
        0.99        11.90        13.25        13.48        17.49        18.71 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1JT TCGA-D8-A1X8 TCGA-D8-A1X9 
       18.15        18.90        18.97        13.32        25.74        23.90 
TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO 
       27.58        18.15        15.22        19.92        17.69         7.96 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 
        6.35        12.99        16.54        15.52         3.81        14.14 
TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10F 
       10.09        13.08        12.26        34.42        46.59        28.87 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A15E TCGA-E2-A15F 
       33.17        33.30        27.12        23.24        20.71        21.63 
TCGA-E2-A15H TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A1AZ TCGA-E2-A1BC TCGA-E2-A1BD 
       12.92        19.56        17.06        60.53        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IL TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG 
       38.30         3.88        39.62        24.59        28.90        18.87 
TCGA-E2-A1LL TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1ND 
       43.04        19.20        36.82        13.48        36.56        12.59 
TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R6 
       35.77        20.05        11.90        14.30         0.62         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
       21.21        32.09        20.81        34.65         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A249 TCGA-E9-A2JS 
       34.59        35.64        13.32        39.09         0.95        17.75 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J2 
       15.72         0.23         0.23        39.72        18.90        13.25 
TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P5 TCGA-EW-A2FW 
       15.68        28.77        29.85        41.13        23.11        22.09 
TCGA-EW-A3E8 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A3XN TCGA-LD-A66U 
       21.27       109.87        53.52        43.04        53.95         8.28 
TCGA-LD-A7W6 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 
        4.60         4.70         3.65         4.50         5.59         6.21 
TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5RZ TCGA-OL-A66L TCGA-OL-A66O TCGA-S3-A6ZG 
        2.79        12.66        10.29        31.07         7.23         6.81 

$`DEL PEAK 11(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       125.59 
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        14.63        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        14.07        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         9.01         8.91        12.00 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
        6.74         3.42        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        41.06 
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         9.96        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        23.08        19.99         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00         0.99        19.07        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B 
       19.07        16.01        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 
       13.02         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         9.40         1.12         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV 
        1.55         1.32         1.55         0.07         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 
        0.69         0.43         0.33         0.33         0.33         0.62 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT 
        1.71         8.02         7.36         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        6.44         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FY 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-A03O TCGA-AO-A03P TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 TCGA-AO-A0J9 
       81.63        84.69        59.05        29.13        17.65        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JM 
       21.53        50.70        50.86        72.00        21.37        71.80 
TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
      102.58        99.25        94.59        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-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 
       82.62        70.39         0.53        24.79        26.93         5.65 
TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
       82.88        37.41        56.88        29.75        24.30        64.83 
TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       55.86        65.36        70.16        75.55        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-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       17.23        40.83        46.32        42.58        35.24        36.26 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        73.02        65.46        68.19        65.69 
TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       66.05        62.07        53.36        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK 
       45.17        39.85        93.83       128.65        20.25        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        17.10        20.81        16.96        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-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-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL 
      110.93       140.88       211.56       189.01       234.28        81.17 
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-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-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KF TCGA-B6-A1KI 
      186.48        28.27        68.94        58.88       101.52        73.51 
TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       54.28        82.88        38.79        20.45        25.55        28.50 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC 
       40.83        39.55        56.94        56.98        51.68        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BO TCGA-BH-A0BS TCGA-BH-A0BV 
       18.21        24.85        44.05        35.67        53.95        49.94 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG 
       49.05        41.75        44.02        42.90        45.83        23.44 
TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 
       13.91        17.26        38.47        45.17        16.27         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-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       31.00        30.35        10.78        37.78        35.51        24.56 
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-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0WA TCGA-BH-A18G 
       12.89         5.59        24.95        42.35        23.05         2.01 
TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
       20.12        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       91.99        82.85        55.69        49.58        17.69        25.81 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       97.48        24.66       120.62        74.73       122.89        36.92 
TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A204 
       55.00        72.07       144.59        72.07         0.72        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42U TCGA-C8-A12L 
       57.83       130.16        10.65        20.12       109.28        11.93 
TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HE 
       11.77        12.66         1.45         0.69         3.75        12.33 
TCGA-C8-A1HF TCGA-C8-A1HI 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-A274 TCGA-C8-A278 TCGA-C8-A3M7 
        3.25         0.30         0.23         0.03         0.03         0.03 
TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 
        0.23        20.88        20.58        13.97        14.17        21.14 
TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG 
       19.20        14.17        16.50        15.78        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       14.01        20.09        20.12        20.09        19.40        20.38 
TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 
       21.01        12.20        14.70        18.58        17.79        16.73 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ 
        2.66        17.16        14.73        21.83        14.50        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y2 
       15.85        16.31        15.16        12.66        15.32        14.24 
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-A27V TCGA-D8-A3Z5 
       16.41        13.48         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-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       38.60        43.33        34.26        32.02        31.96        28.60 
TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       17.03        25.41        19.43        21.04        23.87        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I 
       25.05        23.34        22.82        17.29        18.21        17.42 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15S 
       19.40         9.04        20.58         7.73        13.02        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-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-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
       22.19        20.98        11.08        54.18        27.42        19.66 
TCGA-E2-A1LB TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A2P6 
       40.47       106.75       102.61         8.75        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N8 
       15.72         7.20        18.05        22.26        19.89        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1R4 
       13.12        39.55        21.57         9.86         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        1.38        40.24         0.66        34.13         0.79        12.53 
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-A24A TCGA-E9-A295 TCGA-E9-A2JT 
        0.85        27.22         1.94        12.56         0.72         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE 
       26.07        18.41         0.62         0.39         0.26        15.39 
TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J3 TCGA-EW-A1OV TCGA-EW-A1OW 
       12.20         8.48        18.21        16.57        25.94        22.82 
TCGA-EW-A1OX TCGA-EW-A1OZ TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P4 TCGA-EW-A1P6 
       29.95        40.41        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-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-A2FS 
       10.52        14.43        34.55        19.96        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 
       25.91        17.49        10.16        10.59         7.40        59.57 
TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
      194.27        53.13        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-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       32.28        69.30        57.63        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A74U TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
       11.57         6.67         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        5.56         3.19         3.25         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 
        4.50         3.22        15.91         2.10        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N 
        9.80        14.76        23.70        54.51        33.90        18.21 
TCGA-OL-A66P TCGA-W8-A86G 
        4.44         5.29 

  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                       0.03                        0.03 
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                     176.98                      234.28 
  DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE 
                      21.27                       21.55 
[1] "0.0 - 177.0 (21.3)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.1"
D39V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 11(6Q15) MUTATED        27       24        2        0        98
  DEL PEAK 11(6Q15) WILD-TYPE      53       53        7        9       237
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 11(6Q15) MUTATED          86         0         52         13
  DEL PEAK 11(6Q15) WILD-TYPE       138         2         86         14
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 11(6Q15) MUTATED           15        7         0       4
  DEL PEAK 11(6Q15) WILD-TYPE         44       10         1      12
D39V3, multiclass
            clus
vv           DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  STAGE I                           27                          53
  STAGE IA                          24                          53
  STAGE IB                           2                           7
  STAGE II                           0                           9
  STAGE IIA                         98                         237
  STAGE IIB                         86                         138
  STAGE III                          0                           2
  STAGE IIIA                        52                          86
  STAGE IIIB                        13                          14
  STAGE IIIC                        15                          44
  STAGE IV                           7                          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 11(6Q15) MUTATED    92 187  34  15
  DEL PEAK 11(6Q15) WILD-TYPE 166 394  83  21
D39V4, multiclass
    clus
vv   DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  T1                        92                         166
  T2                       187                         394
  T3                        34                          83
  T4                        15                          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 11(6Q15) MUTATED   137 119  47  20
  DEL PEAK 11(6Q15) WILD-TYPE 331 211  64  50
D39V5, multiclass
    clus
vv   DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  N0                       137                         331
  N1                       119                         211
  N2                        47                          64
  N3                        20                          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 11(6Q15) MUTATED          1 280   7  40
  DEL PEAK 11(6Q15) WILD-TYPE        1 565  10  91
D39V6, multiclass
          clus
vv         DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  CM0 (I+)                         1                           1
  M0                             280                         565
  M1                               7                          10
  MX                              40                          91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V7, binary
                             cls
clus                            0   1
  DEL PEAK 11(6Q15) MUTATED   325   3
  DEL PEAK 11(6Q15) WILD-TYPE 659   8
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q15) MUTATED    325    3
  DEL PEAK 11(6Q15) WILD-TYPE  659    8
        clus
vv       DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  FEMALE                       325                         659
  MALE                           3                           8
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 11(6Q15) MUTATED                            0
  DEL PEAK 11(6Q15) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 11(6Q15) MUTATED                             251
  DEL PEAK 11(6Q15) WILD-TYPE                           484
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 11(6Q15) MUTATED                               45
  DEL PEAK 11(6Q15) WILD-TYPE                            121
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 11(6Q15) MUTATED                     1
  DEL PEAK 11(6Q15) WILD-TYPE                   4
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 11(6Q15) MUTATED                                 12
  DEL PEAK 11(6Q15) WILD-TYPE                               17
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 11(6Q15) MUTATED                    6             13
  DEL PEAK 11(6Q15) WILD-TYPE                  8             31
D39V8, multiclass
                                  clus
vv                                 DEL PEAK 11(6Q15) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          251
  INFILTRATING LOBULAR CARCINOMA                          45
  MEDULLARY CARCINOMA                                      1
  MIXED HISTOLOGY (PLEASE SPECIFY)                        12
  MUCINOUS CARCINOMA                                       6
  OTHER  SPECIFY                                          13
                                  clus
vv                                 DEL PEAK 11(6Q15) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            484
  INFILTRATING LOBULAR CARCINOMA                           121
  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 11(6Q15) MUTATED   103 225
  DEL PEAK 11(6Q15) WILD-TYPE 179 488
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q15) MUTATED    103  225
  DEL PEAK 11(6Q15) WILD-TYPE  179  488
     clus
vv    DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  NO                        103                         179
  YES                       225                         488
[1] 2 2
[1] FALSE
D39V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 11(6Q15) MUTATED                                  0    26
  DEL PEAK 11(6Q15) WILD-TYPE                                1    30
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 11(6Q15) MUTATED                          42   223
  DEL PEAK 11(6Q15) WILD-TYPE                        95   485
D39V11, multiclass
                                  clus
vv                                 DEL PEAK 11(6Q15) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   26
  BLACK OR AFRICAN AMERICAN                               42
  WHITE                                                  223
                                  clus
vv                                 DEL PEAK 11(6Q15) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     30
  BLACK OR AFRICAN AMERICAN                                 95
  WHITE                                                    485
[1] 4 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 11(6Q15) MUTATED    10 260
  DEL PEAK 11(6Q15) WILD-TYPE  26 536
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(6Q15) MUTATED     10  260
  DEL PEAK 11(6Q15) WILD-TYPE   26  536
                        clus
vv                       DEL PEAK 11(6Q15) MUTATED DEL PEAK 11(6Q15) WILD-TYPE
  HISPANIC OR LATINO                            10                          26
  NOT HISPANIC OR LATINO                       260                         536
[1] 2 2
[1] FALSE

Clustering(40) Variable = DEL PEAK 12(6Q27) MUTATION ANALYSIS
D40V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 12(6Q27) MUTATED   307  33
  DEL PEAK 12(6Q27) WILD-TYPE 553  81
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                        340                         634 
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                         33                          81 
$`DEL PEAK 12(6Q27) MUTATED`
TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04R TCGA-A2-A04T 
       43.43        47.24        39.32        28.01        82.16        73.84 
TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CQ TCGA-A2-A0CR 
       22.06        64.04        55.43       125.59        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CX TCGA-A2-A0D4 
       75.55        75.25         5.19        63.45        56.81        25.22 
TCGA-A2-A0EO TCGA-A2-A0ET TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0T4 
       80.28        35.05        27.12        17.52        18.71        20.52 
TCGA-A2-A0T7 TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A25A 
       20.75        18.61        23.77        17.36        36.79       107.70 
TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A3KD TCGA-A2-A3XV 
       16.31        17.19        18.15        91.92        39.65        14.07 
TCGA-A2-A3XW TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S1 TCGA-A7-A0CD TCGA-A7-A0CJ 
       49.48         7.30         8.81        12.00        38.30        30.61 
TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ 
       35.67        31.73        12.72        20.61        11.34        10.59 
TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06R TCGA-A8-A06T 
       11.28        11.97         8.75        13.02        17.98        41.06 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07J 
       26.01         1.02        17.03        53.98         9.01        12.00 
TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A07W TCGA-A8-A08B TCGA-A8-A08G TCGA-A8-A08I 
        8.98         7.99         9.99        23.08        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09E 
       37.05         0.99        12.00         9.99         1.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A4 TCGA-A8-A0A6 
       33.07        29.98         8.98        19.04        13.02        21.04 
TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23G TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A3BB 
        0.99        13.02        10.85        38.53        38.20         0.99 
TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A5XS TCGA-AC-A8OP TCGA-AN-A041 TCGA-AN-A04C 
       14.83         1.81         1.55         1.74         0.23         1.78 
TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FV 
        1.71         0.16         0.33         4.64         7.96         0.33 
TCGA-AN-A0FX TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N 
        0.33         0.33         0.33         5.59        80.28        66.77 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0J7 
       68.75        47.87        32.78        21.40        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 
       22.36        26.24        38.53        62.04        55.33       102.58 
TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP 
       17.79       130.09         2.56        21.86         9.99        82.88 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TW TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
       49.32         5.26        24.30        76.14        83.87        76.18 
TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       46.32        20.22        50.89         0.85        66.05        57.40 
TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 
       53.26        54.18        45.17        40.64        34.82        93.83 
TCGA-AR-A2LO TCGA-AR-A5QQ TCGA-B6-A0IA TCGA-B6-A0IJ TCGA-B6-A0RE TCGA-B6-A0RG 
       20.81        10.59       220.90       176.98       211.56        68.45 
TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      162.05       100.70       131.21        97.48       188.68        79.63 
TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 
      113.79       186.48        43.59       139.17       170.17        85.35 
TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 
       49.94        55.00        24.53        46.95        40.83        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       39.16        48.36        18.21        25.71        24.85        21.70 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BT TCGA-BH-A0BW 
       61.68        35.67        48.69        27.19        45.57        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI 
       49.05        41.75        48.13        31.17        38.01        22.13 
TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB 
       48.23        15.65        15.16        23.08        52.96        26.50 
TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0WA TCGA-BH-A18F 
       51.32        27.25        50.79        23.93        23.05         8.81 
TCGA-BH-A18I TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18V 
        7.23        90.84        26.66        37.55        66.05        51.16 
TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1F2 TCGA-BH-A1F5 
       91.99       113.82        42.28        12.00        31.53        89.16 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A201 TCGA-BH-A42V 
      114.15        33.17        74.73        45.63         6.90         8.94 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U 
       11.93        11.77        12.66        11.77         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A26Y 
       12.66        12.66         0.69         3.85        11.34         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A140 TCGA-D8-A145 
        8.28         9.67        12.20         0.99        13.25        13.48 
TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       19.20        18.71        15.78        18.15        18.90        12.03 
TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XL 
       18.97        20.09        27.58        18.15        15.22        19.92 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1Y0 TCGA-D8-A1Y1 
        7.96        16.41         6.35        12.99        15.52         3.81 
TCGA-D8-A1Y3 TCGA-D8-A27M TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27W TCGA-E2-A107 
       14.14        13.48        10.09        13.08        12.26        34.42 
TCGA-E2-A109 TCGA-E2-A10F TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14Z TCGA-E2-A152 
       46.59        28.87        33.30        34.26        17.03        27.12 
TCGA-E2-A153 TCGA-E2-A158 TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15P 
       23.24        14.79        20.71        21.63        12.92        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1BC TCGA-E2-A1BD 
       17.06        14.07        60.53        53.62        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IL TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE 
       38.30         3.88        39.62        24.59        40.47        28.90 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LL TCGA-E9-A1N4 TCGA-E9-A1N5 
       18.87       106.75       102.61        43.04        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1QZ 
       13.48        12.00        36.56        39.55        35.77        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RF 
       14.30         6.12         2.76        32.09        20.81         6.58 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22G 
       34.59        35.64        13.32        39.09        12.89        23.51 
TCGA-E9-A243 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A2JS TCGA-E9-A3X8 TCGA-E9-A54Y 
       17.06         1.94         0.95        17.75        15.72         0.23 
TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1P0 
        0.23        39.72        18.90        15.68        28.77        41.13 
TCGA-EW-A1P5 TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2DB TCGA-GM-A2DC 
       23.11        21.27        17.49        10.59        53.13        53.52 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A3XL TCGA-GM-A3XN TCGA-JL-A3YW TCGA-LD-A66U 
       43.04        42.71        69.30        53.95        11.84         8.28 
TCGA-LD-A7W6 TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FR TCGA-LL-A740 
        4.60         4.70         3.65         3.19         3.88         4.50 
TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5DA TCGA-OL-A5S0 
        5.59         6.21         2.79        12.66        44.61         9.80 
TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       31.07         7.23         4.44         6.81 

$`DEL PEAK 12(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        14.63        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         9.01         8.91 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
        6.74         3.42        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        33.01 
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         9.96        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        19.99        18.05         9.99        31.00 
TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 
       31.00        19.07        93.04        33.99        40.01        19.07 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D 
       16.01        17.95        41.98         9.99        12.00        13.02 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       15.02         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 
        9.40         1.12         1.68         1.55         1.32         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X 
        1.12         1.81         1.18         0.69         0.43         0.33 
TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.33         0.33         0.62         2.96         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FK TCGA-AN-A0FL 
        6.51         0.33         0.33         6.44         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0XL 
        7.17         6.28         6.02         0.36         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-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03U TCGA-AO-A03V 
        5.33        47.84        81.63        84.69        59.05        29.13 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC 
       17.65        24.16        53.03        21.53        50.70        50.86 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       72.00        76.77        21.37        71.80        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E 
       94.59        96.10        90.58        77.56        64.04        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       70.39         0.53        24.79        26.93         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TY 
       13.22        37.41        56.88        29.75        64.83        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
       65.36        70.16        55.36        75.55        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-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.07        17.23        40.83        42.58        35.24        36.26 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24S 
      109.58        73.02        65.46        68.19        65.69        62.07 
TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 
       53.36        50.96        48.16        51.75        56.15        39.85 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
      128.65        20.25        42.87         7.36        40.04        17.10 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 
       16.96        20.38        54.74        16.04        20.45        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE 
      143.38       149.59        12.13       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-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-A0WW 
      172.96       102.77       140.48        89.46       157.41        17.98 
TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 
       21.47       129.57       129.70        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        82.88        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       25.55        28.50        56.94        56.98        51.68        37.22 
TCGA-BH-A0BC TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 
       32.02        44.05        53.69        53.95        49.94        44.02 
TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DQ 
       42.90        45.83        23.44        13.91        17.26         3.22 
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-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 
       24.49        31.00        24.43        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-A0W7 TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
       44.81         2.01        20.12        72.56        37.74        30.28 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1ET TCGA-BH-A1EW 
       55.63         7.36        51.39        69.93        82.85        55.69 
TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FB 
       49.58        17.69        25.81        97.48        24.66       120.62 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 
       72.07         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-C8-A12N 
       10.65         6.44        20.12         0.99       109.28        11.77 
TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A138 
       12.66         3.12         1.78         1.45         0.62         3.75 
TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
       12.33        10.92        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-A274 
        2.30         3.25         0.30         0.23         0.36         0.03 
TCGA-C8-A275 TCGA-C8-A278 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-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-A1JF TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM 
       16.50        12.03        14.01        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-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD 
       17.79        16.73        25.74        23.90         2.66        17.16 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XR TCGA-D8-A1XS 
       14.73        21.83        14.50        17.69        15.85        16.31 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27E 
       15.16        12.66        16.54        15.32        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-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-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       43.00        27.52        40.41        37.51        40.11        28.44 
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-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A154 
       43.33        32.02        31.96        28.60        25.41        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        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-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 
       13.02        14.99        53.03        29.95        32.35        28.50 
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-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
       22.19        20.98        11.08        54.18        27.42        19.66 
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        18.05 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N9 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG 
       22.26        19.89        13.12        12.59        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RC 
        9.86         0.62         2.10         1.38        21.21        40.24 
TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        0.66        34.65        21.27        34.13         0.79        12.53 
TCGA-E9-A22B TCGA-E9-A22H TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A24A 
       22.75        24.10         0.69         0.85        27.22        12.56 
TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A5FK 
        0.72         0.76        26.07        18.41         0.62         0.39 
TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 
        0.26        15.39        12.20         8.48        18.21        13.25 
TCGA-EW-A1J3 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1OZ 
       16.57        25.94        22.82        29.95        29.85        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-A2FW 
       34.55        19.96        55.00        52.73        25.91        22.09 
TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DH 
       10.16         7.40       109.87        59.57       194.27        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-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX 
      110.50        38.20        32.28        57.63        13.55        18.12 
TCGA-JL-A3YX TCGA-LD-A74U TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
       11.57         6.67         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7T0 
        5.56         3.25         2.63         4.14         4.50         3.22 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5RU TCGA-OL-A5RV 
       15.91         2.10        46.55         7.53        27.65        24.10 
TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
       26.20        16.87        14.10        10.29        14.76        23.70 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N TCGA-W8-A86G 
       54.51        33.90        18.21         5.29 

  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                     220.90                      234.28 
  DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE 
                     21.665                      21.320 
[1] "0.1 - 220.9 (21.7)" "0.0 - 234.3 (21.3)"
[1] "hr=" "1.4"
D40V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 12(6Q27) MUTATED        29       23        2        1       118
  DEL PEAK 12(6Q27) WILD-TYPE      51       54        7        8       217
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 12(6Q27) MUTATED          89         0         50         10
  DEL PEAK 12(6Q27) WILD-TYPE       135         2         88         17
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 12(6Q27) MUTATED           12        6         0       6
  DEL PEAK 12(6Q27) WILD-TYPE         47       11         1      10
D40V3, multiclass
            clus
vv           DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  STAGE I                           29                          51
  STAGE IA                          23                          54
  STAGE IB                           2                           7
  STAGE II                           1                           8
  STAGE IIA                        118                         217
  STAGE IIB                         89                         135
  STAGE III                          0                           2
  STAGE IIIA                        50                          88
  STAGE IIIB                        10                          17
  STAGE IIIC                        12                          47
  STAGE IV                           6                          11
  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 12(6Q27) MUTATED    91 207  35  12
  DEL PEAK 12(6Q27) WILD-TYPE 167 374  82  24
D40V4, multiclass
    clus
vv   DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  T1                        91                         167
  T2                       207                         374
  T3                        35                          82
  T4                        12                          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 12(6Q27) MUTATED   155 130  42  15
  DEL PEAK 12(6Q27) WILD-TYPE 313 200  69  55
D40V5, multiclass
    clus
vv   DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  N0                       155                         313
  N1                       130                         200
  N2                        42                          69
  N3                        15                          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 12(6Q27) MUTATED          1 302   6  37
  DEL PEAK 12(6Q27) WILD-TYPE        1 543  11  94
D40V6, multiclass
          clus
vv         DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  CM0 (I+)                         1                           1
  M0                             302                         543
  M1                               6                          11
  MX                              37                          94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V7, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q27) MUTATED   344   2
  DEL PEAK 12(6Q27) WILD-TYPE 640   9
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q27) MUTATED    344    2
  DEL PEAK 12(6Q27) WILD-TYPE  640    9
        clus
vv       DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  FEMALE                       344                         640
  MALE                           2                           9
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 12(6Q27) MUTATED                            0
  DEL PEAK 12(6Q27) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 12(6Q27) MUTATED                             268
  DEL PEAK 12(6Q27) WILD-TYPE                           467
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 12(6Q27) MUTATED                               47
  DEL PEAK 12(6Q27) WILD-TYPE                            119
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 12(6Q27) MUTATED                     1
  DEL PEAK 12(6Q27) WILD-TYPE                   4
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 12(6Q27) MUTATED                                 10
  DEL PEAK 12(6Q27) WILD-TYPE                               19
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 12(6Q27) MUTATED                    6             13
  DEL PEAK 12(6Q27) WILD-TYPE                  8             31
D40V8, multiclass
                                  clus
vv                                 DEL PEAK 12(6Q27) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          268
  INFILTRATING LOBULAR CARCINOMA                          47
  MEDULLARY CARCINOMA                                      1
  MIXED HISTOLOGY (PLEASE SPECIFY)                        10
  MUCINOUS CARCINOMA                                       6
  OTHER  SPECIFY                                          13
                                  clus
vv                                 DEL PEAK 12(6Q27) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            467
  INFILTRATING LOBULAR CARCINOMA                           119
  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 12(6Q27) MUTATED   112 234
  DEL PEAK 12(6Q27) WILD-TYPE 170 479
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q27) MUTATED    112  234
  DEL PEAK 12(6Q27) WILD-TYPE  170  479
     clus
vv    DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  NO                        112                         170
  YES                       234                         479
[1] 2 2
[1] FALSE
D40V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 12(6Q27) MUTATED                                  0    23
  DEL PEAK 12(6Q27) WILD-TYPE                                1    33
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 12(6Q27) MUTATED                          45   243
  DEL PEAK 12(6Q27) WILD-TYPE                        92   465
D40V11, multiclass
                                  clus
vv                                 DEL PEAK 12(6Q27) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   23
  BLACK OR AFRICAN AMERICAN                               45
  WHITE                                                  243
                                  clus
vv                                 DEL PEAK 12(6Q27) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     33
  BLACK OR AFRICAN AMERICAN                                 92
  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"
D40V12, binary
                             cls
clus                            0   1
  DEL PEAK 12(6Q27) MUTATED     9 279
  DEL PEAK 12(6Q27) WILD-TYPE  27 517
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q27) MUTATED      9  279
  DEL PEAK 12(6Q27) WILD-TYPE   27  517
                        clus
vv                       DEL PEAK 12(6Q27) MUTATED DEL PEAK 12(6Q27) WILD-TYPE
  HISPANIC OR LATINO                             9                          27
  NOT HISPANIC OR LATINO                       279                         517
[1] 2 2
[1] FALSE

Clustering(41) Variable = DEL PEAK 13(7P22.3) MUTATION ANALYSIS
D41V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 13(7P22.3) MUTATED   115  15
  DEL PEAK 13(7P22.3) WILD-TYPE 745  99
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                          130                           844 
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                           15                            99 
$`DEL PEAK 13(7P22.3) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A0CM TCGA-A2-A0CT 
       31.79        28.01        73.84        22.06        24.79        75.25 
TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ET 
       64.04        21.14        34.55        25.22        79.76        35.05 
TCGA-A2-A0SX TCGA-A2-A0T3 TCGA-A2-A0YT TCGA-A2-A1G1 TCGA-A2-A3XW TCGA-A2-A3Y0 
       50.43        18.71        23.77        19.20        49.48        38.37 
TCGA-A2-A4RX TCGA-A7-A0CD TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A13G TCGA-A7-A26I 
        9.01        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 
       33.01        18.97        14.01         8.98        23.08        18.05 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08S TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A09K 
       12.00         9.99        19.07        19.07        16.01        29.98 
TCGA-A8-A09M TCGA-AC-A23E TCGA-AC-A62X TCGA-AN-A04C TCGA-AN-A0FY TCGA-AN-A0FZ 
       15.02         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        17.65        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        24.30 
TCGA-AR-A0U4 TCGA-AR-A1AQ TCGA-AR-A24Q TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK 
       55.36        43.07        66.05        34.82        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-EW-A1J6 TCGA-EW-A1OW TCGA-GI-A2C9 TCGA-GM-A2DH 
        0.23         0.26        28.77        22.82       109.87        42.28 
TCGA-GM-A3XL TCGA-LL-A5YP TCGA-LL-A7T0 TCGA-S3-A6ZG 
       69.30         3.25         3.22         6.81 

$`DEL PEAK 13(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       125.59        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        14.63        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-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW 
       29.98        14.07        38.40        34.98        31.99         7.30 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE 
        8.81         8.91        12.00         6.74         3.42        35.31 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E 
       34.29        35.47        37.45        33.11        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H 
       12.72        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-A6VY TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06X 
        9.37         8.75        13.02        17.98        41.06        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A07E TCGA-A8-A07F 
       26.01         1.02        17.03        53.98        19.99        18.97 
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         9.96 
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-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P 
        0.99        19.99        19.96        37.05        31.00        31.00 
TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A093 TCGA-A8-A095 
        0.99        93.04        33.99        40.01        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        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       31.00        33.07         1.02        25.02         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-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-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83         9.40 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12         1.81         1.68         1.55         1.32         1.55 
TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
        0.07         1.81         1.18         0.69         0.43         1.74 
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-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-A0FT TCGA-AN-A0FV TCGA-AN-A0FW 
        7.59         7.17         6.28         6.02         0.33         0.36 
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-A0XT 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-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-A0JL TCGA-AO-A0JM TCGA-AO-A124 
       26.24        38.53        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        93.70        94.59        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-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       70.39        17.79        24.79         5.65        15.62        13.22 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS 
       21.86         9.99        82.88        49.32         5.26        37.41 
TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       56.88        64.83        55.86        76.14        65.36        70.16 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       83.87        76.18        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-A1AR 
       48.82        62.56        43.73        43.56        39.98        17.23 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       40.83        46.32        42.58        35.24        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
      109.58        50.89        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85        57.40        62.07        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       50.96        48.16        51.75        56.15        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
       39.85       128.65        20.25         7.36        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        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-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-A0RE TCGA-B6-A0RH TCGA-B6-A0RI 
       84.59       110.14       110.93       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-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 
       17.98        21.47       129.57       129.70        28.27        68.94 
TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B 
       43.59       101.52        73.51       170.17        85.35        82.88 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       55.00        24.53        38.79        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 
       46.95        39.55        39.16        48.36        56.94        56.98 
TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ 
       51.68        37.22        32.02        18.21        25.71        21.70 
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-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 
       45.57        49.94        49.05        41.75        44.02        48.13 
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-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-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-A0W7 TCGA-BH-A0WA 
        5.59        23.93        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-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
       37.74        30.28        55.63        37.55        66.05         7.36 
TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
       69.93        91.99       113.82        82.85        42.28        12.00 
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-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-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-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-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-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-A134 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.69         0.62         3.75        12.33        10.92        11.34 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 
        0.30         0.23         0.36         9.67         0.03         0.03 
TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 
       12.20         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-A1J8 
       20.58        13.97        14.17        13.48        21.14        14.17 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JH 
       16.50        18.71        15.78        12.03        12.03        14.01 
TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS 
       18.97        20.12        20.09        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-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ 
       23.90         2.66        17.16        15.22        14.73        21.83 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       19.92        17.69         7.96        15.85        16.31         6.35 
TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       12.99        15.16        16.54        15.32        15.52         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-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-A107 
       12.53        12.26        14.50        18.51         7.33        34.42 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       27.52        46.59        40.41        37.51        40.11        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-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-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        25.05        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-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-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-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-A56Z TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 
        5.52        15.72         7.20        18.05        22.26        19.89 
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        12.56         0.72        17.75         0.76 
TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5UO 
       26.07        18.41         0.62        15.72         0.39         0.23 
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-A1P4 TCGA-EW-A1P5 
       40.41        41.13        39.78        52.96        29.82        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PC 
       18.48        30.08         7.86        18.90        19.99         6.15 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FR 
       13.94        10.52        14.43        34.55        19.96        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-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-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-A3XN 
       77.33        53.36       110.50        38.20        32.28        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U 
       57.63        13.55        18.12        11.84        11.57         8.28 
TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        6.67         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR 
        5.56         4.70         3.65         3.19         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 TCGA-LQ-A4E4 
        4.14         4.50         4.50         5.59         6.21        15.91 
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         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        24.10        26.20        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
        9.80        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       18.21         7.23         4.44         5.29 

  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                       186.48                        234.28 
  DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE 
                        22.95                         21.24 
[1] "0.0 - 186.5 (22.9)" "0.0 - 234.3 (21.2)"
[1] "hr=" "1"  
D41V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 13(7P22.3) MUTATED        10        7        2        0        53
  DEL PEAK 13(7P22.3) WILD-TYPE      70       70        7        9       282
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 13(7P22.3) MUTATED          30         1         17          4
  DEL PEAK 13(7P22.3) WILD-TYPE       194         1        121         23
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 13(7P22.3) MUTATED            4        2         0       2
  DEL PEAK 13(7P22.3) WILD-TYPE         55       15         1      14
D41V3, multiclass
            clus
vv           DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  STAGE I                             10                            70
  STAGE IA                             7                            70
  STAGE IB                             2                             7
  STAGE II                             0                             9
  STAGE IIA                           53                           282
  STAGE IIB                           30                           194
  STAGE III                            1                             1
  STAGE IIIA                          17                           121
  STAGE IIIB                           4                            23
  STAGE IIIC                           4                            55
  STAGE IV                             2                            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
  DEL PEAK 13(7P22.3) MUTATED    26  88  14   4
  DEL PEAK 13(7P22.3) WILD-TYPE 232 493 103  32
D41V4, multiclass
    clus
vv   DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  T1                          26                           232
  T2                          88                           493
  T3                          14                           103
  T4                           4                            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 13(7P22.3) MUTATED    71  36  18   5
  DEL PEAK 13(7P22.3) WILD-TYPE 397 294  93  65
D41V5, multiclass
    clus
vv   DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  N0                          71                           397
  N1                          36                           294
  N2                          18                            93
  N3                           5                            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"
                               vv
clus                            CM0 (I+)  M0  M1  MX
  DEL PEAK 13(7P22.3) MUTATED          0 120   2  10
  DEL PEAK 13(7P22.3) WILD-TYPE        2 725  15 121
D41V6, multiclass
          clus
vv         DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               120                           725
  M1                                 2                            15
  MX                                10                           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"
D41V7, binary
                               cls
clus                              0   1
  DEL PEAK 13(7P22.3) MUTATED   132   0
  DEL PEAK 13(7P22.3) WILD-TYPE 852  11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7P22.3) MUTATED    132    0
  DEL PEAK 13(7P22.3) WILD-TYPE  852   11
        clus
vv       DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  FEMALE                         132                           852
  MALE                             0                            11
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 13(7P22.3) MUTATED                            0
  DEL PEAK 13(7P22.3) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 13(7P22.3) MUTATED                             120
  DEL PEAK 13(7P22.3) WILD-TYPE                           615
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 13(7P22.3) MUTATED                                3
  DEL PEAK 13(7P22.3) WILD-TYPE                            163
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 13(7P22.3) MUTATED                     0
  DEL PEAK 13(7P22.3) WILD-TYPE                   5
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 13(7P22.3) MUTATED                                  3
  DEL PEAK 13(7P22.3) WILD-TYPE                               26
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 13(7P22.3) MUTATED                    0              6
  DEL PEAK 13(7P22.3) WILD-TYPE                 14             38
D41V8, multiclass
                                  clus
vv                                 DEL PEAK 13(7P22.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            120
  INFILTRATING LOBULAR CARCINOMA                             3
  MEDULLARY CARCINOMA                                        0
  MIXED HISTOLOGY (PLEASE SPECIFY)                           3
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             6
                                  clus
vv                                 DEL PEAK 13(7P22.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              615
  INFILTRATING LOBULAR CARCINOMA                             163
  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"
D41V9, binary
                               cls
clus                              0   1
  DEL PEAK 13(7P22.3) MUTATED    39  93
  DEL PEAK 13(7P22.3) WILD-TYPE 243 620
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7P22.3) MUTATED     39   93
  DEL PEAK 13(7P22.3) WILD-TYPE  243  620
     clus
vv    DEL PEAK 13(7P22.3) MUTATED DEL PEAK 13(7P22.3) WILD-TYPE
  NO                           39                           243
  YES                          93                           620
[1] 2 2
[1] FALSE
D41V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 13(7P22.3) MUTATED                                  0     8
  DEL PEAK 13(7P22.3) WILD-TYPE                                1    48
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 13(7P22.3) MUTATED                          22    84
  DEL PEAK 13(7P22.3) WILD-TYPE                       115   624
D41V11, multiclass
                                  clus
vv                                 DEL PEAK 13(7P22.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                      8
  BLACK OR AFRICAN AMERICAN                                 22
  WHITE                                                     84
                                  clus
vv                                 DEL PEAK 13(7P22.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       48
  BLACK OR AFRICAN AMERICAN                                  115
  WHITE                                                      624
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V12, binary
                               cls
clus                              0   1
  DEL PEAK 13(7P22.3) MUTATED     3 105
  DEL PEAK 13(7P22.3) WILD-TYPE  33 691
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(7P22.3) MUTATED      3  105
  DEL PEAK 13(7P22.3) WILD-TYPE   33  691
                        clus
vv                       DEL PEAK 13(7P22.3) MUTATED
  HISPANIC OR LATINO                               3
  NOT HISPANIC OR LATINO                         105
                        clus
vv                       DEL PEAK 13(7P22.3) WILD-TYPE
  HISPANIC OR LATINO                                33
  NOT HISPANIC OR LATINO                           691
[1] 2 2
[1] FALSE

Clustering(42) Variable = DEL PEAK 14(7Q36.1) MUTATION ANALYSIS
D42V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 14(7Q36.1) MUTATED   163  22
  DEL PEAK 14(7Q36.1) WILD-TYPE 697  92
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                          185                           789 
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                           22                            92 
$`DEL PEAK 14(7Q36.1) MUTATED`
TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CT 
       39.32        28.01        22.06        55.43        24.79        75.25 
TCGA-A2-A0D4 TCGA-A2-A0ET TCGA-A2-A0T7 TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW 
       25.22        35.05        20.75        31.73        23.77        17.36 
TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A25C TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A7-A0CD 
       20.25        19.20        17.19         7.30         9.01        38.30 
TCGA-A7-A13G TCGA-A7-A26G TCGA-A7-A3IZ TCGA-A7-A4SD TCGA-A7-A6VV TCGA-A7-A6VX 
       23.61        23.74        10.59        14.50        10.29        10.42 
TCGA-A8-A06O TCGA-A8-A06U TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G 
       13.02        29.03        17.03        53.98         9.01        18.97 
TCGA-A8-A07I TCGA-A8-A08B TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A092 
       14.01        23.08        31.00        19.07        33.99        16.01 
TCGA-A8-A099 TCGA-A8-A09I TCGA-A8-A09Q TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 
        9.99        33.07        25.02         0.99        12.00        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A2BK TCGA-AC-A2FM TCGA-AC-A2QH 
       13.02        13.02         2.37        38.53        26.04         1.02 
TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT 
        0.62         1.78         8.02         0.16         0.33         0.33 
TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XN 
        6.02         0.33         0.36         0.33         0.33         0.33 
TCGA-AN-A0XS TCGA-AO-A03L TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0JD TCGA-AO-A0JE 
        0.33        80.28        32.78        20.32        72.00        76.77 
TCGA-AO-A0JM TCGA-AO-A12D TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H2 
       71.80        64.04         0.53        26.93       130.09        15.62 
TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AR TCGA-AR-A24H TCGA-AR-A24W 
       83.87        55.36        75.55        17.23       109.58        50.96 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-B6-A0I9 TCGA-B6-A0IC TCGA-B6-A0IJ 
       34.82        93.83        42.87        12.13        50.70       176.98 
TCGA-B6-A0IO TCGA-B6-A0RS TCGA-B6-A0WY TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AZ 
      110.14       100.70       113.79        49.94        38.79        28.50 
TCGA-BH-A0B2 TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BW TCGA-BH-A0DI TCGA-BH-A0DX 
       40.83        24.85        21.70        11.67        22.13        47.41 
TCGA-BH-A0DZ TCGA-BH-A0E2 TCGA-BH-A0EB TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18L 
       16.27        14.30        24.49        44.81         8.81        26.66 
TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EU TCGA-BH-A1EV 
       55.63         7.36        51.39        51.16        42.28        12.00 
TCGA-BH-A1FN TCGA-BH-A203 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12W TCGA-C8-A135 
       72.07        38.60         0.99        11.93        12.66         0.62 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HJ TCGA-C8-A1HM TCGA-C8-A26X TCGA-C8-A27B 
        3.75        10.92         0.16         2.30         0.36         0.99 
TCGA-D8-A143 TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JJ 
       14.17        16.50        18.15        18.90        12.03        20.09 
TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XJ TCGA-D8-A1XK 
       14.70        18.58        27.58        18.15        21.83        14.50 
TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-E2-A109 TCGA-E2-A14N TCGA-E2-A14R 
       17.69        16.41        12.99        46.59        47.15        38.60 
TCGA-E2-A14W TCGA-E2-A15A TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A1B0 TCGA-E2-A1BC 
       32.02        23.34        12.92         7.73        53.62        16.47 
TCGA-E2-A1IE TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LB TCGA-E9-A1N6 
       38.30        33.70        27.42        39.62        40.47        13.48 
TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 
       36.56        39.55        35.77         2.10         6.12         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A22B TCGA-E9-A22E 
       21.21        40.24         6.58        21.27        22.75        12.89 
TCGA-E9-A244 TCGA-E9-A24A TCGA-E9-A3HO TCGA-E9-A54Y TCGA-EW-A1IY TCGA-EW-A1P0 
        0.69        12.56        26.07         0.23         8.48        41.13 
TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-GI-A2C9 
        6.15        13.94        25.91        22.09        17.49       109.87 
TCGA-GM-A2D9 TCGA-GM-A2DD TCGA-GM-A2DH TCGA-GM-A2DI TCGA-LL-A5YP TCGA-LL-A7SZ 
       59.57        43.04        42.28        61.91         3.25         5.59 
TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A66I TCGA-OL-A66P TCGA-S3-A6ZG 
       26.20        14.10        23.70         4.44         6.81 

$`DEL PEAK 14(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       125.59        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        14.63        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        14.07        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         8.81         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
        3.42        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        41.06        31.00        26.01         1.02        33.01 
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         9.96         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        19.99        18.05 
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        19.07        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        13.02        31.00        29.98 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A09X 
       15.02         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         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
        1.32         1.55         0.07         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        0.69         0.43         1.74         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AR 
        0.33         2.96         1.71         7.36         6.51         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-A0FX TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR 
        6.28         0.33         0.33        12.33         0.30         0.33 
TCGA-AN-A0XT 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-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0J9 
       21.40        17.65        24.16        37.48        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       21.53        50.70        50.86        21.37        26.24        38.53 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       62.04        55.33       102.58        99.25        93.70        94.59 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       96.10        90.58        77.56        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-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 
       24.79         5.65        13.22         2.56        21.86         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
       82.88        49.32         5.26        37.41        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
       24.30        64.83        55.86        76.14        65.36        70.16 
TCGA-AR-A0U3 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       76.18        61.84        52.77        51.25        48.82        62.56 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AU 
       43.73        43.56        39.98        43.07        40.83        46.32 
TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L 
       42.58        35.24        36.26        20.22        50.89        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       65.46        68.19        65.69         0.85        66.05        57.40 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A24Z 
       62.07        53.26        53.36        54.18        48.16        51.75 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH 
       56.15        45.17        40.64        39.85       128.65        20.25 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
        7.36        40.04        17.10        20.81        16.96        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-A0IB TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH 
      149.59       220.90       129.57        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-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-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WZ 
       97.48       188.68        79.63        17.98        21.47       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-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-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 
       82.88        55.00        24.53        20.45        25.55        46.95 
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-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-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-A0DK TCGA-BH-A0DL 
       45.83        31.17        23.44        38.01        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-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
        4.41        15.68         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-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB 
       35.51        24.56        23.08        41.00        52.96        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-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-A0WA TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K 
       42.35        23.05         2.01         7.23        20.12        90.84 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN 
       72.56        37.74        30.28        37.55        66.05        69.93 
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-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-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-A1FU TCGA-BH-A201 TCGA-BH-A202 
       55.00        45.63       144.59        72.07         6.90         0.72 
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-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
      109.28         8.94        11.77        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V 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-A1HG TCGA-C8-A1HI 
        1.45         0.69         3.85        12.33        11.34        11.34 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Y 
       12.03        10.42         3.25         0.30         0.23         0.43 
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-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.23        11.90        20.88        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 
       13.97        13.48        21.14        19.20        14.17        17.49 
TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK 
       18.71        15.78        12.03        14.01        18.97        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-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD 
       17.79        16.73        25.74        23.90         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS 
       15.22        14.73        19.92         7.96        15.85        16.31 
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-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-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-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-A14O TCGA-E2-A14P 
       37.51        40.11        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-A14X 
       38.24        33.17        33.30        43.33        34.26        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-A159 TCGA-E2-A15C TCGA-E2-A15D 
       21.04        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-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T 
       20.58        13.02        19.56        17.06        14.07        14.99 
TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BD 
       60.53        53.03        29.95        32.35        28.50        17.10 
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-A1L9 TCGA-E2-A1LA 
       22.19        20.98        11.08        54.18        19.66        24.59 
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        18.05        22.26 
TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1ND 
       19.89        19.20        36.82        12.00        13.12        12.59 
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-A1R5 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RH 
        1.38        32.09        20.81         0.66        34.65        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-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       23.51        24.10        17.06         0.85        27.22         1.94 
TCGA-E9-A249 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA 
        0.95         0.72        17.75         0.76        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       15.72         0.39         0.26         0.23        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 
       32.28        69.30        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       11.84        11.57         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        2.99         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
        3.19         2.63         3.88         4.14         4.50         4.50 
TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 
        3.22         6.21        15.91         2.79         2.10        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       46.55         7.53        44.61        27.65        24.10        16.87 
TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       10.29         9.80        14.76        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-W8-A86G 
       18.21         7.23         5.29 

  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                         0.16                          0.03 
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                       176.98                        234.28 
  DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE 
                        20.32                         21.63 
[1] "0.2 - 177.0 (20.3)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.4"
D42V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 14(7Q36.1) MUTATED        16        9        2        1        70
  DEL PEAK 14(7Q36.1) WILD-TYPE      64       68        7        8       265
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 14(7Q36.1) MUTATED          43         1         32          5
  DEL PEAK 14(7Q36.1) WILD-TYPE       181         1        106         22
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 14(7Q36.1) MUTATED            8        1         0       3
  DEL PEAK 14(7Q36.1) WILD-TYPE         51       16         1      13
D42V3, multiclass
            clus
vv           DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  STAGE I                             16                            64
  STAGE IA                             9                            68
  STAGE IB                             2                             7
  STAGE II                             1                             8
  STAGE IIA                           70                           265
  STAGE IIB                           43                           181
  STAGE III                            1                             1
  STAGE IIIA                          32                           106
  STAGE IIIB                           5                            22
  STAGE IIIC                           8                            51
  STAGE IV                             1                            16
  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 14(7Q36.1) MUTATED    40 124  19   8
  DEL PEAK 14(7Q36.1) WILD-TYPE 218 457  98  28
D42V4, multiclass
    clus
vv   DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  T1                          40                           218
  T2                         124                           457
  T3                          19                            98
  T4                           8                            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 14(7Q36.1) MUTATED    91  58  28  11
  DEL PEAK 14(7Q36.1) WILD-TYPE 377 272  83  59
D42V5, multiclass
    clus
vv   DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  N0                          91                           377
  N1                          58                           272
  N2                          28                            83
  N3                          11                            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 14(7Q36.1) MUTATED          1 166   1  23
  DEL PEAK 14(7Q36.1) WILD-TYPE        1 679  16 108
D42V6, multiclass
          clus
vv         DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               166                           679
  M1                                 1                            16
  MX                                23                           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"
D42V7, binary
                               cls
clus                              0   1
  DEL PEAK 14(7Q36.1) MUTATED   189   2
  DEL PEAK 14(7Q36.1) WILD-TYPE 795   9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(7Q36.1) MUTATED    189    2
  DEL PEAK 14(7Q36.1) WILD-TYPE  795    9
        clus
vv       DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  FEMALE                         189                           795
  MALE                             2                             9
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 14(7Q36.1) MUTATED                            0
  DEL PEAK 14(7Q36.1) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 14(7Q36.1) MUTATED                             161
  DEL PEAK 14(7Q36.1) WILD-TYPE                           574
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 14(7Q36.1) MUTATED                               15
  DEL PEAK 14(7Q36.1) WILD-TYPE                            151
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 14(7Q36.1) MUTATED                     0
  DEL PEAK 14(7Q36.1) WILD-TYPE                   5
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 14(7Q36.1) MUTATED                                  6
  DEL PEAK 14(7Q36.1) WILD-TYPE                               23
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 14(7Q36.1) MUTATED                    0              9
  DEL PEAK 14(7Q36.1) WILD-TYPE                 14             35
D42V8, multiclass
                                  clus
vv                                 DEL PEAK 14(7Q36.1) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            161
  INFILTRATING LOBULAR CARCINOMA                            15
  MEDULLARY CARCINOMA                                        0
  MIXED HISTOLOGY (PLEASE SPECIFY)                           6
  MUCINOUS CARCINOMA                                         0
  OTHER  SPECIFY                                             9
                                  clus
vv                                 DEL PEAK 14(7Q36.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              574
  INFILTRATING LOBULAR CARCINOMA                             151
  MEDULLARY CARCINOMA                                          5
  MIXED HISTOLOGY (PLEASE SPECIFY)                            23
  MUCINOUS CARCINOMA                                          14
  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 14(7Q36.1) MUTATED    54 137
  DEL PEAK 14(7Q36.1) WILD-TYPE 228 576
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(7Q36.1) MUTATED     54  137
  DEL PEAK 14(7Q36.1) WILD-TYPE  228  576
     clus
vv    DEL PEAK 14(7Q36.1) MUTATED DEL PEAK 14(7Q36.1) WILD-TYPE
  NO                           54                           228
  YES                         137                           576
[1] 2 2
[1] FALSE
D42V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 14(7Q36.1) MUTATED                                  0    13
  DEL PEAK 14(7Q36.1) WILD-TYPE                                1    43
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 14(7Q36.1) MUTATED                          27   127
  DEL PEAK 14(7Q36.1) WILD-TYPE                       110   581
D42V11, multiclass
                                  clus
vv                                 DEL PEAK 14(7Q36.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     13
  BLACK OR AFRICAN AMERICAN                                 27
  WHITE                                                    127
                                  clus
vv                                 DEL PEAK 14(7Q36.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       43
  BLACK OR AFRICAN AMERICAN                                  110
  WHITE                                                      581
[1] 4 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 14(7Q36.1) MUTATED     4 152
  DEL PEAK 14(7Q36.1) WILD-TYPE  32 644
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(7Q36.1) MUTATED      4  152
  DEL PEAK 14(7Q36.1) WILD-TYPE   32  644
                        clus
vv                       DEL PEAK 14(7Q36.1) MUTATED
  HISPANIC OR LATINO                               4
  NOT HISPANIC OR LATINO                         152
                        clus
vv                       DEL PEAK 14(7Q36.1) WILD-TYPE
  HISPANIC OR LATINO                                32
  NOT HISPANIC OR LATINO                           644
[1] 2 2
[1] FALSE

Clustering(43) Variable = DEL PEAK 15(8P23.2) MUTATION ANALYSIS
D43V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 15(8P23.2) MUTATED   437  72
  DEL PEAK 15(8P23.2) WILD-TYPE 423  42
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                          509                           465 
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                           72                            42 
$`DEL PEAK 15(8P23.2) MUTATED`
TCGA-A1-A0SG TCGA-A1-A0SI TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP 
       14.27        20.88        31.79        39.32        28.01        19.20 
TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04X 
      104.81        18.02        41.95        73.84        22.06        55.43 
TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D0 
       64.57       112.08        92.48         5.19        64.04        21.14 
TCGA-A2-A0D1 TCGA-A2-A0D4 TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0EU TCGA-A2-A0EV 
       34.55        25.22        79.76        74.40        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T0 TCGA-A2-A0T1 
       29.75        24.72        27.12        50.43        17.52        17.13 
TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YM 
       18.71        20.75        21.67        18.61        19.33        31.73 
TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G4 TCGA-A2-A259 TCGA-A2-A25D 
       23.77        17.36        36.79        19.56        52.47        18.15 
TCGA-A2-A25E TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XY TCGA-A2-A3XZ 
       91.92        33.93        83.01        29.98        34.98        31.99 
TCGA-A2-A4RW TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA 
        7.30         3.42        35.31        30.61        37.45        35.67 
TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD 
       31.73        10.72        23.74        23.80        20.61        22.32 
TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A4SF 
       10.59        11.28        11.97        14.93        21.17        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06O 
       14.73        12.10        10.29         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        41.06        29.03        31.00 
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        33.01        19.99 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07W 
       18.97        14.01         9.99        10.98         7.99         9.99 
TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08F TCGA-A8-A08G 
       18.05        15.06        36.95        13.02        18.05        19.96 
TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
       37.05        31.00        31.00         0.99        19.07        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A097 TCGA-A8-A09A 
       33.99        40.01        19.07        16.01        12.00         9.99 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
       29.98        15.02         1.02        25.02         8.98        19.04 
TCGA-A8-A0A7 TCGA-AC-A23H TCGA-AC-A2FO TCGA-AC-A2QJ TCGA-AC-A3QP TCGA-AC-A3TN 
        0.99         2.66        50.70         2.27         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3YI TCGA-AC-A8OP TCGA-AN-A03Y TCGA-AN-A049 TCGA-AN-A04A 
        1.81         1.55         1.74         0.33         0.62         2.96 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        1.78         1.71         8.02         0.16         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX 
        0.33         6.44         6.28         6.02         0.33         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XS 
        0.33         0.33         0.33         0.33        12.33         0.33 
TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        0.33         0.33         5.33        66.77        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 
       68.75        32.78        21.40        17.65        24.16        37.48 
TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JM TCGA-AO-A124 
       53.03        50.70        76.77        26.24        71.80       102.58 
TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ 
       93.70        96.10        64.04        41.62        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54O 
       70.39        17.79       130.09         5.65        15.62        21.86 
TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
       82.88        37.41        56.88        29.75        24.30        64.83 
TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AJ 
       55.86        65.36        70.16        83.87        76.18        52.77 
TCGA-AR-A1AK TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AR TCGA-AR-A1AS 
       51.25        62.56        43.73        39.98        17.23        40.83 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24Q 
       35.24        36.26       109.58        50.89        73.02        66.05 
TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 
       62.07        53.36        54.18        51.75        56.15        45.17 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LK TCGA-AR-A2LL 
       39.85        34.82        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 
       20.81        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-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1ND 
       19.89        13.48        12.00        13.12        39.55        12.59 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RE 
       20.05         9.86         0.62         1.38        21.21        34.65 
TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
        6.58        34.59        34.13        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A2JS TCGA-E9-A3QA 
       22.75        12.89         0.69         1.94        17.75         0.62 
TCGA-E9-A54Y TCGA-EW-A1IX TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
        0.23        39.72        15.68        28.77        25.94        22.82 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P3 TCGA-EW-A1P6 TCGA-EW-A1P8 
       29.85        40.41        41.13        52.96        18.48         7.86 
TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR 
       18.90        13.94        10.52        14.43        19.96        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DA 
       52.73        25.91        17.49        10.59        59.57       194.27 
TCGA-GM-A2DB TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XL 
       53.13        43.04        42.71        53.36       110.50        69.30 
TCGA-GM-A5PV TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       13.55        11.84        11.57         4.60         0.66         2.99 
TCGA-LL-A50Y TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR 
        6.90         4.70         3.19         3.25         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW 
        4.14         4.50         3.22         6.21        46.55        26.20 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66P 
       14.10        10.29         9.80        54.51         4.44 

$`DEL PEAK 15(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 
      125.59        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        14.63        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        14.07        49.48        38.40        38.37         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG 
        8.81         8.91        12.00         6.74        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         9.96        28.04 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A093 
        0.99        23.08        19.99        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        13.02        31.00 
TCGA-A8-A09I TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       33.07        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         1.68         1.32         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-AN-A03X TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0FF 
        0.33         0.23         0.33         7.36         6.51         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FW TCGA-AN-A0XP 
        7.96         7.00         7.59         7.17         0.36         0.30 
TCGA-AN-A0XR TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03T TCGA-AO-A03U 
        0.33         5.59        80.28        47.84        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JD 
       29.13        20.32        22.36        21.53        50.86        72.00 
TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A128 
       21.37        38.53        62.04        55.33        99.25        94.59 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO 
       90.58        77.56        57.30        48.36        28.37        14.73 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 
        0.53        24.79        26.93        13.22         2.56         9.99 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TZ TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       49.32         5.26        76.14        55.36        75.55        61.84 
TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AQ TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY 
       48.82        43.56        43.07        46.32        42.58        20.22 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24T 
       65.46        68.19        65.69         0.85        57.40        53.26 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN 
       50.96        48.16        40.64        20.25        40.04        17.10 
TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I5 TCGA-B6-A0IB TCGA-B6-A0IC 
       16.96        54.74        20.45       149.59       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RI TCGA-B6-A0RN 
       65.72       112.37       110.14       110.93       234.28       172.96 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
      102.77       140.48        89.46       129.57       129.70       186.48 
TCGA-B6-A0X4 TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A40B TCGA-BH-A0AU TCGA-BH-A0AW 
       28.27        73.51       170.17        82.88        24.53        20.45 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B9 TCGA-BH-A0BA 
       28.50        46.95        39.55        48.36        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-A0BQ TCGA-BH-A0BS TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD 
       27.19        53.95        49.05        44.02        48.13        45.83 
TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DO TCGA-BH-A0DP 
       31.17        23.44        38.01        13.91        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-A0E9 TCGA-BH-A0EA TCGA-BH-A0GY TCGA-BH-A0GZ 
        4.41        15.68        46.19        32.65        30.35        10.78 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HI TCGA-BH-A0HO 
       37.78        35.51        41.00        52.96        20.38         2.50 
TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0W4 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18M 
       13.61        36.85        24.95        44.81         2.01        72.56 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET 
       30.28        55.63        37.55        51.39       113.82        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       42.28        12.00        49.58        63.35        55.00        45.63 
TCGA-BH-A1FR TCGA-BH-A202 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
      144.59         0.72        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF 
      109.28        12.66         3.12         3.85        12.33        10.92 
TCGA-C8-A1HJ TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 
        0.16         0.30         0.43         8.28         0.03         0.03 
TCGA-C8-A3M7 TCGA-D8-A141 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JE 
        0.03        20.58        21.14        19.20        16.50        18.90 
TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X5 
       12.03        14.01        20.38        12.20        14.70        18.58 
TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG 
       16.73        27.58        18.15         2.66        15.22        14.73 
TCGA-D8-A1XK TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY 
       14.50         7.96        15.85        15.16        12.66        16.54 
TCGA-D8-A1Y1 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27P 
        3.81        17.42        13.45        14.43         9.44         0.76 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A109 
       13.08        12.53        14.50         7.33        34.42        46.59 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R 
       37.51        28.44        28.87        44.68        38.24        38.60 
TCGA-E2-A14V TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 
       34.26        23.24        19.43        21.04        23.87        25.05 
TCGA-E2-A15D TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O 
       17.29        18.21        17.42        20.58         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15T TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BD 
       19.56        14.99        53.03        29.95        28.50        17.10 
TCGA-E2-A1IG TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU TCGA-E2-A1L9 
       32.78        28.44        22.65         3.88        11.08        19.66 
TCGA-E2-A1LH TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 
      106.75         5.52        15.72        18.05        22.26        19.20 
TCGA-E9-A1N5 TCGA-E9-A1NA TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 
       36.82        36.56        35.77        21.57        11.90        14.30 
TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC 
        2.10         6.12         2.76        32.09        20.81        40.24 
TCGA-E9-A1RD TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A22G TCGA-E9-A22H 
        0.66        21.27        35.64         0.79        23.51        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        12.56         0.72 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL 
        0.76        26.07        18.41        15.72         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
        0.23        15.39        12.20         8.48        18.21        18.90 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1OX TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 
       13.25        16.57        29.95        39.78        29.82        23.11 
TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PG TCGA-EW-A2FW TCGA-EW-A3E8 
       30.08        19.99         6.15        34.55        22.09        21.27 
TCGA-EW-A423 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DI 
       10.16         7.40       109.87        53.52        42.28        61.91 
TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG 
       62.33        90.84        76.64        77.33        38.20        32.28 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PX TCGA-LD-A66U TCGA-LD-A74U TCGA-LL-A442 
       53.95        57.63        18.12         8.28         6.67         3.58 
TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U 
        5.56         3.65         4.50         5.59        15.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        12.66         7.53        44.61        27.65        24.10 
TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N 
       16.87        14.76        23.70        33.90        31.07        18.21 
TCGA-OL-A66O TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         6.81         5.29 

  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                         0.03                          0.03 
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                       220.90                        234.28 
  DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE 
                        22.13                         20.88 
[1] "0.0 - 220.9 (22.1)" "0.0 - 234.3 (20.9)"
[1] "hr=" "1.3"
D43V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 15(8P23.2) MUTATED        42       41        6        3       172
  DEL PEAK 15(8P23.2) WILD-TYPE      38       36        3        6       163
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 15(8P23.2) MUTATED         120         1         71         15
  DEL PEAK 15(8P23.2) WILD-TYPE       104         1         67         12
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 15(8P23.2) MUTATED           27       10         0      10
  DEL PEAK 15(8P23.2) WILD-TYPE         32        7         1       6
D43V3, multiclass
            clus
vv           DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  STAGE I                             42                            38
  STAGE IA                            41                            36
  STAGE IB                             6                             3
  STAGE II                             3                             6
  STAGE IIA                          172                           163
  STAGE IIB                          120                           104
  STAGE III                            1                             1
  STAGE IIIA                          71                            67
  STAGE IIIB                          15                            12
  STAGE IIIC                          27                            32
  STAGE IV                            10                             7
  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 15(8P23.2) MUTATED   146 304  45  22
  DEL PEAK 15(8P23.2) WILD-TYPE 112 277  72  14
D43V4, multiclass
    clus
vv   DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  T1                         146                           112
  T2                         304                           277
  T3                          45                            72
  T4                          22                            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 15(8P23.2) MUTATED   231 176  67  32
  DEL PEAK 15(8P23.2) WILD-TYPE 237 154  44  38
D43V5, multiclass
    clus
vv   DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  N0                         231                           237
  N1                         176                           154
  N2                          67                            44
  N3                          32                            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 15(8P23.2) MUTATED          1 451  10  57
  DEL PEAK 15(8P23.2) WILD-TYPE        1 394   7  74
D43V6, multiclass
          clus
vv         DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               451                           394
  M1                                10                             7
  MX                                57                            74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V7, binary
                               cls
clus                              0   1
  DEL PEAK 15(8P23.2) MUTATED   512   7
  DEL PEAK 15(8P23.2) WILD-TYPE 472   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 15(8P23.2) MUTATED    512    7
  DEL PEAK 15(8P23.2) WILD-TYPE  472    4
        clus
vv       DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  FEMALE                         512                           472
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 15(8P23.2) MUTATED                            1
  DEL PEAK 15(8P23.2) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 15(8P23.2) MUTATED                             427
  DEL PEAK 15(8P23.2) WILD-TYPE                           308
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 15(8P23.2) MUTATED                               48
  DEL PEAK 15(8P23.2) WILD-TYPE                            118
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 15(8P23.2) MUTATED                     3
  DEL PEAK 15(8P23.2) WILD-TYPE                   2
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 15(8P23.2) MUTATED                                 11
  DEL PEAK 15(8P23.2) WILD-TYPE                               18
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 15(8P23.2) MUTATED                    3             25
  DEL PEAK 15(8P23.2) WILD-TYPE                 11             19
D43V8, multiclass
                                  clus
vv                                 DEL PEAK 15(8P23.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            427
  INFILTRATING LOBULAR CARCINOMA                            48
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          11
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                            25
                                  clus
vv                                 DEL PEAK 15(8P23.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              308
  INFILTRATING LOBULAR CARCINOMA                             118
  MEDULLARY CARCINOMA                                          2
  MIXED HISTOLOGY (PLEASE SPECIFY)                            18
  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"
D43V9, binary
                               cls
clus                              0   1
  DEL PEAK 15(8P23.2) MUTATED   145 374
  DEL PEAK 15(8P23.2) WILD-TYPE 137 339
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 15(8P23.2) MUTATED    145  374
  DEL PEAK 15(8P23.2) WILD-TYPE  137  339
     clus
vv    DEL PEAK 15(8P23.2) MUTATED DEL PEAK 15(8P23.2) WILD-TYPE
  NO                          145                           137
  YES                         374                           339
[1] 2 2
[1] FALSE
D43V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 15(8P23.2) MUTATED                                  1    37
  DEL PEAK 15(8P23.2) WILD-TYPE                                0    19
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 15(8P23.2) MUTATED                          84   343
  DEL PEAK 15(8P23.2) WILD-TYPE                        53   365
D43V11, multiclass
                                  clus
vv                                 DEL PEAK 15(8P23.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     37
  BLACK OR AFRICAN AMERICAN                                 84
  WHITE                                                    343
                                  clus
vv                                 DEL PEAK 15(8P23.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       19
  BLACK OR AFRICAN AMERICAN                                   53
  WHITE                                                      365
[1] 4 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 15(8P23.2) MUTATED    18 417
  DEL PEAK 15(8P23.2) WILD-TYPE  18 379
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 15(8P23.2) MUTATED     18  417
  DEL PEAK 15(8P23.2) WILD-TYPE   18  379
                        clus
vv                       DEL PEAK 15(8P23.2) MUTATED
  HISPANIC OR LATINO                              18
  NOT HISPANIC OR LATINO                         417
                        clus
vv                       DEL PEAK 15(8P23.2) WILD-TYPE
  HISPANIC OR LATINO                                18
  NOT HISPANIC OR LATINO                           379
[1] 2 2
[1] FALSE

Clustering(44) Variable = DEL PEAK 16(8P11.21) MUTATION ANALYSIS
D44V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 16(8P11.21) MUTATED   162  24
  DEL PEAK 16(8P11.21) WILD-TYPE 698  90
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                           186                            788 
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                            24                             90 
$`DEL PEAK 16(8P11.21) MUTATED`
TCGA-A1-A0SF TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04U TCGA-A2-A04X 
       48.10        39.32        19.20        18.02        22.06        55.43 
TCGA-A2-A04Y TCGA-A2-A0CL TCGA-A2-A0D1 TCGA-A2-A0EQ TCGA-A2-A0SV TCGA-A2-A0SX 
       36.13        64.57        34.55        79.76        27.12        50.43 
TCGA-A2-A0T1 TCGA-A2-A0YH TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A259 TCGA-A2-A25B 
       17.13        21.67        23.77        17.36        52.47        16.31 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4S3 TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A26G 
       34.98        31.99         3.42        37.45        31.73        23.74 
TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A6VV TCGA-A7-A6VY TCGA-A8-A06T TCGA-A8-A06Z 
       14.93        21.17        10.29         8.75        41.06         1.02 
TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07R TCGA-A8-A07S TCGA-A8-A08G TCGA-A8-A08J 
       17.03         9.01         8.98         7.99        19.96        37.05 
TCGA-A8-A08O TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09I 
       31.00        33.99        12.00         9.99         9.99        33.07 
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-A6IX TCGA-AC-A8OP TCGA-AN-A041 
        2.27         1.12         1.81         0.43         1.74         0.23 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AS TCGA-AN-A0FD 
        0.62         2.96         1.78         8.02         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        17.65        24.16 
TCGA-AO-A0J9 TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A124 TCGA-AO-A12D TCGA-AO-A12G 
       53.03        76.77        26.24       102.58        64.04        41.62 
TCGA-AO-A1KT TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY 
       17.79         5.65        15.62        56.88        29.75        55.86 
TCGA-AR-A0U0 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A24K TCGA-AR-A24S TCGA-AR-A24U 
       65.36        52.77        51.25        50.89        62.07        53.36 
TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-B6-A0IK TCGA-B6-A0RH 
       56.15        39.85        34.82       128.65        18.77       189.01 
TCGA-B6-A0WY TCGA-B6-A1KN TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0B7 TCGA-BH-A0BG 
      113.79       139.17        24.53        38.79        56.98        24.85 
TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0EB TCGA-BH-A0EE TCGA-BH-A0RX 
       44.05        53.69        11.67        24.49        31.00         5.59 
TCGA-BH-A0W3 TCGA-BH-A18F TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18U 
       23.93         8.81        20.12        90.84        26.66        51.39 
TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EY TCGA-BH-A1F8 TCGA-BH-A1FE TCGA-BH-A1FN 
       51.16       113.82        17.69        24.66        74.73        72.07 
TCGA-BH-A1FU TCGA-BH-A203 TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A131 
       72.07        38.60        12.66        12.66         3.12         1.78 
TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HL TCGA-C8-A1HN TCGA-D8-A13Z TCGA-D8-A140 
        0.62         3.75        10.42         3.25        20.88        13.25 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JP 
       13.48        14.17        17.49        20.09        20.12        21.01 
TCGA-D8-A1X5 TCGA-D8-A1XL TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-D8-A27L TCGA-D8-A3Z6 
       18.58        19.92        16.41        12.99        16.41        18.51 
TCGA-E2-A108 TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       27.52        33.30        34.26        28.60        17.03        25.41 
TCGA-E2-A152 TCGA-E2-A15H TCGA-E2-A15J TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1IH 
       27.12        12.92        19.40        32.35        16.47        33.73 
TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LL 
       20.98        39.62        40.47        28.90       106.75        43.04 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R5 
       12.00        13.12        12.59        20.05         9.86         1.38 
TCGA-E9-A1R7 TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22B TCGA-E9-A22E 
       21.21        21.27        34.59        34.13        22.75        12.89 
TCGA-E9-A248 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1PE TCGA-EW-A1PH TCGA-EW-A2FR 
        1.94        25.94        22.82        10.52        19.96        55.00 
TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A3XL TCGA-GM-A5PV TCGA-JL-A3YW 
       25.91        17.49        10.59        69.30        13.55        11.84 
TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A73Z TCGA-OL-A5RZ TCGA-OL-A5S0 
        6.90         3.65         3.19         4.50        10.29         9.80 

$`DEL PEAK 16(8P11.21) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        47.24        20.88 
TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N 
       13.68        31.79         7.96        28.01        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A0CK 
       41.95        82.16        73.84        63.12        64.04       125.59 
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        14.63        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        14.07 
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         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
        8.91        12.00         6.74        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        33.01        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         9.96 
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        23.08        19.99        18.05        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        19.07        93.04        40.01        19.07 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D 
       16.01        17.95        41.98        12.00         1.02        13.02 
TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W 
       31.00        15.02        25.02         8.98        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-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G TCGA-AC-A2B8 
       17.03        38.04         0.95         2.37        10.85         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-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04        50.70         0.92         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        9.40         1.68         1.55         1.32         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AN-A03X TCGA-AN-A03Y 
        1.12         1.81         1.18         0.69         0.33         0.33 
TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        0.33         1.71         7.36         6.51         0.16         0.33 
TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        0.33         4.64         7.96         7.00         7.17         6.28 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XN 
        0.36         0.33         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-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O 
        5.33         5.59        80.28        47.84        66.77        81.63 
TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 
       84.69        68.75        47.87        59.05        32.78        21.40 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC 
       37.48        20.32        22.36        21.53        50.70        50.86 
TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM 
       72.00        21.37        38.53        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        93.70        94.59        96.10        90.58        77.56 
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-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A1H3 
       70.39         0.53        24.79        26.93       130.09        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        2.56        21.86         9.99        82.88        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       37.41        24.30        64.83        76.14        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AL TCGA-AR-A1AM 
       76.18        55.36        75.55        61.84        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        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H 
       46.32        42.58        35.24        36.26        20.22       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        65.46        68.19        65.69         0.85        66.05 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       57.40        53.26        54.18        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL 
       45.17        40.64        93.83        20.25        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       40.04        17.10        20.81        16.96        20.38        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-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-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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT 
      172.96       162.05       102.77       140.48       100.70        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-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-A2IU TCGA-B6-A401 
       58.88        43.59       101.52        73.51       170.17        85.35 
TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY 
       54.28        49.94        82.88        55.00        20.45        25.55 
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-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-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-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 
       45.57        49.94        49.05        41.75        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-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-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-A0HI TCGA-BH-A0HK 
       23.08        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-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18G 
       50.79        24.95        42.35        44.81        23.05         2.01 
TCGA-BH-A18I TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R 
        7.23        72.56        37.74        30.28        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU 
       66.05         7.36        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-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FG TCGA-BH-A1FH 
       97.48       120.62       114.15        33.17       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-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-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A132 
       12.66        11.77         0.07        12.66        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI 
        0.69         3.85        12.33        10.92        11.34        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X 
        0.16        12.03         2.30         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-A141 
       12.20         0.99         0.03         0.23        11.90        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.97        14.17        21.14        19.20        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-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT 
       18.97        20.09        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-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ 
       18.15         2.66        17.16        15.22        14.73        21.83 
TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT 
       14.50        17.69         7.96        15.85        16.31         6.35 
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-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R 
       14.43         9.44        13.48         4.80         0.76        10.09 
TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 
       13.08        12.53        12.26        14.50         7.33        43.00 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E 
       34.42        46.59        40.41        37.51        40.11        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-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A153 TCGA-E2-A154 
       33.17        43.33        32.02        31.96        23.24        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-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15I TCGA-E2-A15K 
       17.29        20.71        21.63        18.21        17.42         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-A1B6 
       14.99        60.53        53.62        53.03        29.95        28.50 
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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 
       22.65         3.88        22.19        11.08        54.18        27.42 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A2P5 
       19.66        24.59        18.87       102.61         8.75        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        18.05        22.26        19.89 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE 
       19.20        36.82        13.48        36.56        39.55        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-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE 
        2.76        32.09        20.81        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
        6.58        35.64         0.79        12.53        13.32        39.09 
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-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO 
        0.95        12.56         0.72        17.75         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
       18.41         0.62        15.72         0.23         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        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        32.28        53.95        57.63        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        5.56         4.70         3.25         2.63         3.88         4.14 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         5.59         3.22         6.21        15.91         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         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I 
       24.10        26.20        16.87        14.10        14.76        23.70 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P 
       54.51        33.90        31.07        18.21         7.23         4.44 
TCGA-S3-A6ZG TCGA-W8-A86G 
        6.81         5.29 

  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                          0.23                           0.03 
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                        189.01                         234.28 
  DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE 
                        20.930                         21.715 
[1] "0.2 - 189.0 (20.9)" "0.0 - 234.3 (21.7)"
[1] "hr=" "1.5"
D44V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 16(8P11.21) MUTATED        18       16        0        0        64
  DEL PEAK 16(8P11.21) WILD-TYPE      62       61        9        9       271
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 16(8P11.21) MUTATED          38         0         26          7
  DEL PEAK 16(8P11.21) WILD-TYPE       186         2        112         20
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 16(8P11.21) MUTATED           12        6         0       4
  DEL PEAK 16(8P11.21) WILD-TYPE         47       11         1      12
D44V3, multiclass
            clus
vv           DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  STAGE I                              18                             62
  STAGE IA                             16                             61
  STAGE IB                              0                              9
  STAGE II                              0                              9
  STAGE IIA                            64                            271
  STAGE IIB                            38                            186
  STAGE III                             0                              2
  STAGE IIIA                           26                            112
  STAGE IIIB                            7                             20
  STAGE IIIC                           12                             47
  STAGE IV                              6                             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 16(8P11.21) MUTATED    49 112  18  12
  DEL PEAK 16(8P11.21) WILD-TYPE 209 469  99  24
D44V4, multiclass
    clus
vv   DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  T1                           49                            209
  T2                          112                            469
  T3                           18                             99
  T4                           12                             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 16(8P11.21) MUTATED    93  53  26  16
  DEL PEAK 16(8P11.21) WILD-TYPE 375 277  85  54
D44V5, multiclass
    clus
vv   DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  N0                           93                            375
  N1                           53                            277
  N2                           26                             85
  N3                           16                             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 16(8P11.21) MUTATED          0 163   6  22
  DEL PEAK 16(8P11.21) WILD-TYPE        2 682  11 109
D44V6, multiclass
          clus
vv         DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                163                            682
  M1                                  6                             11
  MX                                 22                            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"
D44V7, binary
                                cls
clus                               0   1
  DEL PEAK 16(8P11.21) MUTATED   191   0
  DEL PEAK 16(8P11.21) WILD-TYPE 793  11
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(8P11.21) MUTATED    191    0
  DEL PEAK 16(8P11.21) WILD-TYPE  793   11
        clus
vv       DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  FEMALE                          191                            793
  MALE                              0                             11
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 16(8P11.21) MUTATED                            0
  DEL PEAK 16(8P11.21) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 16(8P11.21) MUTATED                             160
  DEL PEAK 16(8P11.21) WILD-TYPE                           575
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 16(8P11.21) MUTATED                               17
  DEL PEAK 16(8P11.21) WILD-TYPE                            149
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 16(8P11.21) MUTATED                     0
  DEL PEAK 16(8P11.21) WILD-TYPE                   5
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 16(8P11.21) MUTATED                                  5
  DEL PEAK 16(8P11.21) WILD-TYPE                               24
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 16(8P11.21) MUTATED                    0              9
  DEL PEAK 16(8P11.21) WILD-TYPE                 14             35
D44V8, multiclass
                                  clus
vv                                 DEL PEAK 16(8P11.21) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             160
  INFILTRATING LOBULAR CARCINOMA                             17
  MEDULLARY CARCINOMA                                         0
  MIXED HISTOLOGY (PLEASE SPECIFY)                            5
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                              9
                                  clus
vv                                 DEL PEAK 16(8P11.21) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               575
  INFILTRATING LOBULAR CARCINOMA                              149
  MEDULLARY CARCINOMA                                           5
  MIXED HISTOLOGY (PLEASE SPECIFY)                             24
  MUCINOUS CARCINOMA                                           14
  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"
D44V9, binary
                                cls
clus                               0   1
  DEL PEAK 16(8P11.21) MUTATED    56 135
  DEL PEAK 16(8P11.21) WILD-TYPE 226 578
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(8P11.21) MUTATED     56  135
  DEL PEAK 16(8P11.21) WILD-TYPE  226  578
     clus
vv    DEL PEAK 16(8P11.21) MUTATED DEL PEAK 16(8P11.21) WILD-TYPE
  NO                            56                            226
  YES                          135                            578
[1] 2 2
[1] FALSE
D44V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 16(8P11.21) MUTATED                                  1    10
  DEL PEAK 16(8P11.21) WILD-TYPE                                0    46
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 16(8P11.21) MUTATED                          33   124
  DEL PEAK 16(8P11.21) WILD-TYPE                       104   584
D44V11, multiclass
                                  clus
vv                                 DEL PEAK 16(8P11.21) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      10
  BLACK OR AFRICAN AMERICAN                                  33
  WHITE                                                     124
                                  clus
vv                                 DEL PEAK 16(8P11.21) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        46
  BLACK OR AFRICAN AMERICAN                                   104
  WHITE                                                       584
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V12, binary
                                cls
clus                               0   1
  DEL PEAK 16(8P11.21) MUTATED     6 152
  DEL PEAK 16(8P11.21) WILD-TYPE  30 644
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(8P11.21) MUTATED      6  152
  DEL PEAK 16(8P11.21) WILD-TYPE   30  644
                        clus
vv                       DEL PEAK 16(8P11.21) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          152
                        clus
vv                       DEL PEAK 16(8P11.21) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            644
[1] 2 2
[1] FALSE

Clustering(45) Variable = DEL PEAK 17(9P23) MUTATION ANALYSIS
D45V1, survival
                             sevent
clus2                           0   1
  DEL PEAK 17(9P23) MUTATED   259  42
  DEL PEAK 17(9P23) WILD-TYPE 601  72
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                        301                         673 
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                         42                          72 
$`DEL PEAK 17(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        14.07        38.40        34.98        38.37        12.00 
TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26G 
        3.42        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        19.07        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        31.00        33.07        15.02         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        21.86        49.32         5.26        37.41 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
       29.75        24.30        55.86        76.14        83.87        76.18 
TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24N TCGA-AR-A24R 
       75.55        61.84        39.98        35.24        68.19        57.40 
TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 
       62.07        54.18        50.96        51.75        40.64        34.82 
TCGA-AR-A2LK TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IK TCGA-B6-A0IO TCGA-B6-A0RO 
       42.87        12.13       129.57        18.77       110.14       162.05 
TCGA-B6-A0RP TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AU 
      102.77        79.63       113.79        85.35        49.94        24.53 
TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BF 
       20.45        28.50        39.55        48.36        56.98        25.71 
TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 
       44.05        53.69        49.94        11.67        48.13        42.90 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E2 TCGA-BH-A0E6 
       22.13        13.91        48.23         3.22        14.30         9.63 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HY 
       24.49        30.35        23.08        41.00        52.96        50.79 
TCGA-BH-A0W3 TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       23.93        90.84        26.66        66.05         7.36        51.39 
TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F8 TCGA-BH-A1FM 
       69.93       113.82        17.69        31.53        24.66        45.63 
TCGA-BH-A1FU TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A42T TCGA-C8-A12O TCGA-C8-A12P 
       72.07        38.60        57.83         0.99        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-A1HK TCGA-C8-A1HL TCGA-C8-A1HM 
        1.45         3.85        11.34        12.03        10.42         2.30 
TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A13Z 
        0.30         0.43         9.67        12.20        11.90        20.88 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JF 
       14.17        13.48        17.49        16.50        15.78        12.03 
TCGA-D8-A1JG TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1X5 TCGA-D8-A1X6 
       12.03        20.09        20.12        19.40        18.58        17.79 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y3 
       23.90        27.58        16.31        12.99        16.54        14.14 
TCGA-D8-A27F TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A14O 
       16.04         4.80        10.09        12.26        46.59        44.68 
TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A15A TCGA-E2-A15E 
       33.30        32.02        17.03        27.12        23.34        20.71 
TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1IO TCGA-E2-A1L6 TCGA-E2-A1L7 
       21.63        12.92        14.07        20.98        54.18        27.42 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL 
       24.59        40.47        28.90       106.75         8.75        43.04 
TCGA-E2-A56Z TCGA-E2-A573 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NF TCGA-E9-A1NI 
        7.20        22.26        13.12        36.56        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-A247 TCGA-E9-A2JS TCGA-E9-A5FL TCGA-E9-A5UO 
       22.75        12.89        27.22        17.75         0.26         0.23 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P4 
       28.77        25.94        29.85        40.41        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV 
       23.11        18.90        13.94        55.00        52.73        25.91 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2DB TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A6FQ 
       10.16        10.59        53.13        11.57         2.99         2.63 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OL-A5D6 TCGA-OL-A5RZ TCGA-OL-A66N 
        5.59         3.22         2.79        12.66        10.29        18.21 
TCGA-OL-A66P 
        4.44 

$`DEL PEAK 17(9P23) 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-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        39.32        19.20        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-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO 
       64.04        55.43        36.13       125.59        24.79       112.08 
TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW 
       92.48        88.60       107.93        75.55        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-A0EP TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW 
      101.72        89.36       107.61        37.05        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 
       24.72        99.19        50.43        44.28        17.13         8.38 
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-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       15.42        21.67        14.50        18.61        19.33        14.63 
TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       31.73        23.47        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-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW TCGA-A2-A3XZ 
       39.65        33.93        83.01        29.98        49.48        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30         9.01         8.81         8.91         6.74        38.30 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13E 
       35.31        34.29        35.47        35.67        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-A5ZV 
       14.70        11.97        14.50        21.17        14.73        12.10 
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-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07B 
       13.02         1.02        41.06        26.01        53.98        33.01 
TCGA-A8-A07E TCGA-A8-A07F 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-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        8.98         7.99         9.96        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        23.08        19.99        18.05 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       93.04        33.99        40.01        19.07        16.01        17.95 
TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09V TCGA-A8-A09X 
       41.98         9.99        13.02        29.98        15.02        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23G 
       12.00        13.02        38.04         0.95         2.37        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-A2FM TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       38.79        26.04         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 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A046 
        1.55         1.12         1.81         1.18         0.43         0.33 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF 
        1.78         1.71         0.33         0.33         6.44         4.64 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FX 
        7.00         7.59         7.17         6.28         6.02         0.33 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33         0.33         0.30         0.33         0.33         0.33 
TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 
       47.84        84.69        68.75        47.87        59.05        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC 
       17.65        37.48        20.32        22.36        53.03        50.86 
TCGA-AO-A0JD TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       72.00        21.37        26.24        38.53        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       71.80       102.58        99.25        93.70        94.59        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-AQ-A04H TCGA-AQ-A04J 
       28.37        14.73        82.62        70.39        24.79        26.93 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TX 
       13.22         2.56         9.99        82.88        56.88        64.83 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL 
       65.36        70.16        55.36        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        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       46.32        42.58        36.26        20.22       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T 
       73.02        65.46        65.69         0.85        66.05        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A256 
       53.36        48.16        56.15        45.17        39.85        93.83 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
      128.65        20.25         7.36        40.04        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       16.96        20.38        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE 
       77.62       143.38       149.59       220.90        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
      146.50       112.37       176.98       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-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU 
       78.02       172.96       140.48       100.70        89.46       131.21 
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-A1KC 
      129.70       186.48        28.27        68.94        58.88        43.59 
TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A402 TCGA-B6-A40B 
      101.52        73.51       139.17       170.17        54.28        82.88 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       55.00        38.79        25.55        46.95        40.83        39.16 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG 
       56.94        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-A0BS 
       21.70        61.68        35.67        48.69        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE 
       45.57        49.05        41.75        44.02        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       23.44        38.01        17.26        15.65         2.56        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-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-A18V TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU 
       55.63        37.55        51.16        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-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42U 
       83.31       130.16        10.65         6.44        20.12       109.28 
TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A134 
        8.94        11.93        11.77        11.77        12.66         0.69 
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-A1HN TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 
        3.25         0.23         0.36         8.28         0.03         0.03 
TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.99         0.03         0.23        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JB TCGA-D8-A1JD 
       13.97        21.14        19.20        14.17        18.71        18.15 
TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP 
       18.90        14.01        18.97        20.09        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB 
       12.20        13.32        14.70        16.73        25.74        18.15 
TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK 
        2.66        17.16        15.22        14.73        21.83        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT 
       19.92        17.69         7.96        16.41        15.85         6.35 
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-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
       13.48         0.76        13.08        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
        7.33        43.00        34.42        27.52        40.41        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14Q 
       40.11        28.44        28.87        47.15        40.96        38.24 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y 
       38.60        33.17        43.33        34.26        31.96        28.60 
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-A15G TCGA-E2-A15I TCGA-E2-A15J 
       25.05        22.82        17.29        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-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-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A2P5 
       11.08        39.62        19.66        18.87       102.61        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 
        5.52        15.72        18.05        19.89        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG 
       13.48        12.00        39.55        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-A22G TCGA-E9-A22H 
       34.13         0.79        12.53        13.32        23.51        24.10 
TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
       17.06         0.69         0.85         1.94         0.95        12.56 
TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 
        0.72         0.76        26.07        18.41         0.62        15.72 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.23         0.39        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-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 
       29.95        41.13        39.78        18.48        30.08         7.86 
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-GI-A2C9 TCGA-GM-A2D9 
       22.09        21.27        17.49         7.40       109.87        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-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-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV 
       38.20        32.28        69.30        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       18.12        11.84         8.28         6.67         4.60         0.66 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO 
        3.58         6.90         5.56         4.70         3.65         3.19 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 
        3.25         3.88         4.14         4.50         4.50         6.21 
TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
       15.91         2.10        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H 
       24.10        26.20        16.87        14.10         9.80        14.76 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-S3-A6ZG 
       23.70        54.51        33.90        31.07         7.23         6.81 
TCGA-W8-A86G 
        5.29 

  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                     162.05                      234.28 
  DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE 
                      20.45                       22.36 
[1] "0.1 - 162.1 (20.4)" "0.0 - 234.3 (22.4)"
[1] "hr=" "2"  
D45V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 17(9P23) MUTATED        21       17        1        1        97
  DEL PEAK 17(9P23) WILD-TYPE      59       60        8        8       238
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 17(9P23) MUTATED          65         1         57         15
  DEL PEAK 17(9P23) WILD-TYPE       159         1         81         12
                             vv
clus                          STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 17(9P23) MUTATED           17       10         0       5
  DEL PEAK 17(9P23) WILD-TYPE         42        7         1      11
D45V3, multiclass
            clus
vv           DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  STAGE I                           21                          59
  STAGE IA                          17                          60
  STAGE IB                           1                           8
  STAGE II                           1                           8
  STAGE IIA                         97                         238
  STAGE IIB                         65                         159
  STAGE III                          1                           1
  STAGE IIIA                        57                          81
  STAGE IIIB                        15                          12
  STAGE IIIC                        17                          42
  STAGE IV                          10                           7
  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 17(9P23) MUTATED    58 198  33  18
  DEL PEAK 17(9P23) WILD-TYPE 200 383  84  18
D45V4, multiclass
    clus
vv   DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  T1                        58                         200
  T2                       198                         383
  T3                        33                          84
  T4                        18                          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 17(9P23) MUTATED   130  98  52  22
  DEL PEAK 17(9P23) WILD-TYPE 338 232  59  48
D45V5, multiclass
    clus
vv   DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  N0                       130                         338
  N1                        98                         232
  N2                        52                          59
  N3                        22                          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 17(9P23) MUTATED          1 263  10  33
  DEL PEAK 17(9P23) WILD-TYPE        1 582   7  98
D45V6, multiclass
          clus
vv         DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  CM0 (I+)                         1                           1
  M0                             263                         582
  M1                              10                           7
  MX                              33                          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"
D45V7, binary
                             cls
clus                            0   1
  DEL PEAK 17(9P23) MUTATED   301   6
  DEL PEAK 17(9P23) WILD-TYPE 683   5
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 17(9P23) MUTATED    301    6
  DEL PEAK 17(9P23) WILD-TYPE  683    5
        clus
vv       DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  FEMALE                       301                         683
  MALE                           6                           5
[1] 2 2
[1] FALSE
                             vv
clus                          INFILTRATING CARCINOMA NOS
  DEL PEAK 17(9P23) MUTATED                            0
  DEL PEAK 17(9P23) WILD-TYPE                          1
                             vv
clus                          INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 17(9P23) MUTATED                             260
  DEL PEAK 17(9P23) WILD-TYPE                           475
                             vv
clus                          INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 17(9P23) MUTATED                               20
  DEL PEAK 17(9P23) WILD-TYPE                            146
                             vv
clus                          MEDULLARY CARCINOMA
  DEL PEAK 17(9P23) MUTATED                     2
  DEL PEAK 17(9P23) WILD-TYPE                   3
                             vv
clus                          MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 17(9P23) MUTATED                                  9
  DEL PEAK 17(9P23) WILD-TYPE                               20
                             vv
clus                          MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 17(9P23) MUTATED                    5             11
  DEL PEAK 17(9P23) WILD-TYPE                  9             33
D45V8, multiclass
                                  clus
vv                                 DEL PEAK 17(9P23) MUTATED
  INFILTRATING CARCINOMA NOS                               0
  INFILTRATING DUCTAL CARCINOMA                          260
  INFILTRATING LOBULAR CARCINOMA                          20
  MEDULLARY CARCINOMA                                      2
  MIXED HISTOLOGY (PLEASE SPECIFY)                         9
  MUCINOUS CARCINOMA                                       5
  OTHER  SPECIFY                                          11
                                  clus
vv                                 DEL PEAK 17(9P23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            475
  INFILTRATING LOBULAR CARCINOMA                           146
  MEDULLARY CARCINOMA                                        3
  MIXED HISTOLOGY (PLEASE SPECIFY)                          20
  MUCINOUS CARCINOMA                                         9
  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 17(9P23) MUTATED    90 217
  DEL PEAK 17(9P23) WILD-TYPE 192 496
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 17(9P23) MUTATED     90  217
  DEL PEAK 17(9P23) WILD-TYPE  192  496
     clus
vv    DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  NO                         90                         192
  YES                       217                         496
[1] 2 2
[1] FALSE
D45V10, continuous
                             vv
clus                          AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 17(9P23) MUTATED                                  0    21
  DEL PEAK 17(9P23) WILD-TYPE                                1    35
                             vv
clus                          BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 17(9P23) MUTATED                          42   204
  DEL PEAK 17(9P23) WILD-TYPE                        95   504
D45V11, multiclass
                                  clus
vv                                 DEL PEAK 17(9P23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                         0
  ASIAN                                                   21
  BLACK OR AFRICAN AMERICAN                               42
  WHITE                                                  204
                                  clus
vv                                 DEL PEAK 17(9P23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                           1
  ASIAN                                                     35
  BLACK OR AFRICAN AMERICAN                                 95
  WHITE                                                    504
[1] 4 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 17(9P23) MUTATED    10 242
  DEL PEAK 17(9P23) WILD-TYPE  26 554
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 17(9P23) MUTATED     10  242
  DEL PEAK 17(9P23) WILD-TYPE   26  554
                        clus
vv                       DEL PEAK 17(9P23) MUTATED DEL PEAK 17(9P23) WILD-TYPE
  HISPANIC OR LATINO                            10                          26
  NOT HISPANIC OR LATINO                       242                         554
[1] 2 2
[1] FALSE

Clustering(46) Variable = DEL PEAK 18(9P21.3) MUTATION ANALYSIS
D46V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 18(9P21.3) MUTATED   294  41
  DEL PEAK 18(9P21.3) WILD-TYPE 566  73
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                          335                           639 
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                           41                            73 
$`DEL PEAK 18(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        14.07        38.40        34.98        38.37        12.00 
TCGA-A2-A4S3 TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F 
        3.42        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        18.05        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        19.07        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        31.00        33.07 
TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
       15.02         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        17.65        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        21.86        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ 
        5.26        37.41        29.75        24.30        55.86        76.14 
TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       70.16        83.87        76.18        55.36        75.55        61.84 
TCGA-AR-A1AP TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24R 
       39.98        35.24        50.89        68.19        66.05        57.40 
TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A252 
       62.07        54.18        50.96        51.75        45.17        40.64 
TCGA-AR-A255 TCGA-AR-A2LK TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IK 
       34.82        42.87        12.13       129.57       176.98        18.77 
TCGA-B6-A0IO TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY 
      110.14       162.05       102.77        79.63        17.98       113.79 
TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B3 
       85.35        49.94        24.53        20.45        28.50        39.55 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BL 
       39.16        48.36        56.98        25.71        24.85        44.05 
TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C3 TCGA-BH-A0C7 
       48.69        53.69        49.94        11.67        48.13        42.90 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E6 TCGA-BH-A0EB 
       22.13        13.91        48.23         3.22         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-A18T TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN 
       90.84        26.66         7.36        51.39        51.16        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-A208 TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O 
       57.83       130.16         0.99        11.93        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
       11.77         0.07        12.66        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A1HG TCGA-C8-A1HL TCGA-C8-A1HM 
        1.78         1.45         3.85        11.34        10.42         2.30 
TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z 
        0.30         0.43         9.67         0.99        11.90        20.88 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE 
       14.17        13.48        17.49        18.71        15.78        18.90 
TCGA-D8-A1JF TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JM 
       12.03        12.03        18.97        20.09        20.12        19.40 
TCGA-D8-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XQ 
       18.58        17.79        23.90        27.58        17.16        16.41 
TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y3 TCGA-D8-A27F 
       16.31         6.35        12.99        16.54        14.14        16.04 
TCGA-D8-A27H TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A10A 
       13.05         4.80        10.09        12.26        46.59        40.41 
TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A152 
       44.68        40.96        33.30        32.02        17.03        27.12 
TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15S TCGA-E2-A1IO 
       23.34        20.71        21.63        12.92        14.07        20.98 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL 
       24.59        40.47        28.90       106.75         8.75        43.04 
TCGA-E2-A56Z TCGA-E2-A573 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NF 
        7.20        22.26        13.12        36.56        39.55        20.05 
TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1R7 
        9.86        11.90         0.62         6.12         2.76        21.21 
TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH 
       20.81        40.24        34.65         6.58        21.27        34.59 
TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A247 TCGA-E9-A3QA 
       39.09        22.75        12.89        23.51        27.22         0.62 
TCGA-E9-A5UO TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1P3 TCGA-EW-A1P4 
        0.23        28.77        25.94        29.85        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PD TCGA-EW-A2FR TCGA-EW-A2FS 
       23.11         7.86        18.90        13.94        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-JL-A3YX 
       25.91        10.16        10.59       109.87        53.13        11.57 
TCGA-LL-A441 TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-MS-A51U 
        2.99         2.63         4.14         5.59         3.22         2.79 
TCGA-OL-A5D6 TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66N TCGA-OL-A66P 
       12.66        10.29        14.76        18.21         4.44 

$`DEL PEAK 18(9P21.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        14.27        47.24        20.88 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        39.32        19.20        18.21       104.81 
TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       82.16        22.06        63.12        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ 
      125.59        64.57        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-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
      107.61        37.05        31.82        29.75        24.72        24.16 
TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T1 TCGA-A2-A0T2 
       99.19        54.64        50.43        44.28        17.13         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-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL 
       25.28        21.67        14.50        18.61        19.33        14.63 
TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       31.73        23.47        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-A3XS TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XW TCGA-A2-A3XZ 
       39.65        33.93        83.01        29.98        49.48        31.99 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30         9.01         8.81         8.91         6.74        38.30 
TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G 
       35.31        34.29        35.47        33.11        10.72        23.61 
TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A26J 
       29.56        31.36        24.26        23.80        21.73        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-A4SD TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX 
       11.97        14.50        21.17        14.73        10.72        11.05 
TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A8-A06P TCGA-A8-A06T TCGA-A8-A07B 
       10.29         9.37        10.42        13.02        41.06        33.01 
TCGA-A8-A07E TCGA-A8-A07F 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-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
        8.98         7.99         9.96        28.04        18.05        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        23.08        19.99         9.99 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        33.99        19.07        16.01        17.95        41.98 
TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 
       13.02        29.98        15.02        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         9.40         1.12         1.81 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y 
        1.68         1.55         1.32         1.55         1.12         1.81 
TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AR TCGA-AN-A0AS 
        1.18         0.43         0.33         1.71         0.33         0.33 
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-A0XP TCGA-AN-A0XR TCGA-AN-A0XT 
        0.33         0.33         0.33         0.30         0.33         0.33 
TCGA-AN-A0XU TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
        0.33        47.84        81.63        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB 
       59.05        32.78        20.32        22.36        53.03        50.70 
TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
       50.86        21.37        26.24        38.53        62.04        55.33 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
       71.80       102.58        99.25        93.70        94.59        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-AQ-A04J TCGA-AQ-A1H3 TCGA-AQ-A54N 
       28.37        14.73        82.62        26.93        13.22         2.56 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A1AJ 
        9.99        82.88        56.88        64.83        65.36        52.77 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AQ 
       51.25        48.82        62.56        43.73        43.56        43.07 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A1AY 
       17.23        40.83        46.32        42.58        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T 
      109.58        73.02        65.46        65.69         0.85        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE 
       53.36        48.16        56.15        39.85        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25         7.36        40.04        17.10        20.81        16.96 
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-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE 
      112.37       126.12        84.59       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-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-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68        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-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AY 
      170.17        54.28        82.88        55.00        38.79        25.55 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       46.95        40.83        56.94        51.68        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-A0BT TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE 
       45.57        49.05        41.75        44.02        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       23.44        38.01        17.26        15.65         2.56        38.47 
TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 
       45.17        47.41        16.27         4.41        15.68        14.30 
TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ 
       44.81        46.19        32.65        31.00        24.43        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI 
       15.16        37.78        35.51        24.56        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-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA 
       27.25         5.59        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-A18N 
        8.81         2.01         7.23        20.12        72.56        37.74 
TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ET 
       30.28        55.63        37.55        66.05        91.99        82.85 
TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 
       42.28        12.00        55.69        49.58        25.81        89.16 
TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG 
       97.48       120.62       114.15        33.17        74.73       122.89 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 
       36.92        63.35        55.00        72.07       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-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12V TCGA-C8-A134 TCGA-C8-A135 
      109.28         8.94        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-A1HK 
        3.75        12.33        10.92        11.34         0.16        12.03 
TCGA-C8-A1HN TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A275 
        3.25         0.23         0.36         8.28         0.03         0.03 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03        12.20         0.03         0.23        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JD 
       13.97        21.14        19.20        14.17        16.50        18.15 
TCGA-D8-A1JH TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       14.01        20.09        20.38        21.01        12.20        13.32 
TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF 
       14.70        16.73        25.74        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-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       15.85        15.16        12.66        15.32        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-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
       13.48         0.76        13.08        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10C 
        7.33        43.00        34.42        27.52        37.51        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S 
       28.44        28.87        47.15        38.24        38.60        33.17 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A153 
       43.33        34.26        31.96        28.60        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-A15G TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       17.29        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-A1AZ 
        7.73        13.02        19.56        17.06        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-A1IU TCGA-E2-A1L6 
       28.44        22.65         3.88        22.19        11.08        54.18 
TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LG TCGA-E2-A1LI TCGA-E2-A2P5 
       27.42        39.62        19.66        18.87       102.61        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 
        5.52        15.72        18.05        19.89        19.20        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1R0 
       13.48        12.00        12.59        35.77        21.57        14.30 
TCGA-E9-A1R3 TCGA-E9-A1R5 TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RI TCGA-E9-A226 
        2.10         1.38        32.09         0.66        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
        0.79        12.53        13.32        24.10        17.06         0.69 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS 
        0.85         1.94         0.95        12.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        26.07        18.41        15.72         0.23         0.39 
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-A1OW TCGA-EW-A1OX 
       18.90        13.25        16.57        15.68        22.82        29.95 
TCGA-EW-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB 
       40.41        41.13        39.78        18.48        30.08        19.99 
TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FW 
        6.15        10.52        14.43        34.55        19.96        22.09 
TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC 
       21.27        17.49         7.40        59.57       194.27        53.52 
TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL 
       43.04        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        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         6.67         4.60         0.66         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR 
        5.56         4.70         3.65         3.19         3.25         3.88 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 
        4.50         4.50         6.21        15.91         2.10        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
        7.53        44.61        27.65        24.10        26.20        16.87 
TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       14.10         9.80        23.70        54.51        33.90        31.07 
TCGA-OL-A66O TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         6.81         5.29 

  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                       176.98                        234.28 
  DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE 
                        20.45                         22.36 
[1] "0.1 - 177.0 (20.4)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.5"
D46V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 18(9P21.3) MUTATED        23       21        2        1       111
  DEL PEAK 18(9P21.3) WILD-TYPE      57       56        7        8       224
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 18(9P21.3) MUTATED          71         1         59         17
  DEL PEAK 18(9P21.3) WILD-TYPE       153         1         79         10
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 18(9P21.3) MUTATED           21       10         0       6
  DEL PEAK 18(9P21.3) WILD-TYPE         38        7         1      10
D46V3, multiclass
            clus
vv           DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  STAGE I                             23                            57
  STAGE IA                            21                            56
  STAGE IB                             2                             7
  STAGE II                             1                             8
  STAGE IIA                          111                           224
  STAGE IIB                           71                           153
  STAGE III                            1                             1
  STAGE IIIA                          59                            79
  STAGE IIIB                          17                            10
  STAGE IIIC                          21                            38
  STAGE IV                            10                             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 18(9P21.3) MUTATED    69 218  36  20
  DEL PEAK 18(9P21.3) WILD-TYPE 189 363  81  16
D46V4, multiclass
    clus
vv   DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  T1                          69                           189
  T2                         218                           363
  T3                          36                            81
  T4                          20                            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                             N0  N1  N2  N3
  DEL PEAK 18(9P21.3) MUTATED   153 104  54  28
  DEL PEAK 18(9P21.3) WILD-TYPE 315 226  57  42
D46V5, multiclass
    clus
vv   DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  N0                         153                           315
  N1                         104                           226
  N2                          54                            57
  N3                          28                            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 18(9P21.3) MUTATED          1 292  10  40
  DEL PEAK 18(9P21.3) WILD-TYPE        1 553   7  91
D46V6, multiclass
          clus
vv         DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  CM0 (I+)                           1                             1
  M0                               292                           553
  M1                                10                             7
  MX                                40                            91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V7, binary
                               cls
clus                              0   1
  DEL PEAK 18(9P21.3) MUTATED   336   7
  DEL PEAK 18(9P21.3) WILD-TYPE 648   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 18(9P21.3) MUTATED    336    7
  DEL PEAK 18(9P21.3) WILD-TYPE  648    4
        clus
vv       DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  FEMALE                         336                           648
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 18(9P21.3) MUTATED                            1
  DEL PEAK 18(9P21.3) WILD-TYPE                          0
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 18(9P21.3) MUTATED                             292
  DEL PEAK 18(9P21.3) WILD-TYPE                           443
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 18(9P21.3) MUTATED                               19
  DEL PEAK 18(9P21.3) WILD-TYPE                            147
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 18(9P21.3) MUTATED                     4
  DEL PEAK 18(9P21.3) WILD-TYPE                   1
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 18(9P21.3) MUTATED                                 11
  DEL PEAK 18(9P21.3) WILD-TYPE                               18
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 18(9P21.3) MUTATED                    5             11
  DEL PEAK 18(9P21.3) WILD-TYPE                  9             33
D46V8, multiclass
                                  clus
vv                                 DEL PEAK 18(9P21.3) MUTATED
  INFILTRATING CARCINOMA NOS                                 1
  INFILTRATING DUCTAL CARCINOMA                            292
  INFILTRATING LOBULAR CARCINOMA                            19
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                          11
  MUCINOUS CARCINOMA                                         5
  OTHER  SPECIFY                                            11
                                  clus
vv                                 DEL PEAK 18(9P21.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              443
  INFILTRATING LOBULAR CARCINOMA                             147
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            18
  MUCINOUS CARCINOMA                                           9
  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 18(9P21.3) MUTATED   101 242
  DEL PEAK 18(9P21.3) WILD-TYPE 181 471
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 18(9P21.3) MUTATED    101  242
  DEL PEAK 18(9P21.3) WILD-TYPE  181  471
     clus
vv    DEL PEAK 18(9P21.3) MUTATED DEL PEAK 18(9P21.3) WILD-TYPE
  NO                          101                           181
  YES                         242                           471
[1] 2 2
[1] FALSE
D46V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 18(9P21.3) MUTATED                                  0    24
  DEL PEAK 18(9P21.3) WILD-TYPE                                1    32
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 18(9P21.3) MUTATED                          50   223
  DEL PEAK 18(9P21.3) WILD-TYPE                        87   485
D46V11, multiclass
                                  clus
vv                                 DEL PEAK 18(9P21.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     24
  BLACK OR AFRICAN AMERICAN                                 50
  WHITE                                                    223
                                  clus
vv                                 DEL PEAK 18(9P21.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       32
  BLACK OR AFRICAN AMERICAN                                   87
  WHITE                                                      485
[1] 4 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 18(9P21.3) MUTATED    11 267
  DEL PEAK 18(9P21.3) WILD-TYPE  25 529
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 18(9P21.3) MUTATED     11  267
  DEL PEAK 18(9P21.3) WILD-TYPE   25  529
                        clus
vv                       DEL PEAK 18(9P21.3) MUTATED
  HISPANIC OR LATINO                              11
  NOT HISPANIC OR LATINO                         267
                        clus
vv                       DEL PEAK 18(9P21.3) WILD-TYPE
  HISPANIC OR LATINO                                25
  NOT HISPANIC OR LATINO                           529
[1] 2 2
[1] FALSE

Clustering(47) Variable = DEL PEAK 19(9Q21.11) MUTATION ANALYSIS
D47V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 19(9Q21.11) MUTATED   244  35
  DEL PEAK 19(9Q21.11) WILD-TYPE 616  79
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                           279                            695 
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                            35                             79 
$`DEL PEAK 19(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 
        3.42        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        41.06        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        18.05 
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        19.07 
TCGA-A8-A08X TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09Q 
       33.99        12.00         1.02        33.07        15.02        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-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A04A 
        1.12         0.69         0.33         0.33         0.23         2.96 
TCGA-AN-A04C TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0FJ TCGA-AN-A0FT TCGA-AN-A0FW 
        1.78         7.36         0.16         7.96         6.02         0.36 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AO-A03L 
        0.33         0.33        12.33         0.33         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0JD 
       66.77        81.63        21.40        17.65        24.16        72.00 
TCGA-AO-A0JL TCGA-AO-A12F TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT 
       55.33        48.36        61.87        70.39         0.53        17.79 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS 
        5.65        15.62         2.56        21.86        82.88        37.41 
TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AP 
       55.86        65.36        76.18        75.55        61.84        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24N TCGA-AR-A24S 
       43.07        35.24        20.22        50.89        68.19        62.07 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A2LR 
       54.18        51.75        40.64        34.82        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        22.26 
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-EW-A1J6 TCGA-EW-A1OV 
       22.75        17.06         0.72         0.23        28.77        25.94 
TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA 
       22.82        29.85        52.96        23.11         7.86        18.90 
TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 
       19.96        55.00        52.73        25.91        21.27        17.49 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH 
       10.16        10.59       109.87        53.13        42.71        42.28 
TCGA-GM-A4E0 TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FQ 
       57.63        11.57         2.99         4.70         3.25         2.63 
TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5D6 TCGA-OL-A5RW TCGA-OL-A5RZ 
        3.88         5.59         3.22        12.66        26.20        10.29 
TCGA-OL-A5S0 TCGA-OL-A66N TCGA-OL-A66P 
        9.80        18.21         4.44 

$`DEL PEAK 19(9Q21.11) 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-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88        31.79        39.32        19.20        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-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      125.59        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D1 
       75.55         5.19        63.45        64.04        56.81        34.55 
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-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-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-A0YJ 
       32.55        25.28        15.42        21.90        14.50        18.61 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FZ TCGA-A2-A1G0 
       19.33        14.63        31.73        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-A3KD TCGA-A2-A3XT 
       18.15        91.92        10.59        20.88        39.65        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RW 
       29.98        14.07        49.48        31.99        38.37         7.30 
TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD 
        9.01         8.81         8.91        12.00         6.74        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G 
       34.29        35.47        30.61        33.11        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-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-A4SA TCGA-A7-A4SE TCGA-A7-A56D 
       13.41        14.70        11.97        14.93        21.17        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-A06P TCGA-A8-A06U TCGA-A8-A076 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F 
       13.02        29.03        53.98        33.01        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07U 
       14.01        12.00        17.03         9.99         7.99         9.96 
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-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08L TCGA-A8-A08T TCGA-A8-A08Z 
       23.08        19.99        19.96         9.99        93.04        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       19.07        16.01        17.95        41.98        12.00         9.99 
TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09R 
        9.99        13.02        31.00        29.98         1.02         8.98 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0AD 
       15.02         0.99        14.01        12.00        13.02        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-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3BB 
       40.57        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-A3W6 
        0.69        14.83         9.40         1.12         1.81         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX 
        1.55         1.32         1.55         1.81         1.18         0.43 
TCGA-AC-A8OP TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AL 
        1.74         0.33         0.62         1.71         8.02         6.51 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK 
        0.33         0.33         0.33         6.44         4.64         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0XL 
        7.59         7.17         6.28         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.30         0.33         0.33         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       47.84        84.69        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       32.78        37.48        20.32        22.36        53.03        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        38.53 
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        93.70        94.59 
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-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       28.37        14.73        82.62        24.79        26.93       130.09 
TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV 
       13.22         9.99        49.32         5.26        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 
       24.30        64.83        76.14        70.16        83.87        55.36 
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-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24H 
       17.23        40.83        46.32        42.58        36.26       109.58 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       73.02        65.46        65.69         0.85        66.05        57.40 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 
       53.26        53.36        50.96        48.16        56.15        45.17 
TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM 
       39.85        93.83       128.65        20.25         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       17.10        20.81        16.96        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC 
       10.59        77.62       143.38       149.59       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-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
       84.59        68.45       189.01       234.28        78.02       172.96 
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-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-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU 
       68.94        58.88       101.52        73.51       139.17       170.17 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       82.88        55.00        38.79        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC 
       46.95        40.83        39.16        56.94        37.22        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ 
       18.21        24.85        21.70        61.68        35.67        27.19 
TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
       53.69        53.95        11.67        49.05        41.75        44.02 
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-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE TCGA-BH-A0EI 
       14.30        44.81        46.19        32.65        31.00        24.43 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI 
       15.16        37.78        35.51        24.56        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-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 
       27.25        50.79         5.59        24.95        42.35        44.81 
TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L 
       23.05         8.81         2.01         7.23        20.12        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A1EN 
       72.56        37.74        30.28        37.55        66.05        69.93 
TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY 
       91.99        82.85        42.28        55.69        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-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A201 
      122.89        36.92        63.35        55.00       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-A42U TCGA-BH-A42V TCGA-C8-A12M TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12U 
      109.28         8.94        11.77        11.77         0.07        12.66 
TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66         1.45         0.69         0.62         3.85        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-A26V TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A273 TCGA-C8-A274 
        2.30         0.30         0.23         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-A146 TCGA-D8-A147 
       11.90        13.25        20.58        13.97        21.14        19.20 
TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF 
       14.17        16.50        18.71        18.15        18.90        12.03 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP 
       12.03        14.01        20.09        19.40        20.38        21.01 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 
       12.20        13.32        14.70        16.73        25.74        23.90 
TCGA-D8-A1XB TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL 
       18.15         2.66        15.22        14.73        21.83        19.92 
TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU 
       17.69         7.96        16.41        15.85         6.35        12.99 
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-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 
       13.48         4.80         0.76        13.08        12.53        14.50 
TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10B 
       18.51         7.33        43.00        34.42        27.52        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14S 
       40.11        28.44        28.87        47.15        38.24        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 
       33.30        43.33        34.26        28.60        25.41        27.12 
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-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-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-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-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
       39.62        19.66        24.59        28.90        18.87       106.75 
TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 
       43.04        16.93         5.52        15.72        18.05        19.89 
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 
       12.56        17.75         0.76        26.07        18.41         0.62 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW 
       15.72         0.23         0.39         0.26        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-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 
       15.68        29.95        40.41        41.13        39.78        29.82 
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-A1PF TCGA-EW-A1PG TCGA-EW-A2FW TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA 
       14.43        34.55        22.09         7.40        59.57       194.27 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A2DM 
       53.52        43.04        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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U 
       53.95        13.55        18.12        11.84         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        4.60         0.66         3.58         6.90         5.56         3.65 
TCGA-LL-A5YO TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LQ-A4E4 
        3.19         4.14         4.50         4.50         6.21        15.91 
TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU 
        2.79         2.10        46.55         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       24.10        16.87        14.10        14.76        23.70        54.51 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-S3-A6ZG TCGA-W8-A86G 
       33.90        31.07         7.23         6.81         5.29 

  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE 
                         21.63                          21.37 
[1] "0.1 - 211.6 (21.6)" "0.0 - 234.3 (21.4)"
[1] "hr=" "1.2"
D47V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 19(9Q21.11) MUTATED        23       16        1        0       100
  DEL PEAK 19(9Q21.11) WILD-TYPE      57       61        8        9       235
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 19(9Q21.11) MUTATED          56         1         43         12
  DEL PEAK 19(9Q21.11) WILD-TYPE       168         1         95         15
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 19(9Q21.11) MUTATED           19        8         0       4
  DEL PEAK 19(9Q21.11) WILD-TYPE         40        9         1      12
D47V3, multiclass
            clus
vv           DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  STAGE I                              23                             57
  STAGE IA                             16                             61
  STAGE IB                              1                              8
  STAGE II                              0                              9
  STAGE IIA                           100                            235
  STAGE IIB                            56                            168
  STAGE III                             1                              1
  STAGE IIIA                           43                             95
  STAGE IIIB                           12                             15
  STAGE IIIC                           19                             40
  STAGE IV                              8                              9
  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 19(9Q21.11) MUTATED    60 174  32  16
  DEL PEAK 19(9Q21.11) WILD-TYPE 198 407  85  20
D47V4, multiclass
    clus
vv   DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  T1                           60                            198
  T2                          174                            407
  T3                           32                             85
  T4                           16                             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 19(9Q21.11) MUTATED   135  84  38  23
  DEL PEAK 19(9Q21.11) WILD-TYPE 333 246  73  47
D47V5, multiclass
    clus
vv   DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  N0                          135                            333
  N1                           84                            246
  N2                           38                             73
  N3                           23                             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 19(9Q21.11) MUTATED          0 238   8  37
  DEL PEAK 19(9Q21.11) WILD-TYPE        2 607   9  94
D47V6, multiclass
          clus
vv         DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                238                            607
  M1                                  8                              9
  MX                                 37                             94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V7, binary
                                cls
clus                               0   1
  DEL PEAK 19(9Q21.11) MUTATED   277   6
  DEL PEAK 19(9Q21.11) WILD-TYPE 707   5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(9Q21.11) MUTATED    277    6
  DEL PEAK 19(9Q21.11) WILD-TYPE  707    5
        clus
vv       DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  FEMALE                          277                            707
  MALE                              6                              5
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 19(9Q21.11) MUTATED                            0
  DEL PEAK 19(9Q21.11) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 19(9Q21.11) MUTATED                             238
  DEL PEAK 19(9Q21.11) WILD-TYPE                           497
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 19(9Q21.11) MUTATED                               20
  DEL PEAK 19(9Q21.11) WILD-TYPE                            146
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 19(9Q21.11) MUTATED                     2
  DEL PEAK 19(9Q21.11) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 19(9Q21.11) MUTATED                                 10
  DEL PEAK 19(9Q21.11) WILD-TYPE                               19
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 19(9Q21.11) MUTATED                    3             10
  DEL PEAK 19(9Q21.11) WILD-TYPE                 11             34
D47V8, multiclass
                                  clus
vv                                 DEL PEAK 19(9Q21.11) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             238
  INFILTRATING LOBULAR CARCINOMA                             20
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           10
  MUCINOUS CARCINOMA                                          3
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 19(9Q21.11) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               497
  INFILTRATING LOBULAR CARCINOMA                              146
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             19
  MUCINOUS CARCINOMA                                           11
  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 19(9Q21.11) MUTATED    91 192
  DEL PEAK 19(9Q21.11) WILD-TYPE 191 521
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(9Q21.11) MUTATED     91  192
  DEL PEAK 19(9Q21.11) WILD-TYPE  191  521
     clus
vv    DEL PEAK 19(9Q21.11) MUTATED DEL PEAK 19(9Q21.11) WILD-TYPE
  NO                            91                            191
  YES                          192                            521
[1] 2 2
[1] FALSE
D47V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 19(9Q21.11) MUTATED                                  1    15
  DEL PEAK 19(9Q21.11) WILD-TYPE                                0    41
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 19(9Q21.11) MUTATED                          49   183
  DEL PEAK 19(9Q21.11) WILD-TYPE                        88   525
D47V11, multiclass
                                  clus
vv                                 DEL PEAK 19(9Q21.11) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      15
  BLACK OR AFRICAN AMERICAN                                  49
  WHITE                                                     183
                                  clus
vv                                 DEL PEAK 19(9Q21.11) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        41
  BLACK OR AFRICAN AMERICAN                                    88
  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"
D47V12, binary
                                cls
clus                               0   1
  DEL PEAK 19(9Q21.11) MUTATED    13 217
  DEL PEAK 19(9Q21.11) WILD-TYPE  23 579
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(9Q21.11) MUTATED     13  217
  DEL PEAK 19(9Q21.11) WILD-TYPE   23  579
                        clus
vv                       DEL PEAK 19(9Q21.11) MUTATED
  HISPANIC OR LATINO                               13
  NOT HISPANIC OR LATINO                          217
                        clus
vv                       DEL PEAK 19(9Q21.11) WILD-TYPE
  HISPANIC OR LATINO                                 23
  NOT HISPANIC OR LATINO                            579
[1] 2 2
[1] FALSE

Clustering(48) Variable = DEL PEAK 20(9Q34.2) MUTATION ANALYSIS
D48V1, survival
                               sevent
clus2                             0   1
  DEL PEAK 20(9Q34.2) MUTATED   249  30
  DEL PEAK 20(9Q34.2) WILD-TYPE 611  84
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                          279                           695 
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                           30                            84 
$`DEL PEAK 20(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         3.42        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 
       41.06        31.00         1.02         9.01        33.01        18.97 
TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08O TCGA-A8-A08P 
        8.98         9.96        18.05        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        31.00        33.07        15.02 
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-AN-A03X 
        0.92         2.27         1.81         0.07         0.69         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AK 
        0.33         0.23         0.62         1.78         1.71         7.36 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FW TCGA-AN-A0FZ 
        6.51         0.16         0.33         7.96         0.36         0.33 
TCGA-AN-A0XN TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03N 
        0.33         0.33         0.33         5.33        80.28        66.77 
TCGA-AO-A03O TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 
       81.63        29.13        32.78        17.65        24.16        37.48 
TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A129 TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KQ 
       72.00        55.33        96.10        48.36        41.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A54N 
       70.39        17.79        26.93         5.65        15.62         2.56 
TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TS TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U1 
       21.86        82.88        37.41        55.86        65.36        70.16 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AP TCGA-AR-A1AQ 
       76.18        55.36        75.55        61.84        39.98        43.07 
TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24N TCGA-AR-A24S 
       35.24        20.22       109.58        50.89        68.19        62.07 
TCGA-AR-A24V TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LL 
       54.18        45.17        40.64        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        22.26 
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-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1P3 TCGA-EW-A1P4 
       28.77        25.94        22.82        29.85        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PD TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS 
       23.11         7.86        13.94        19.96        55.00        52.73 
TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DB 
       25.91        17.49        10.16        10.59       109.87        53.13 
TCGA-GM-A2DF TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FQ 
       42.71        11.57         2.99         4.70         3.25         2.63 
TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 
        3.88         5.59         3.22        26.20        10.29         9.80 
TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG 
       18.21         4.44         6.81 

$`DEL PEAK 20(9Q34.2) 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-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       20.88        31.79        39.32        19.20        18.21       104.81 
TCGA-A2-A04Q TCGA-A2-A04T TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        73.84        63.12        64.04        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      125.59        24.79       112.08        92.48        88.60       107.93 
TCGA-A2-A0CS TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 
       75.55        63.45        64.04        56.81        21.14        33.76 
TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ 
       28.77        25.22       101.72        89.36       107.61        79.76 
TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       74.40        37.05        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-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-A0YJ 
       32.55        25.28        15.42        21.90        14.50        18.61 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ 
       19.33        14.63        31.73        23.47        17.36        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-A4RW TCGA-A2-A4RX 
       29.98        14.07        49.48        31.99         7.30         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG 
        8.81         8.91        12.00         6.74        38.30        34.29 
TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E 
       35.47        33.11        10.72        23.61        29.56        31.36 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       24.26        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-A4SA TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY 
       14.93        14.73        12.10        10.72        11.05         8.75 
TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 
       13.02        17.98        29.03        26.01        17.03        53.98 
TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O 
       19.99        18.97        14.01        12.00        17.03         9.99 
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-A08G 
       36.95        13.02         0.99        23.08        19.99        19.96 
TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       37.05         9.99        19.07        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       19.07        16.01        17.95        41.98        12.00         9.99 
TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09K TCGA-A8-A09R TCGA-A8-A09V TCGA-A8-A09W 
        9.99        13.02        29.98         8.98        15.02         0.99 
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-A2FB TCGA-AC-A2FG TCGA-AC-A2FK 
       10.85         2.66         1.48        40.57        36.99        38.79 
TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
       26.04        50.70         0.99         0.69        14.83         9.40 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.12         1.68         1.55         1.32         1.55         1.12 
TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A046 TCGA-AN-A04A 
        1.81         1.18         0.43         1.74         0.33         2.96 
TCGA-AN-A0AJ TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK 
        8.02         0.33         0.33         6.44         4.64         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX 
        7.59         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U 
        5.59        47.84        84.69        68.75        47.87        59.05 
TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB 
       21.40        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        38.53        62.04 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       71.80       102.58        99.25        93.70        94.59        90.58 
TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP 
       77.56        64.04        57.30        28.37        14.73        82.62 
TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TQ 
        0.53        24.79       130.09        13.22         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ 
        5.26        56.88        29.75        24.30        64.83        76.14 
TCGA-AR-A0U2 TCGA-AR-A1AJ TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       83.87        52.77        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX 
       43.56        17.23        40.83        46.32        42.58        36.26 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       73.02        65.46        65.69         0.85        66.05        57.40 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       53.26        53.36        50.96        48.16        51.75        56.15 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN 
       39.85        34.82       128.65        20.25        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        20.38        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-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-A0IP TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       110.93        68.45       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT 
       81.17        78.02       172.96       140.48       100.70        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-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-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A40B 
       58.88       101.52        73.51       139.17       170.17        82.88 
TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 
       55.00        38.79        20.45        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       40.83        39.16        56.94        37.22        32.02        18.21 
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-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 
       53.95        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-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-A0E2 TCGA-BH-A0E7 
       45.17        47.41        16.27        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-A0H7 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK 
       35.51        24.56        23.08        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-A0RX TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F 
       50.79         5.59        24.95        42.35        44.81         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-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ET 
       30.28        37.55        51.39        51.16        91.99        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-A1FB TCGA-BH-A1FC TCGA-BH-A1FE 
       31.53        89.16        97.48       120.62       114.15        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
      122.89        36.92        63.35        55.00       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q 
        6.90         0.72        38.60        83.31        10.65         6.44 
TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12N 
       20.12       109.28         8.94        11.93        11.77        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 
        0.07        12.66        12.66         1.45         0.62         3.85 
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-A26Z 
        2.30         3.25         0.30         0.23         0.43         8.28 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 
        9.67         0.03         0.03         0.03        12.20         0.03 
TCGA-C8-A3M8 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JA 
        0.23        20.58        13.97        21.14        14.17        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI 
       18.71        18.15        18.90        12.03        14.01        18.97 
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-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB 
       13.32        14.70        16.73        25.74        23.90        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-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV 
       17.69         7.96        15.85         6.35        12.99        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-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-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-A14S 
       28.44        28.87        47.15        40.96        38.24        33.17 
TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A153 
       33.30        43.33        34.26        28.60        27.12        23.24 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E 
       21.04        23.87        14.79        22.82        17.29        20.71 
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-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-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-A1IJ TCGA-E2-A1IK 
       38.30        37.41        32.78        33.73        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-A1LL 
       19.66        24.59        40.47        28.90        18.87        43.04 
TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 
       16.93         5.52        15.72         7.20        18.05        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        12.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        26.07        18.41        15.72         0.23         0.39 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26         0.23        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-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PA 
       40.41        41.13        39.78        18.48        30.08        18.90 
TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FW 
       19.99         6.15        10.52        14.43        34.55        22.09 
TCGA-EW-A3E8 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DD 
       21.27         7.40        59.57       194.27        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        32.28        69.30        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U 
       57.63        13.55        18.12        11.84         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        4.60         0.66         3.58         6.90         5.56         3.65 
TCGA-LL-A5YO TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-LQ-A4E4 
        3.19         4.14         4.50         4.50         6.21        15.91 
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         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66I 
       27.65        24.10        16.87        14.10        14.76        23.70 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-W8-A86G 
       54.51        33.90        31.07         7.23         5.29 

  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                       211.56                        234.28 
  DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE 
                        21.86                         21.14 
[1] "0.1 - 211.6 (21.9)" "0.0 - 234.3 (21.1)"
[1] "hr=" "1"  
D48V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 20(9Q34.2) MUTATED        23       16        0        1       106
  DEL PEAK 20(9Q34.2) WILD-TYPE      57       61        9        8       229
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 20(9Q34.2) MUTATED          52         1         43         14
  DEL PEAK 20(9Q34.2) WILD-TYPE       172         1         95         13
                               vv
clus                            STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 20(9Q34.2) MUTATED           17        5         0       5
  DEL PEAK 20(9Q34.2) WILD-TYPE         42       12         1      11
D48V3, multiclass
            clus
vv           DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  STAGE I                             23                            57
  STAGE IA                            16                            61
  STAGE IB                             0                             9
  STAGE II                             1                             8
  STAGE IIA                          106                           229
  STAGE IIB                           52                           172
  STAGE III                            1                             1
  STAGE IIIA                          43                            95
  STAGE IIIB                          14                            13
  STAGE IIIC                          17                            42
  STAGE IV                             5                            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
  DEL PEAK 20(9Q34.2) MUTATED    57 182  28  15
  DEL PEAK 20(9Q34.2) WILD-TYPE 201 399  89  21
D48V4, multiclass
    clus
vv   DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  T1                          57                           201
  T2                         182                           399
  T3                          28                            89
  T4                          15                            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 20(9Q34.2) MUTATED   143  79  39  20
  DEL PEAK 20(9Q34.2) WILD-TYPE 325 251  72  50
D48V5, multiclass
    clus
vv   DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  N0                         143                           325
  N1                          79                           251
  N2                          39                            72
  N3                          20                            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 20(9Q34.2) MUTATED          0 244   5  34
  DEL PEAK 20(9Q34.2) WILD-TYPE        2 601  12  97
D48V6, multiclass
          clus
vv         DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  CM0 (I+)                           0                             2
  M0                               244                           601
  M1                                 5                            12
  MX                                34                            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"
D48V7, binary
                               cls
clus                              0   1
  DEL PEAK 20(9Q34.2) MUTATED   276   7
  DEL PEAK 20(9Q34.2) WILD-TYPE 708   4
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 20(9Q34.2) MUTATED    276    7
  DEL PEAK 20(9Q34.2) WILD-TYPE  708    4
        clus
vv       DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  FEMALE                         276                           708
  MALE                             7                             4
[1] 2 2
[1] FALSE
                               vv
clus                            INFILTRATING CARCINOMA NOS
  DEL PEAK 20(9Q34.2) MUTATED                            0
  DEL PEAK 20(9Q34.2) WILD-TYPE                          1
                               vv
clus                            INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 20(9Q34.2) MUTATED                             243
  DEL PEAK 20(9Q34.2) WILD-TYPE                           492
                               vv
clus                            INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 20(9Q34.2) MUTATED                               18
  DEL PEAK 20(9Q34.2) WILD-TYPE                            148
                               vv
clus                            MEDULLARY CARCINOMA
  DEL PEAK 20(9Q34.2) MUTATED                     4
  DEL PEAK 20(9Q34.2) WILD-TYPE                   1
                               vv
clus                            MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 20(9Q34.2) MUTATED                                  6
  DEL PEAK 20(9Q34.2) WILD-TYPE                               23
                               vv
clus                            MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 20(9Q34.2) MUTATED                    3              8
  DEL PEAK 20(9Q34.2) WILD-TYPE                 11             36
D48V8, multiclass
                                  clus
vv                                 DEL PEAK 20(9Q34.2) MUTATED
  INFILTRATING CARCINOMA NOS                                 0
  INFILTRATING DUCTAL CARCINOMA                            243
  INFILTRATING LOBULAR CARCINOMA                            18
  MEDULLARY CARCINOMA                                        4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           6
  MUCINOUS CARCINOMA                                         3
  OTHER  SPECIFY                                             8
                                  clus
vv                                 DEL PEAK 20(9Q34.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              492
  INFILTRATING LOBULAR CARCINOMA                             148
  MEDULLARY CARCINOMA                                          1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            23
  MUCINOUS CARCINOMA                                          11
  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 20(9Q34.2) MUTATED    90 193
  DEL PEAK 20(9Q34.2) WILD-TYPE 192 520
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 20(9Q34.2) MUTATED     90  193
  DEL PEAK 20(9Q34.2) WILD-TYPE  192  520
     clus
vv    DEL PEAK 20(9Q34.2) MUTATED DEL PEAK 20(9Q34.2) WILD-TYPE
  NO                           90                           192
  YES                         193                           520
[1] 2 2
[1] FALSE
D48V10, continuous
                               vv
clus                            AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 20(9Q34.2) MUTATED                                  0    16
  DEL PEAK 20(9Q34.2) WILD-TYPE                                1    40
                               vv
clus                            BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 20(9Q34.2) MUTATED                          55   182
  DEL PEAK 20(9Q34.2) WILD-TYPE                        82   526
D48V11, multiclass
                                  clus
vv                                 DEL PEAK 20(9Q34.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                           0
  ASIAN                                                     16
  BLACK OR AFRICAN AMERICAN                                 55
  WHITE                                                    182
                                  clus
vv                                 DEL PEAK 20(9Q34.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                             1
  ASIAN                                                       40
  BLACK OR AFRICAN AMERICAN                                   82
  WHITE                                                      526
[1] 4 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 20(9Q34.2) MUTATED    13 222
  DEL PEAK 20(9Q34.2) WILD-TYPE  23 574
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 20(9Q34.2) MUTATED     13  222
  DEL PEAK 20(9Q34.2) WILD-TYPE   23  574
                        clus
vv                       DEL PEAK 20(9Q34.2) MUTATED
  HISPANIC OR LATINO                              13
  NOT HISPANIC OR LATINO                         222
                        clus
vv                       DEL PEAK 20(9Q34.2) WILD-TYPE
  HISPANIC OR LATINO                                23
  NOT HISPANIC OR LATINO                           574
[1] 2 2
[1] FALSE

Clustering(49) Variable = DEL PEAK 21(10Q23.31) MUTATION ANALYSIS
D49V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 21(10Q23.31) MUTATED   260  35
  DEL PEAK 21(10Q23.31) WILD-TYPE 600  79
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                            295                             679 
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                             35                              79 
$`DEL PEAK 21(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         9.01        12.00        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        18.05        12.00 
TCGA-A8-A08L TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E 
        9.99        33.99        12.00         9.99        12.00        31.00 
TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 
       33.07        15.02         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-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        2.27         1.81         0.69         8.02         7.36         6.51 
TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ 
        0.33         0.33         0.33         0.36         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M 
        0.33         0.30         0.33         0.33         5.59        47.84 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 
       66.77        84.69        47.87        59.05        29.13        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JA TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 
       17.65        37.48        21.53        72.00        55.33       102.58 
TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G TCGA-AQ-A04H TCGA-AQ-A04J 
       96.10        64.04        48.36        41.62        24.79        26.93 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV 
       21.86         9.99         5.26        37.41        56.88        29.75 
TCGA-AR-A0TW TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AI 
       24.30        65.36        70.16        83.87        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AM TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L 
       52.77        62.56        17.23        20.22       109.58        73.02 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A251 
       66.05        57.40        53.36        50.96        56.15        45.17 
TCGA-AR-A254 TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QQ 
       39.85        42.87         7.36        20.81        20.38        10.59 
TCGA-B6-A0I1 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IO TCGA-B6-A0IQ 
       77.62       129.57       176.98        18.77       110.14       140.88 
TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RU TCGA-B6-A0WT TCGA-B6-A0WX 
      211.56        81.17       100.70       131.21       188.68        21.47 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW 
       73.51       139.17        54.28        49.94        38.79        20.45 
TCGA-BH-A0B3 TCGA-BH-A0BA TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BT TCGA-BH-A0BV 
       39.55        37.22        21.70        44.05        45.57        49.94 
TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0EB TCGA-BH-A0GZ TCGA-BH-A0H7 
       11.67        49.05        44.02        24.49        10.78        23.08 
TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0WA TCGA-BH-A18I 
       41.00        52.96        13.61        51.32        23.05         7.23 
TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1EU TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F6 
        7.36        91.99        42.28        17.69        31.53        97.48 
TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A202 TCGA-BH-A208 
       24.66       114.15        36.92        45.63         0.72        57.83 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A132 TCGA-C8-A134 
       11.93        11.77        12.66        12.66         1.45         0.69 
TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       11.34        12.03         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A27A TCGA-C8-A27B TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A142 
        0.36        12.20         0.99         0.23        11.90        13.97 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JG 
       14.17        17.49        18.71        15.78        12.03        12.03 
TCGA-D8-A1JI TCGA-D8-A1X5 TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK 
       18.97        18.58        18.15        15.22        21.83        14.50 
TCGA-D8-A1XQ TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27I 
       16.41        12.99        15.16        15.32        16.04        14.43 
TCGA-D8-A27M TCGA-D8-A27T TCGA-D8-A3Z6 TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14R 
       13.48        13.08        18.51        40.11        47.15        38.60 
TCGA-E2-A14T TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A159 
       33.30        28.60        17.03        25.41        27.12        25.05 
TCGA-E2-A15A TCGA-E2-A15F TCGA-E2-A15P TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1IJ 
       23.34        21.63        19.56        38.30        33.73        28.44 
TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       22.19        27.42        18.87       106.75       102.61         8.75 
TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1ND TCGA-E9-A1NF 
        7.20        22.26        19.89        13.48        12.59        20.05 
TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RC 
        9.86         0.62         2.10        21.21        20.81        40.24 
TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G 
        6.58        34.59        34.13        22.75        12.89        23.51 
TCGA-E9-A244 TCGA-E9-A248 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A54Y 
        0.69         1.94        17.75        26.07         0.62         0.23 
TCGA-E9-A5FK TCGA-E9-A6HE TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1P4 TCGA-EW-A1P5 
        0.39        15.39        28.77        22.82        29.82        23.11 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A2FS TCGA-EW-A2FV TCGA-GI-A2C8 TCGA-GI-A2C9 
        7.86        18.90        52.73        25.91         7.40       109.87 
TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A5YM 
       53.52        43.04        62.33        69.30        11.57         4.70 
TCGA-LL-A5YO TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-OL-A5RW TCGA-OL-A66I TCGA-OL-A66P 
        3.19         4.50         6.21        26.20        23.70         4.44 
TCGA-S3-A6ZG 
        6.81 

$`DEL PEAK 21(10Q23.31) 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-A0SK TCGA-A1-A0SM TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
       20.88        31.79         7.96        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y 
       41.95        82.16        22.06        63.12        55.43        36.13 
TCGA-A2-A0CK TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR 
      125.59        24.79       112.08        92.48        88.60       107.93 
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-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-A0EW TCGA-A2-A0EX TCGA-A2-A0EY 
       37.05        35.05        34.29        29.75        24.72        24.16 
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-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC 
        8.38        20.52        17.46        18.90        20.75        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        14.63 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A1G0 
       31.73        23.77        23.47        17.36        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        14.07 
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         8.81         8.91 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
        6.74         3.42        38.30        35.31        34.29        35.47 
TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13G TCGA-A7-A26F TCGA-A7-A26H 
       37.45        33.11        31.73        23.61        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-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW 
       13.41        14.70        11.97        17.92        12.10        10.72 
TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06X 
       10.42        13.02        13.02         1.02        41.06        31.00 
TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07F 
       26.01         1.02        17.03         9.01        33.01        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-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 
        9.96         9.99        28.04        18.05        36.95        13.02 
TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08O 
        0.99        23.08        19.99        19.96        37.05        31.00 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 
       31.00         0.99        19.07        93.04        40.01        19.07 
TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09C TCGA-A8-A09D 
       16.01        17.95        41.98         9.99         1.02        13.02 
TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X 
       29.98         1.02        25.02        15.02         0.99        14.01 
TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-AC-A23E TCGA-AC-A23G 
       12.00        13.02         0.99        13.02         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-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-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
        9.40         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP 
        1.55         0.07         1.12         1.18         0.43         1.74 
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-A04C TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF 
        1.78         1.71         0.16         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.96         7.00         7.59         7.17         6.28         6.02 
TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV 
        0.33         0.33        12.33         0.33         0.33         5.33 
TCGA-AO-A03L TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 
       80.28        81.63        68.75        21.40        24.16        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF 
       22.36        53.03        50.70        50.86        76.77        21.37 
TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 
       26.24        38.53        62.04        71.80        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12H TCGA-AO-A1KO 
       94.59        90.58        77.56        57.30        28.37        14.73 
TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04L 
       82.62        61.87        70.39         0.53        17.79       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ 
        5.65        15.62        13.22         2.56        82.88        49.32 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AK 
       64.83        55.86        76.14        76.18        55.36        51.25 
TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS 
       48.82        43.73        43.56        39.98        43.07        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24M 
       46.32        42.58        35.24        36.26        50.89        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24V 
       68.19        65.69         0.85        62.07        53.26        54.18 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       48.16        51.75        40.64        34.82        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       20.25        40.04        17.10        16.96        54.74        16.04 
TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC 
       20.45       143.38       149.59        12.13       220.90        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP 
       65.72       146.50       112.37       126.12        84.59       110.93 
TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO 
       68.45       189.01       234.28        78.02       172.96       162.05 
TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WV 
      102.77       140.48        89.46       157.41        97.48        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-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 
       82.88        55.00        24.53        25.55        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 
       40.83        39.16        48.36        56.94        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO 
       32.02        18.21        25.71        24.85        61.68        35.67 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0C0 TCGA-BH-A0C3 
       48.69        27.19        53.69        53.95        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-A0EE 
       14.30         9.63        44.81        46.19        32.65        31.00 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.43        30.35        15.16        37.78        35.51        24.56 
TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HU 
       26.50        20.38         5.85         2.50        36.85        12.89 
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-A18J TCGA-BH-A18K TCGA-BH-A18L 
       44.81         8.81         2.01        20.12        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
       72.56        37.74        30.28        55.63        37.55        66.05 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EV 
       51.39        51.16        69.93       113.82        82.85        12.00 
TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FD 
       55.69        49.58        25.81        89.16       120.62        33.17 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR 
       74.73       122.89        63.35        55.00        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O 
       72.07         6.90        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-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 
       12.66        11.77         0.07        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.78         0.62         3.85         3.75        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A273 
       11.34         0.16        10.42         0.43         8.28         9.67 
TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 
        0.03         0.03         0.03         0.03        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JA 
       20.58        14.17        13.48        21.14        19.20        16.50 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL 
       18.15        18.90        14.01        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-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-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-A1XS TCGA-D8-A1XT TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       16.31         6.35        12.66        16.54        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K 
       14.24        14.14        17.42        13.45        13.05         9.44 
TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W 
       16.41         4.80         0.76        10.09        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 
       14.50         7.33        43.00        34.42        27.52        46.59 
TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14P 
       40.41        37.51        28.44        28.87        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
       38.24        33.17        43.33        34.26        32.02        31.96 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15C 
       23.24        19.43        21.04        23.87        14.79        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-A15M TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15S 
        9.04        20.58         7.73        13.02        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-A1IF TCGA-E2-A1IG TCGA-E2-A1II 
       28.50        16.47        17.10        37.41        32.78        33.70 
TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 
       22.65         3.88        20.98        11.08        54.18        39.62 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A2P5 
       19.66        24.59        40.47        28.90        43.04        16.93 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 
        5.52        15.72        18.05        19.20        36.82        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ 
       13.12        36.56        39.55        35.77        21.57        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RD 
       14.30         6.12         1.38         2.76        32.09         0.66 
TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.65        21.27        35.64         0.79        12.53        13.32 
TCGA-E9-A22A TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 
       39.09        24.10        17.06         0.85        27.22         0.95 
TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A5FL 
       12.56         0.72         0.76        18.41        15.72         0.26 
TCGA-E9-A5UO TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J1 
        0.23        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        32.28        53.95        57.63        13.55        18.12 
TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       11.84         8.28         6.67         4.60         0.66         2.99 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ 
        3.58         6.90         5.56         3.65         3.25         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 
        3.88         4.14         4.50         5.59         3.22        15.91 
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         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
       27.65        24.10        16.87        14.10        10.29         9.80 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       14.76        54.51        33.90        31.07        18.21         7.23 
TCGA-W8-A86G 
        5.29 

  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                           0.23                            0.03 
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE 
                          21.04                           22.06 
[1] "0.2 - 211.6 (21.0)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.1"
D49V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 21(10Q23.31) MUTATED        23       17        1        5        95
  DEL PEAK 21(10Q23.31) WILD-TYPE      57       60        8        4       240
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 21(10Q23.31) MUTATED          62         1         49         12
  DEL PEAK 21(10Q23.31) WILD-TYPE       162         1         89         15
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 21(10Q23.31) MUTATED           23        5         0       4
  DEL PEAK 21(10Q23.31) WILD-TYPE         36       12         1      12
D49V3, multiclass
            clus
vv           DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  STAGE I                               23                              57
  STAGE IA                              17                              60
  STAGE IB                               1                               8
  STAGE II                               5                               4
  STAGE IIA                             95                             240
  STAGE IIB                             62                             162
  STAGE III                              1                               1
  STAGE IIIA                            49                              89
  STAGE IIIB                            12                              15
  STAGE IIIC                            23                              36
  STAGE IV                               5                              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 21(10Q23.31) MUTATED    66 180  33  18
  DEL PEAK 21(10Q23.31) WILD-TYPE 192 401  84  18
D49V4, multiclass
    clus
vv   DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  T1                            66                             192
  T2                           180                             401
  T3                            33                              84
  T4                            18                              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 21(10Q23.31) MUTATED   133  94  41  26
  DEL PEAK 21(10Q23.31) WILD-TYPE 335 236  70  44
D49V5, multiclass
    clus
vv   DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  N0                           133                             335
  N1                            94                             236
  N2                            41                              70
  N3                            26                              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 21(10Q23.31) MUTATED          1 261   5  31
  DEL PEAK 21(10Q23.31) WILD-TYPE        1 584  12 100
D49V6, multiclass
          clus
vv         DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  CM0 (I+)                             1                               1
  M0                                 261                             584
  M1                                   5                              12
  MX                                  31                             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"
D49V7, binary
                                 cls
clus                                0   1
  DEL PEAK 21(10Q23.31) MUTATED   297   1
  DEL PEAK 21(10Q23.31) WILD-TYPE 687  10
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(10Q23.31) MUTATED    297    1
  DEL PEAK 21(10Q23.31) WILD-TYPE  687   10
        clus
vv       DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  FEMALE                           297                             687
  MALE                               1                              10
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 21(10Q23.31) MUTATED                            0
  DEL PEAK 21(10Q23.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 21(10Q23.31) MUTATED                             236
  DEL PEAK 21(10Q23.31) WILD-TYPE                           499
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 21(10Q23.31) MUTATED                               32
  DEL PEAK 21(10Q23.31) WILD-TYPE                            134
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 21(10Q23.31) MUTATED                     4
  DEL PEAK 21(10Q23.31) WILD-TYPE                   1
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 21(10Q23.31) MUTATED                                  8
  DEL PEAK 21(10Q23.31) WILD-TYPE                               21
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 21(10Q23.31) MUTATED                    1             16
  DEL PEAK 21(10Q23.31) WILD-TYPE                 13             28
D49V8, multiclass
                                  clus
vv                                 DEL PEAK 21(10Q23.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              236
  INFILTRATING LOBULAR CARCINOMA                              32
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             8
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              16
                                  clus
vv                                 DEL PEAK 21(10Q23.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                499
  INFILTRATING LOBULAR CARCINOMA                               134
  MEDULLARY CARCINOMA                                            1
  MIXED HISTOLOGY (PLEASE SPECIFY)                              21
  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"
D49V9, binary
                                 cls
clus                                0   1
  DEL PEAK 21(10Q23.31) MUTATED    93 205
  DEL PEAK 21(10Q23.31) WILD-TYPE 189 508
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(10Q23.31) MUTATED     93  205
  DEL PEAK 21(10Q23.31) WILD-TYPE  189  508
     clus
vv    DEL PEAK 21(10Q23.31) MUTATED DEL PEAK 21(10Q23.31) WILD-TYPE
  NO                             93                             189
  YES                           205                             508
[1] 2 2
[1] FALSE
D49V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 21(10Q23.31) MUTATED                                  0    18
  DEL PEAK 21(10Q23.31) WILD-TYPE                                1    38
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 21(10Q23.31) MUTATED                          50   202
  DEL PEAK 21(10Q23.31) WILD-TYPE                        87   506
D49V11, multiclass
                                  clus
vv                                 DEL PEAK 21(10Q23.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       18
  BLACK OR AFRICAN AMERICAN                                   50
  WHITE                                                      202
                                  clus
vv                                 DEL PEAK 21(10Q23.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         38
  BLACK OR AFRICAN AMERICAN                                     87
  WHITE                                                        506
[1] 4 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 21(10Q23.31) MUTATED     5 248
  DEL PEAK 21(10Q23.31) WILD-TYPE  31 548
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(10Q23.31) MUTATED      5  248
  DEL PEAK 21(10Q23.31) WILD-TYPE   31  548
                        clus
vv                       DEL PEAK 21(10Q23.31) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           248
                        clus
vv                       DEL PEAK 21(10Q23.31) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             548
[1] 2 2
[1] FALSE

Clustering(50) Variable = DEL PEAK 22(10Q26.3) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 22(10Q26.3) MUTATED   257  39
  DEL PEAK 22(10Q26.3) WILD-TYPE 603  75
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                           296                            678 
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                            39                             75 
$`DEL PEAK 22(10Q26.3) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A2-A04P TCGA-A2-A04T TCGA-A2-A0CS 
       31.79        39.32        19.20        18.02        73.84        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D4 
       75.25         5.19        64.04        21.14        33.76        25.22 
TCGA-A2-A0SV TCGA-A2-A0T0 TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YG TCGA-A2-A0YJ 
       27.12        17.52        18.71        18.21        21.90        18.61 
TCGA-A2-A1FW TCGA-A2-A1FX TCGA-A2-A1G1 TCGA-A2-A25B TCGA-A2-A3XS TCGA-A2-A3XT 
       17.36        36.79        19.20        16.31        33.93        83.01 
TCGA-A2-A3XU TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CJ TCGA-A7-A0DA 
       29.98         7.30         9.01        12.00        30.61        35.67 
TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A2KD TCGA-A7-A4SB TCGA-A7-A4SD 
       10.72        12.72        31.36        22.32        13.74        14.50 
TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06Q 
       21.17        14.73        10.29        10.42         8.75         1.02 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A076 TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07L 
       29.03        31.00        53.98        18.97        14.01        17.03 
TCGA-A8-A07R TCGA-A8-A084 TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L 
        8.98        15.06        18.05        12.00        37.05         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08X TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09E 
       31.00         0.99        33.99        12.00         9.99        31.00 
TCGA-A8-A09I TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD 
       33.07         8.98        19.04         0.99        17.03        38.04 
TCGA-AC-A23C TCGA-AC-A23H TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3W6 
        0.95         2.66         1.02         0.92         2.27         1.68 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK 
        1.12         1.81         0.69         1.71         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FV TCGA-AN-A0FW 
        6.51         0.16         0.33         7.96         0.33         0.36 
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-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J4 
       47.84        66.77        47.87        59.05        29.13        17.65 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A12D TCGA-AO-A12F 
       21.53        50.70        72.00        55.33        64.04        48.36 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54O 
       17.79        24.79        26.93       130.09         5.65        21.86 
TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY 
        9.99         5.26        37.41        29.75        24.30        55.86 
TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK 
       65.36        83.87        55.36        75.55        52.77        51.25 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24Q TCGA-AR-A24R 
       43.07        17.23        20.22       109.58        66.05        57.40 
TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LK 
       53.36        50.96        56.15        45.17        93.83        42.87 
TCGA-AR-A2LL TCGA-AR-A2LO TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0IK 
        7.36        20.81        20.38        16.04        10.59        18.77 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RT TCGA-B6-A0RU 
      140.88       211.56        68.45        81.17        89.46       131.21 
TCGA-B6-A0WX TCGA-B6-A0X1 TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 
       21.47       186.48        73.51       139.17        54.28        49.94 
TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0B3 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BJ 
       38.79        20.45        39.55        56.98        37.22        21.70 
TCGA-BH-A0BP TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0EB 
       48.69        49.94        11.67        49.05        44.02        24.49 
TCGA-BH-A0EE TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HW 
       31.00        10.78        23.08        41.00        52.96        51.32 
TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A1EO 
       50.79        23.05         7.23        55.63         7.36        91.99 
TCGA-BH-A1EU TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FH 
       42.28        31.53        97.48        24.66       114.15        36.92 
TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 
       45.63        72.07         0.72        38.60        57.83       130.16 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12U TCGA-C8-A12W TCGA-C8-A132 
       11.93        11.77        12.66        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-A26Y TCGA-C8-A27A TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A142 
        0.23         0.43        12.20         0.23        11.90        13.97 
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-A1JG TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JP TCGA-D8-A1X5 
       12.03        18.97        20.12        20.09        21.01        18.58 
TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XU TCGA-D8-A1XV 
       18.15        15.22        21.83        14.50        12.99        15.16 
TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27T TCGA-E2-A108 
       15.32        16.04        13.05        14.43        13.08        27.52 
TCGA-E2-A10C TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A150 
       40.11        38.60        33.30        32.02        28.60        25.41 
TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15P 
       27.12        14.79        25.05        20.71        21.63        19.56 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1IE TCGA-E2-A1IN TCGA-E2-A1L7 TCGA-E2-A1LB 
       17.06        14.07        38.30        22.19        27.42        40.47 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 
       18.87       106.75       102.61         7.20        22.26        19.89 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 
       39.55        12.59        20.05         9.86         0.62         2.10 
TCGA-E9-A1R7 TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22E 
       21.21        40.24         6.58        34.59        34.13        12.89 
TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA 
        0.69        27.22         1.94        17.75        26.07         0.62 
TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 
        0.23         0.39        28.77        22.82        40.41        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 
       23.11         7.86         6.15        52.73        25.91        17.49 
TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A3XL TCGA-JL-A3YW TCGA-JL-A3YX 
      109.87        43.04        62.33        69.30        11.84        11.57 
TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5RW 
        4.70         3.19         4.50         6.21        15.91        26.20 
TCGA-OL-A66I TCGA-S3-A6ZG 
       23.70         6.81 

$`DEL PEAK 22(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       125.59        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 
       14.63        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        14.07        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         8.81         8.91 
TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH 
        6.74         3.42        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        41.06        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        33.01        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         9.96         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        23.08        19.99        19.96 
TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 
       31.00        19.07        93.04        40.01        19.07        16.01 
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        13.02 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09W 
       29.98        15.02         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         9.40         1.12         1.81         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP 
        1.32         1.55         0.07         1.18         0.43         1.74 
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-A04C TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK 
        1.78         0.33         0.33         6.44         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-A0XO TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L 
        0.33        12.33         0.33         0.33         5.33        80.28 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J5 
       81.63        84.69        68.75        32.78        21.40        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE 
       37.48        20.32        22.36        53.03        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        38.53        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        93.70        94.59        96.10        90.58        77.56 
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-A1KR TCGA-AO-A1KS TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AR-A0TP 
       70.39         0.53        15.62        13.22         2.56        82.88 
TCGA-AR-A0TQ TCGA-AR-A0TT TCGA-AR-A0TX TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U3 
       49.32        56.88        64.83        76.14        70.16        76.18 
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-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24K 
       40.83        46.32        42.58        35.24        36.26        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24S 
       73.02        65.46        68.19        65.69         0.85        62.07 
TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A252 TCGA-AR-A254 
       53.26        54.18        48.16        51.75        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ 
       34.82       128.65        20.25        40.04        17.10        16.96 
TCGA-AR-A5QM TCGA-AR-A5QP TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       54.74        20.45        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-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RH 
      176.98       126.12        84.59       110.14       110.93       189.01 
TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
      234.28        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW 
      100.70       157.41        97.48       188.68        79.63        17.98 
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-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C 
       43.59       101.52       170.17        85.35        82.88        55.00 
TCGA-BH-A0AU TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       24.53        25.55        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF 
       48.36        56.94        51.68        32.02        18.21        25.71 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BR 
       24.85        44.05        61.68        35.67        27.19        53.69 
TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       53.95        45.57        41.75        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-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-A0E9 TCGA-BH-A0EA TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H0 
       44.81        46.19        32.65        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-A0HP TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0RX 
        2.50        13.61        36.85        12.89        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-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-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1ES 
       37.55        66.05        51.39        51.16        69.93       113.82 
TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       82.85        12.00        55.69        49.58        17.69        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-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A204 TCGA-BH-A28O 
       55.00       144.59        72.07         6.90        83.31        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-A130 TCGA-C8-A131 
       11.77         0.07        12.66        12.66         3.12         1.78 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF TCGA-C8-A1HG 
        0.62         3.85         3.75        12.33        10.92        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.16        10.42         0.36         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Z TCGA-D8-A140 
        0.03         0.03         0.99         0.03        20.88        13.25 
TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1JA TCGA-D8-A1JD 
       20.58        14.17        13.48        21.14        16.50        18.15 
TCGA-D8-A1JE TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS 
       18.90        14.01        20.09        19.40        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-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM 
       27.58         2.66        17.16        14.73        19.92        17.69 
TCGA-D8-A1XO TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XW 
        7.96        16.41        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-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-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-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E 
       43.00        34.42        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-A14S 
       28.87        47.15        44.68        40.96        38.24        33.17 
TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 
       43.33        34.26        31.96        17.03        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15G 
       21.04        23.87        23.34        22.82        17.29        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-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       13.02        14.99        60.53        53.62        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-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IO 
       33.73        33.70        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-A1LE 
       11.08        54.18        39.62        19.66        24.59        28.90 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
        8.75        43.04        16.93         5.52        15.72        18.05 
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-A1NE TCGA-E9-A1NG TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 
       35.77        21.57        11.90        14.30         6.12         1.38 
TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG 
        2.76        32.09        20.81         0.66        34.65        21.27 
TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
       35.64         0.79        12.53        13.32        39.09        22.75 
TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A249 TCGA-E9-A24A 
       23.51        24.10        17.06         0.85         0.95        12.56 
TCGA-E9-A295 TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A5FL TCGA-E9-A5UO 
        0.72         0.76        18.41        15.72         0.26         0.23 
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        32.28        53.95        57.63        13.55        18.12 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR 
        6.90         5.56         3.65         3.25         2.63         3.88 
TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.14         4.50         5.59         3.22         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         7.53        44.61        27.65        24.10 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66J 
       16.87        14.10        10.29         9.80        14.76        54.51 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       33.90        31.07        18.21         7.23         4.44         5.29 

  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                          0.16                           0.03 
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE 
                        20.415                         22.405 
[1] "0.2 - 211.6 (20.4)" "0.0 - 234.3 (22.4)"
[1] "hr=" "1.5"
D50V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 22(10Q26.3) MUTATED        23       15        1        4        96
  DEL PEAK 22(10Q26.3) WILD-TYPE      57       62        8        5       239
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 22(10Q26.3) MUTATED          64         1         55         10
  DEL PEAK 22(10Q26.3) WILD-TYPE       160         1         83         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 22(10Q26.3) MUTATED           18        7         0       4
  DEL PEAK 22(10Q26.3) WILD-TYPE         41       10         1      12
D50V3, multiclass
            clus
vv           DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  STAGE I                              23                             57
  STAGE IA                             15                             62
  STAGE IB                              1                              8
  STAGE II                              4                              5
  STAGE IIA                            96                            239
  STAGE IIB                            64                            160
  STAGE III                             1                              1
  STAGE IIIA                           55                             83
  STAGE IIIB                           10                             17
  STAGE IIIC                           18                             41
  STAGE IV                              7                             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 22(10Q26.3) MUTATED    64 182  37  15
  DEL PEAK 22(10Q26.3) WILD-TYPE 194 399  80  21
D50V4, multiclass
    clus
vv   DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  T1                           64                            194
  T2                          182                            399
  T3                           37                             80
  T4                           15                             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 22(10Q26.3) MUTATED   134  97  44  20
  DEL PEAK 22(10Q26.3) WILD-TYPE 334 233  67  50
D50V5, multiclass
    clus
vv   DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  N0                          134                            334
  N1                           97                            233
  N2                           44                             67
  N3                           20                             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 22(10Q26.3) MUTATED          1 259   7  32
  DEL PEAK 22(10Q26.3) WILD-TYPE        1 586  10  99
D50V6, multiclass
          clus
vv         DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                259                            586
  M1                                  7                             10
  MX                                 32                             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"
D50V7, binary
                                cls
clus                               0   1
  DEL PEAK 22(10Q26.3) MUTATED   297   2
  DEL PEAK 22(10Q26.3) WILD-TYPE 687   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(10Q26.3) MUTATED    297    2
  DEL PEAK 22(10Q26.3) WILD-TYPE  687    9
        clus
vv       DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  FEMALE                          297                            687
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 22(10Q26.3) MUTATED                            0
  DEL PEAK 22(10Q26.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 22(10Q26.3) MUTATED                             245
  DEL PEAK 22(10Q26.3) WILD-TYPE                           490
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 22(10Q26.3) MUTATED                               28
  DEL PEAK 22(10Q26.3) WILD-TYPE                            138
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 22(10Q26.3) MUTATED                     4
  DEL PEAK 22(10Q26.3) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 22(10Q26.3) MUTATED                                  7
  DEL PEAK 22(10Q26.3) WILD-TYPE                               22
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 22(10Q26.3) MUTATED                    1             13
  DEL PEAK 22(10Q26.3) WILD-TYPE                 13             31
D50V8, multiclass
                                  clus
vv                                 DEL PEAK 22(10Q26.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             245
  INFILTRATING LOBULAR CARCINOMA                             28
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            7
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             13
                                  clus
vv                                 DEL PEAK 22(10Q26.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               490
  INFILTRATING LOBULAR CARCINOMA                              138
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             22
  MUCINOUS CARCINOMA                                           13
  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 22(10Q26.3) MUTATED    90 209
  DEL PEAK 22(10Q26.3) WILD-TYPE 192 504
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(10Q26.3) MUTATED     90  209
  DEL PEAK 22(10Q26.3) WILD-TYPE  192  504
     clus
vv    DEL PEAK 22(10Q26.3) MUTATED DEL PEAK 22(10Q26.3) WILD-TYPE
  NO                            90                            192
  YES                          209                            504
[1] 2 2
[1] FALSE
D50V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 22(10Q26.3) MUTATED                                  0    21
  DEL PEAK 22(10Q26.3) WILD-TYPE                                1    35
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 22(10Q26.3) MUTATED                          48   201
  DEL PEAK 22(10Q26.3) WILD-TYPE                        89   507
D50V11, multiclass
                                  clus
vv                                 DEL PEAK 22(10Q26.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      21
  BLACK OR AFRICAN AMERICAN                                  48
  WHITE                                                     201
                                  clus
vv                                 DEL PEAK 22(10Q26.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        35
  BLACK OR AFRICAN AMERICAN                                    89
  WHITE                                                       507
[1] 4 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 22(10Q26.3) MUTATED     4 248
  DEL PEAK 22(10Q26.3) WILD-TYPE  32 548
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(10Q26.3) MUTATED      4  248
  DEL PEAK 22(10Q26.3) WILD-TYPE   32  548
                        clus
vv                       DEL PEAK 22(10Q26.3) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          248
                        clus
vv                       DEL PEAK 22(10Q26.3) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            548
[1] 2 2
[1] FALSE

Clustering(51) Variable = DEL PEAK 23(11P15.5) MUTATION ANALYSIS
D51V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 23(11P15.5) MUTATED   251  35
  DEL PEAK 23(11P15.5) WILD-TYPE 609  79
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                           286                            688 
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                            35                             79 
$`DEL PEAK 23(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         9.96        36.95        13.02         0.99        18.05 
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        33.99 
TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09T 
        9.99        12.00         1.02        33.07        15.02        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-AN-A041 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AL 
        1.02         1.81         0.23         2.96         1.78         6.51 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XN 
        0.16         0.33         6.02         0.36         0.33         0.33 
TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03M TCGA-AO-A03P TCGA-AO-A03T 
        0.33         0.33         0.33        47.84        84.69        47.87 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JD 
       32.78        17.65        20.32        53.03        50.70        72.00 
TCGA-AO-A0JL TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KS TCGA-AQ-A04J TCGA-AQ-A1H2 
       55.33        48.36        41.62         0.53        26.93        15.62 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0U0 
        2.56        82.88        56.88        29.75        64.83        65.36 
TCGA-AR-A1AI TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24S 
       61.84        35.24       109.58        73.02        66.05        62.07 
TCGA-AR-A24T TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LO 
       53.26        51.75        45.17        93.83         7.36        20.81 
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-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1NA 
      102.61         8.75        43.04        36.82        13.12        36.56 
TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1R2 TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH 
       12.59        20.05         0.62         6.58        21.27        34.59 
TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A295 
       12.53        22.75        12.89        23.51         0.69         0.72 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A5UO TCGA-EW-A1J1 TCGA-EW-A1OZ 
       17.75        26.07         0.62         0.23        18.90        40.41 
TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PH 
        7.86        18.90         6.15        13.94        14.43        19.96 
TCGA-EW-A2FR TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DD TCGA-GM-A2DF 
       55.00        17.49         7.40       109.87        43.04        42.71 
TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A3XL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YP 
       61.91        90.84        69.30         4.70         3.65         3.25 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5D6 
        2.63         3.88         3.22         6.21        15.91        12.66 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-S3-A6ZG 
        9.80        23.70        33.90         6.81 

$`DEL PEAK 23(11P15.5) 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-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W 
       18.21       104.81        41.95        82.16        63.12        64.04 
TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP 
       55.43        36.13       125.59        64.57        24.79        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-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EN 
       64.04        33.76        28.77        25.22       101.72        89.36 
TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU TCGA-A2-A0EV 
       80.28       107.61        74.40        37.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SY 
       29.75        24.72        99.19        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-A0YE TCGA-A2-A0YF TCGA-A2-A0YH 
       20.75        32.55        25.28        18.21        15.42        21.67 
TCGA-A2-A0YI TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       14.50        19.33        14.63        23.47        17.36        36.79 
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-A25C TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
      107.70        17.19        18.15        10.59        20.88        39.65 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RX 
       29.98        14.07        49.48        34.98        31.99         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
        8.81         8.91        12.00         6.74         3.42        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-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY 
       29.56        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-A4SE TCGA-A7-A4SF TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX 
       13.74        21.17        17.92        12.10        10.72        11.05 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A079 
       13.02         1.02        41.06        26.01        53.98         9.01 
TCGA-A8-A07B TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O 
       33.01        18.97        14.01        12.00        17.03         9.99 
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-A08B TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08T 
       23.08        19.99        19.96        31.00        19.07        93.04 
TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 
       40.01        19.07        16.01        17.95        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09Q 
        9.99        13.02        31.00        29.98         1.02        25.02 
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-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23G 
       21.04         0.99        13.02        38.04         0.95        10.85 
TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FK TCGA-AC-A2FM 
        2.66         1.48        40.57        55.43        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-A5XS 
        9.40         1.12         1.68         1.55         1.32         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-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04D 
        1.74         0.33         0.33         0.33         0.62         1.71 
TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF 
        8.02         7.36         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV 
        7.96         7.00         7.59         7.17         6.28         0.33 
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-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R 
        5.33         5.59        80.28        66.77        81.63        68.75 
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-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        38.53 
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        93.70        94.59 
TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12H 
       96.10        90.58        77.56        64.04        57.30        28.37 
TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H 
       14.73        82.62        61.87        70.39        17.79        24.79 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TQ 
      130.09         5.65        13.22        21.86         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 
        5.26        37.41        24.30        55.86        76.14        70.16 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK 
       83.87        76.18        55.36        75.55        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-A1AV TCGA-AR-A1AX TCGA-AR-A1AY 
       17.23        40.83        46.32        42.58        36.26        20.22 
TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       50.89        65.46        68.19        65.69         0.85        57.40 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 
       53.36        54.18        50.96        48.16        56.15        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM 
       39.85        34.82       128.65        20.25        42.87        40.04 
TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       17.10        16.96        20.38        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       10.59        77.62       149.59       220.90       129.57        50.70 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IP TCGA-B6-A0IQ 
      146.50       112.37       126.12        84.59       110.93       140.88 
TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
      211.56       189.01       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      162.05       102.77       140.48        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
      188.68        79.63       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-A2IU 
       28.27        68.94        58.88        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B0 
       85.35        82.88        55.00        24.53        28.50        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ 
       40.83        56.98        51.68        18.21        24.85        21.70 
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-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DH 
       11.67        49.05        42.90        45.83        23.44        38.01 
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-A0E0 TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 
       47.41         4.41        15.68        14.30         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       46.19        32.65        24.49        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-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-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-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-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-A1EW TCGA-BH-A1EX 
      113.82        82.85        42.28        12.00        55.69        49.58 
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-A1FJ TCGA-BH-A1FL TCGA-BH-A1FM 
       33.17        74.73       122.89        63.35        55.00        45.63 
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-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-A12V TCGA-C8-A12X TCGA-C8-A131 
        8.94        11.77        12.66        12.66        12.66         1.78 
TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HM 
        0.69         3.85        12.33        11.34        10.42         2.30 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 
        0.30         0.23         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-A146 
        0.99         0.03         0.23        13.25        20.58        21.14 
TCGA-D8-A147 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JG 
       19.20        16.50        18.71        18.15        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       14.01        18.97        20.09        20.09        19.40        20.38 
TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 TCGA-D8-A1X7 TCGA-D8-A1X9 
       12.20        13.32        14.70        18.58        16.73        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-A1XO TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV 
       19.92        17.69         7.96        15.85         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-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-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-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-A14V TCGA-E2-A14W TCGA-E2-A14Y 
       33.17        33.30        43.33        34.26        32.02        28.60 
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-A15F TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K 
       17.29        21.63        12.92        17.42        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T 
       20.58        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-A1IF TCGA-E2-A1IG TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL 
       37.41        32.78        33.70        28.44        22.65         3.88 
TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LA 
       22.19        20.98        11.08        54.18        19.66        24.59 
TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
       40.47        18.87        16.93         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 
       18.05        22.26        19.89        19.20        13.48        12.00 
TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       39.55        35.77        21.57         9.86        11.90        14.30 
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-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RI TCGA-E9-A226 
       20.81        40.24         0.66        34.65        35.64        34.13 
TCGA-E9-A227 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 
        0.79        13.32        39.09        24.10        17.06         0.85 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3Q9 
       27.22         1.94         0.95        12.56         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW 
       15.72         0.23         0.39         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        32.28        53.95        57.63        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         8.28         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YO 
        0.66         2.99         3.58         6.90         5.56         3.19 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-MS-A51U TCGA-OK-A5Q2 
        4.14         4.50         4.50         5.59         2.79         2.10 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW 
       46.55         7.53        44.61        27.65        24.10        26.20 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L 
       16.87        14.10        10.29        14.76        54.51        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-W8-A86G 
       18.21         7.23         4.44         5.29 

  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                        176.98                         234.28 
  DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE 
                        20.580                         21.975 
[1] "0.0 - 177.0 (20.6)" "0.0 - 234.3 (22.0)"
[1] "hr=" "1.3"
D51V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 23(11P15.5) MUTATED        19       14        0        2       103
  DEL PEAK 23(11P15.5) WILD-TYPE      61       63        9        7       232
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 23(11P15.5) MUTATED          67         0         46          9
  DEL PEAK 23(11P15.5) WILD-TYPE       157         2         92         18
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 23(11P15.5) MUTATED           19        3         1       6
  DEL PEAK 23(11P15.5) WILD-TYPE         40       14         0      10
D51V3, multiclass
            clus
vv           DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  STAGE I                              19                             61
  STAGE IA                             14                             63
  STAGE IB                              0                              9
  STAGE II                              2                              7
  STAGE IIA                           103                            232
  STAGE IIB                            67                            157
  STAGE III                             0                              2
  STAGE IIIA                           46                             92
  STAGE IIIB                            9                             18
  STAGE IIIC                           19                             40
  STAGE IV                              3                             14
  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 23(11P15.5) MUTATED    55 190  30  13
  DEL PEAK 23(11P15.5) WILD-TYPE 203 391  87  23
D51V4, multiclass
    clus
vv   DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  T1                           55                            203
  T2                          190                            391
  T3                           30                             87
  T4                           13                             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 23(11P15.5) MUTATED   135  90  39  21
  DEL PEAK 23(11P15.5) WILD-TYPE 333 240  72  49
D51V5, multiclass
    clus
vv   DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  N0                          135                            333
  N1                           90                            240
  N2                           39                             72
  N3                           21                             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
  DEL PEAK 23(11P15.5) MUTATED          0 255   3  31
  DEL PEAK 23(11P15.5) WILD-TYPE        2 590  14 100
D51V6, multiclass
          clus
vv         DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                255                            590
  M1                                  3                             14
  MX                                 31                            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"
D51V7, binary
                                cls
clus                               0   1
  DEL PEAK 23(11P15.5) MUTATED   285   4
  DEL PEAK 23(11P15.5) WILD-TYPE 699   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11P15.5) MUTATED    285    4
  DEL PEAK 23(11P15.5) WILD-TYPE  699    7
        clus
vv       DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  FEMALE                          285                            699
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 23(11P15.5) MUTATED                            0
  DEL PEAK 23(11P15.5) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 23(11P15.5) MUTATED                             237
  DEL PEAK 23(11P15.5) WILD-TYPE                           498
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 23(11P15.5) MUTATED                               27
  DEL PEAK 23(11P15.5) WILD-TYPE                            139
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 23(11P15.5) MUTATED                     3
  DEL PEAK 23(11P15.5) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 23(11P15.5) MUTATED                                 10
  DEL PEAK 23(11P15.5) WILD-TYPE                               19
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 23(11P15.5) MUTATED                    2             10
  DEL PEAK 23(11P15.5) WILD-TYPE                 12             34
D51V8, multiclass
                                  clus
vv                                 DEL PEAK 23(11P15.5) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             237
  INFILTRATING LOBULAR CARCINOMA                             27
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           10
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 23(11P15.5) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               498
  INFILTRATING LOBULAR CARCINOMA                              139
  MEDULLARY CARCINOMA                                           2
  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"
D51V9, binary
                                cls
clus                               0   1
  DEL PEAK 23(11P15.5) MUTATED    86 203
  DEL PEAK 23(11P15.5) WILD-TYPE 196 510
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11P15.5) MUTATED     86  203
  DEL PEAK 23(11P15.5) WILD-TYPE  196  510
     clus
vv    DEL PEAK 23(11P15.5) MUTATED DEL PEAK 23(11P15.5) WILD-TYPE
  NO                            86                            196
  YES                          203                            510
[1] 2 2
[1] FALSE
D51V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 23(11P15.5) MUTATED                                  0    19
  DEL PEAK 23(11P15.5) WILD-TYPE                                1    37
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 23(11P15.5) MUTATED                          54   185
  DEL PEAK 23(11P15.5) WILD-TYPE                        83   523
D51V11, multiclass
                                  clus
vv                                 DEL PEAK 23(11P15.5) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      19
  BLACK OR AFRICAN AMERICAN                                  54
  WHITE                                                     185
                                  clus
vv                                 DEL PEAK 23(11P15.5) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        37
  BLACK OR AFRICAN AMERICAN                                    83
  WHITE                                                       523
[1] 4 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 23(11P15.5) MUTATED     7 225
  DEL PEAK 23(11P15.5) WILD-TYPE  29 571
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(11P15.5) MUTATED      7  225
  DEL PEAK 23(11P15.5) WILD-TYPE   29  571
                        clus
vv                       DEL PEAK 23(11P15.5) MUTATED
  HISPANIC OR LATINO                                7
  NOT HISPANIC OR LATINO                          225
                        clus
vv                       DEL PEAK 23(11P15.5) WILD-TYPE
  HISPANIC OR LATINO                                 29
  NOT HISPANIC OR LATINO                            571
[1] 2 2
[1] FALSE

Clustering(52) Variable = DEL PEAK 24(11Q13.1) MUTATION ANALYSIS
D52V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 24(11Q13.1) MUTATED   195  23
  DEL PEAK 24(11Q13.1) WILD-TYPE 665  91
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                           218                            756 
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                            23                             91 
$`DEL PEAK 24(11Q13.1) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SJ TCGA-A1-A0SO TCGA-A2-A04V TCGA-A2-A0CL 
       14.37        43.43        13.68        28.01        63.12        64.57 
TCGA-A2-A0CM TCGA-A2-A0CO TCGA-A2-A0CX TCGA-A2-A0D4 TCGA-A2-A0ET TCGA-A2-A0SX 
       24.79       112.08        56.81        25.22        35.05        50.43 
TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0YT TCGA-A2-A1FX TCGA-A2-A1G4 TCGA-A2-A25B 
       18.71        20.52        23.77        36.79        19.56        16.31 
TCGA-A2-A3XS TCGA-A2-A3XX TCGA-A2-A3Y0 TCGA-A7-A0CE TCGA-A7-A13D TCGA-A7-A13E 
       33.93        38.40        38.37        35.31        31.73        10.72 
TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26J TCGA-A7-A3IZ TCGA-A7-A4SD TCGA-A8-A06O 
       12.72        31.36        20.61        10.59        14.50        13.02 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07W 
        1.02        41.06         1.02         9.01        33.01         9.99 
TCGA-A8-A082 TCGA-A8-A086 TCGA-A8-A08G TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08S 
       18.05        13.02        19.96        37.05         0.99        19.07 
TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09K 
       33.99        19.07        17.95        12.00        12.00        29.98 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A0A2 TCGA-A8-A0A6 TCGA-AC-A23E TCGA-AC-A2BM 
        8.98        19.04        19.04        21.04         2.37        38.20 
TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3HN TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX 
       26.04         1.02         0.69         1.18         0.69         0.43 
TCGA-AN-A03Y TCGA-AN-A04A TCGA-AN-A0FT TCGA-AN-A0FZ TCGA-AN-A0XS TCGA-AN-A0XU 
        0.33         2.96         6.02         0.33         0.33         0.33 
TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JD 
        5.59        47.84        21.40        20.32        53.03        72.00 
TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A12E TCGA-AO-A1KT TCGA-AQ-A04J 
       26.24        55.33       102.58        57.30        17.79        26.93 
TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AR-A0TV TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 
       15.62         2.56        29.75        65.36        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24L 
       76.18        51.25        42.58        35.24       109.58        73.02 
TCGA-AR-A24R TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A2LK TCGA-AR-A2LO TCGA-B6-A0I9 
       57.40        54.18        51.75        42.87        20.81        12.13 
TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0RL TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A1KF 
       18.77       126.12        81.17       131.21        21.47       101.52 
TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A40B TCGA-BH-A0AV TCGA-BH-A0B5 TCGA-BH-A0BA 
      139.17        54.28        82.88        38.79        48.36        37.22 
TCGA-BH-A0BD TCGA-BH-A0BL TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       18.21        44.05        44.02        48.13        45.83        31.17 
TCGA-BH-A0DL TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ 
       48.23        14.30         9.63        31.00        24.43        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HX TCGA-BH-A18I TCGA-BH-A18L 
       15.16        23.08        52.96        27.25         7.23        26.66 
TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EW TCGA-BH-A1F8 
       30.28        37.55        69.93       113.82        55.69        24.66 
TCGA-BH-A201 TCGA-BH-A28Q TCGA-BH-A42T TCGA-C8-A12M TCGA-C8-A12Q TCGA-C8-A12U 
        6.90         6.44         0.99        11.77         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ 
       12.66         3.75        10.92        11.34        11.34         0.16 
TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26W TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A27A 
       12.03        10.42         0.23         0.43         8.28        12.20 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A145 TCGA-D8-A147 
        0.99         0.03         0.23        20.88        13.48        19.20 
TCGA-D8-A1J8 TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1X6 TCGA-D8-A1XF TCGA-D8-A1XS 
       14.17        18.90        18.97        17.79        15.22        16.31 
TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A27G TCGA-D8-A27W TCGA-E2-A105 
       12.99        15.32        15.52        13.45        12.26        43.00 
TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14O TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A15E 
       46.59        40.11        44.68        38.60        34.26        20.71 
TCGA-E2-A15G TCGA-E2-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1BC TCGA-E2-A1BD 
       18.21        13.02        17.06        14.99        16.47        17.10 
TCGA-E2-A1IH TCGA-E2-A1IU TCGA-E2-A1L8 TCGA-E2-A2P6 TCGA-E2-A573 TCGA-E9-A1N5 
       33.73        11.08        39.62         5.52        22.26        36.82 
TCGA-E9-A1N9 TCGA-E9-A1R7 TCGA-E9-A1RI TCGA-E9-A22B TCGA-E9-A2JS TCGA-EW-A1IW 
       13.12        21.21        35.64        22.75        17.75        12.20 
TCGA-EW-A1J5 TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1PC TCGA-EW-A1PF 
       15.68        29.85        40.41        29.82         6.15        14.43 
TCGA-EW-A2FR TCGA-EW-A423 TCGA-GM-A2DI TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XL 
       55.00        10.16        61.91        53.36       110.50        69.30 
TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 
        4.70         3.19         3.25         3.88         5.59         3.22 
TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5D6 TCGA-OL-A5S0 TCGA-OL-A66J TCGA-OL-A66K 
        6.21        15.91        12.66         9.80        54.51        33.90 
TCGA-OL-A66O TCGA-S3-A6ZG 
        7.23         6.81 

$`DEL PEAK 24(11Q13.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK 
        8.52        48.10        14.27        47.24        20.88        31.79 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04P 
        7.96        39.32        19.20        18.21       104.81        18.02 
TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X 
       41.95        82.16        73.84        22.06        64.04        55.43 
TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CS 
       36.13       125.59        92.48        88.60       107.93        75.55 
TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D1 
       75.25         5.19        63.45        64.04        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-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-A0SV TCGA-A2-A0SW 
       24.72        24.16        99.19        54.64        27.12        44.88 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0T6 
       44.28        17.52        17.13         8.38        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        14.63        31.73 
TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 TCGA-A2-A1G6 
       23.47        17.36        22.45        20.25        19.20        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
       52.47       107.70        17.19        18.15        91.92        10.59 
TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW 
       20.88        39.65        83.01        29.98        14.07        49.48 
TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 
       34.98        31.99         7.30         9.01         8.81         8.91 
TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH 
       12.00         6.74         3.42        38.30        34.29        35.47 
TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H 
       30.61        37.45        35.67        33.11        23.61        29.56 
TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I TCGA-A7-A2KD TCGA-A7-A3IY 
       24.26        23.74        23.80        21.73        22.32        11.34 
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-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW 
       13.74        21.17        17.92        14.73        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06P 
       11.05        10.29         9.37        10.42         8.75        13.02 
TCGA-A8-A06R TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 
       17.98        29.03        31.00        26.01        17.03        53.98 
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-A07Z 
        9.99        10.98         8.98         7.99         9.96        28.04 
TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F 
       15.06        36.95         0.99        23.08        19.99        18.05 
TCGA-A8-A08I TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08T TCGA-A8-A08Z 
       12.00         9.99        31.00        31.00        93.04        40.01 
TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D 
       16.01        41.98         9.99         9.99         1.02        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09V 
       31.00        33.07        15.02         1.02        25.02        15.02 
TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 
        0.99        14.01        12.00        13.02         0.99        13.02 
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-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO 
       38.53        40.57        55.43        36.99        38.79        50.70 
TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN 
        0.92         2.27         0.99        14.83         9.40         1.12 
TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        1.81         1.68         1.55         1.32         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A046 
        1.12         1.81         1.74         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        0.62         1.78         1.71         8.02         7.36         6.51 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF 
        0.16         0.33         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV 
        7.96         7.00         7.59         7.17         6.28         0.33 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO 
        0.36         0.33         0.33         0.33         0.33        12.33 
TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03N 
        0.30         0.33         0.33         5.33        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-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 TCGA-AO-A0JA 
       32.78        17.65        24.16        37.48        22.36        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.70        50.86        76.77        21.37        38.53        62.04 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
       71.80        99.25        93.70        94.59        96.10        90.58 
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-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04L 
       82.62        61.87        70.39         0.53        24.79       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
        5.65        13.22        21.86         9.99        82.88        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
        5.26        37.41        56.88        24.30        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AL 
       76.14        55.36        75.55        61.84        52.77        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-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M 
       40.83        46.32        36.26        20.22        50.89        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T 
       68.19        65.69         0.85        66.05        62.07        53.26 
TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       53.36        50.96        48.16        56.15        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL 
       39.85        34.82        93.83       128.65        20.25         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        17.10        16.96        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-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-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-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-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-A2IU 
       28.27        68.94        58.88        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY 
       85.35        49.94        55.00        24.53        20.45        25.55 
TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B6 
       28.50        46.95        40.83        39.55        39.16        56.94 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ 
       56.98        51.68        32.02        25.71        24.85        21.70 
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-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C7 
       45.57        49.94        11.67        49.05        41.75        42.90 
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-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-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
        4.41        15.68        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-A0HB 
       30.35        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-A0HU 
       20.38         5.85         2.50        13.61        36.85        12.89 
TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       51.32        50.79         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18J TCGA-BH-A18K 
       44.81        23.05         8.81         2.01        20.12        90.84 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U 
       72.56        37.74        55.63        66.05         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EX 
       51.16        91.99        82.85        42.28        12.00        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-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-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A202 
       55.00        45.63        72.07       144.59        72.07         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-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
      109.28         8.94        11.93        11.77        12.66        11.77 
TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66         3.12         1.78         1.45         0.69 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V 
        0.62         3.85        12.33         2.30         3.25         0.30 
TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 TCGA-D8-A13Y 
        0.36         9.67         0.03         0.03         0.03        11.90 
TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A1J9 
       13.25        20.58        13.97        14.17        21.14        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JG 
       16.50        18.71        15.78        18.15        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JN 
       14.01        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-A1X7 
       21.01        12.20        13.32        14.70        18.58        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-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-A1XQ TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY 
       16.41        15.85         6.35        15.16        12.66        16.54 
TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H 
        3.81        14.24        14.14        17.42        16.04        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-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
       10.09        13.08        12.53        14.50        18.51         7.33 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F 
       34.42        27.52        40.41        37.51        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-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 
       32.02        31.96        28.60        17.03        25.41        27.12 
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-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-A15L TCGA-E2-A15M TCGA-E2-A15P TCGA-E2-A15S 
       19.40         9.04        20.58         7.73        19.56        14.07 
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-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-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
        3.88        22.19        20.98        54.18        27.42        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-A3DX TCGA-E2-A56Z TCGA-E2-A570 
        8.75        43.04        16.93        15.72         7.20        18.05 
TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       19.89        19.20        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-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-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-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-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A244 
       39.09        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        12.56         0.72 
TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y 
        0.76        26.07        18.41         0.62        15.72         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX TCGA-EW-A1IY 
        0.39         0.26         0.23        15.39        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J6 TCGA-EW-A1OV 
       18.21        18.90        13.25        16.57        28.77        25.94 
TCGA-EW-A1OW TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 
       22.82        29.95        41.13        39.78        52.96        23.11 
TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD 
       18.48        30.08         7.86        18.90        19.99        13.94 
TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW 
       10.52        34.55        19.96        52.73        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-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-A3NY TCGA-GM-A3XG 
       62.33        90.84        76.64        77.33        38.20        32.28 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX 
       53.95        57.63        13.55        18.12        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
        8.28         6.67         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z 
        6.90         5.56         3.65         2.63         4.14         4.50 
TCGA-LL-A740 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA 
        4.50         2.79         2.10        46.55         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       27.65        24.10        26.20        16.87        14.10        10.29 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-W8-A86G 
       14.76        23.70        31.07        18.21         4.44         5.29 

  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                        139.17                         234.28 
  DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE 
                         19.38                          22.11 
[1] "0.0 - 139.2 (19.4)" "0.0 - 234.3 (22.1)"
[1] "hr=" "1.2"
D52V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 24(11Q13.1) MUTATED        14       15        1        1        74
  DEL PEAK 24(11Q13.1) WILD-TYPE      66       62        8        8       261
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 24(11Q13.1) MUTATED          55         1         36         11
  DEL PEAK 24(11Q13.1) WILD-TYPE       169         1        102         16
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 24(11Q13.1) MUTATED            8        3         0       3
  DEL PEAK 24(11Q13.1) WILD-TYPE         51       14         1      13
D52V3, multiclass
            clus
vv           DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  STAGE I                              14                             66
  STAGE IA                             15                             62
  STAGE IB                              1                              8
  STAGE II                              1                              8
  STAGE IIA                            74                            261
  STAGE IIB                            55                            169
  STAGE III                             1                              1
  STAGE IIIA                           36                            102
  STAGE IIIB                           11                             16
  STAGE IIIC                            8                             51
  STAGE IV                              3                             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
  DEL PEAK 24(11Q13.1) MUTATED    52 128  29  13
  DEL PEAK 24(11Q13.1) WILD-TYPE 206 453  88  23
D52V4, multiclass
    clus
vv   DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  T1                           52                            206
  T2                          128                            453
  T3                           29                             88
  T4                           13                             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 24(11Q13.1) MUTATED    99  79  29  10
  DEL PEAK 24(11Q13.1) WILD-TYPE 369 251  82  60
D52V5, multiclass
    clus
vv   DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  N0                           99                            369
  N1                           79                            251
  N2                           29                             82
  N3                           10                             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
  DEL PEAK 24(11Q13.1) MUTATED          1 188   3  30
  DEL PEAK 24(11Q13.1) WILD-TYPE        1 657  14 101
D52V6, multiclass
          clus
vv         DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                188                            657
  M1                                  3                             14
  MX                                 30                            101
[1] 4 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 24(11Q13.1) MUTATED   219   3
  DEL PEAK 24(11Q13.1) WILD-TYPE 765   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(11Q13.1) MUTATED    219    3
  DEL PEAK 24(11Q13.1) WILD-TYPE  765    8
        clus
vv       DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  FEMALE                          219                            765
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 24(11Q13.1) MUTATED                            0
  DEL PEAK 24(11Q13.1) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 24(11Q13.1) MUTATED                             163
  DEL PEAK 24(11Q13.1) WILD-TYPE                           572
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 24(11Q13.1) MUTATED                               37
  DEL PEAK 24(11Q13.1) WILD-TYPE                            129
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 24(11Q13.1) MUTATED                     1
  DEL PEAK 24(11Q13.1) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 24(11Q13.1) MUTATED                                  8
  DEL PEAK 24(11Q13.1) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 24(11Q13.1) MUTATED                    1             12
  DEL PEAK 24(11Q13.1) WILD-TYPE                 13             32
D52V8, multiclass
                                  clus
vv                                 DEL PEAK 24(11Q13.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             163
  INFILTRATING LOBULAR CARCINOMA                             37
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             12
                                  clus
vv                                 DEL PEAK 24(11Q13.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               572
  INFILTRATING LOBULAR CARCINOMA                              129
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  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"
D52V9, binary
                                cls
clus                               0   1
  DEL PEAK 24(11Q13.1) MUTATED    60 162
  DEL PEAK 24(11Q13.1) WILD-TYPE 222 551
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(11Q13.1) MUTATED     60  162
  DEL PEAK 24(11Q13.1) WILD-TYPE  222  551
     clus
vv    DEL PEAK 24(11Q13.1) MUTATED DEL PEAK 24(11Q13.1) WILD-TYPE
  NO                            60                            222
  YES                          162                            551
[1] 2 2
[1] FALSE
D52V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 24(11Q13.1) MUTATED                                  0    19
  DEL PEAK 24(11Q13.1) WILD-TYPE                                1    37
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 24(11Q13.1) MUTATED                          39   137
  DEL PEAK 24(11Q13.1) WILD-TYPE                        98   571
D52V11, multiclass
                                  clus
vv                                 DEL PEAK 24(11Q13.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      19
  BLACK OR AFRICAN AMERICAN                                  39
  WHITE                                                     137
                                  clus
vv                                 DEL PEAK 24(11Q13.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        37
  BLACK OR AFRICAN AMERICAN                                    98
  WHITE                                                       571
[1] 4 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 24(11Q13.1) MUTATED     9 169
  DEL PEAK 24(11Q13.1) WILD-TYPE  27 627
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(11Q13.1) MUTATED      9  169
  DEL PEAK 24(11Q13.1) WILD-TYPE   27  627
                        clus
vv                       DEL PEAK 24(11Q13.1) MUTATED
  HISPANIC OR LATINO                                9
  NOT HISPANIC OR LATINO                          169
                        clus
vv                       DEL PEAK 24(11Q13.1) WILD-TYPE
  HISPANIC OR LATINO                                 27
  NOT HISPANIC OR LATINO                            627
[1] 2 2
[1] FALSE

Clustering(53) Variable = DEL PEAK 25(11Q23.2) MUTATION ANALYSIS
D53V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 25(11Q23.2) MUTATED   444  54
  DEL PEAK 25(11Q23.2) WILD-TYPE 416  60
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                           498                            476 
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                            54                             60 
$`DEL PEAK 25(11Q23.2) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SM TCGA-A1-A0SN 
       14.37        43.43        47.24        13.68         7.96        39.32 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04R TCGA-A2-A04T 
       28.01        19.20        18.21        18.02        82.16        73.84 
TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CM 
       22.06        63.12        55.43       125.59        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-A3XS TCGA-A2-A3XW TCGA-A2-A3XX 
       91.92        20.88        39.65        33.93        49.48        38.40 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CE 
       38.37         7.30        12.00         6.74         3.42        35.31 
TCGA-A7-A0CJ TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13H TCGA-A7-A26E 
       30.61        31.73        10.72        12.72        29.56        31.36 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A3J1 TCGA-A7-A4SA TCGA-A7-A4SB 
       20.61        22.32        10.59        11.28        14.93        13.74 
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-A06O TCGA-A8-A06Q TCGA-A8-A06T 
        9.37        10.42         8.75        13.02         1.02        41.06 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       29.03        31.00         1.02         9.01        33.01        19.99 
TCGA-A8-A07I TCGA-A8-A07L TCGA-A8-A07P TCGA-A8-A07W TCGA-A8-A082 TCGA-A8-A085 
       14.01        17.03        10.98         9.99        18.05        36.95 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J 
       13.02         0.99        18.05        19.96        12.00        37.05 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08X TCGA-A8-A091 
        9.99        31.00        31.00        19.07        33.99        19.07 
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        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T 
       31.00        33.07        29.98        15.02         8.98        19.04 
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-A23C TCGA-AC-A23E TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
       17.03         0.95         2.37         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI 
       40.57        36.99        26.04        50.70         1.02         0.92 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IW 
        0.69        14.83         1.81         0.07         1.18         0.69 
TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A049 
        0.43         1.74         0.33         0.33         0.23         0.62 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AT TCGA-AN-A0FJ 
        2.96         1.78         8.02         7.36         0.33         7.96 
TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FZ 
        6.28         6.02         0.33         0.36         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XW TCGA-AO-A03L 
        0.33         0.33         0.33         0.33         5.59        80.28 
TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J3 
       47.84        81.63        84.69        47.87        29.13        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JA 
       17.65        24.16        37.48        20.32        53.03        21.53 
TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JL TCGA-AO-A0JM 
       72.00        76.77        21.37        26.24        55.33        71.80 
TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
      102.58        93.70        96.10        57.30        48.36        41.62 
TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A0Y5 
       61.87         0.53        17.79        24.79        26.93         5.65 
TCGA-AQ-A1H2 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW 
       15.62         2.56        21.86        56.88        29.75        24.30 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 
       76.14        65.36        70.16        83.87        76.18        55.36 
TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AV 
       61.84        51.25        62.56        39.98        46.32        42.58 
TCGA-AR-A1AW TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T 
       35.24       109.58        73.02        66.05        57.40        53.26 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       54.18        51.75        56.15        39.85        34.82        93.83 
TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LO TCGA-B6-A0I9 TCGA-B6-A0IB 
       42.87         7.36        40.04        20.81        12.13       129.57 
TCGA-B6-A0IG TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0RG TCGA-B6-A0RL 
      146.50       176.98        18.77       126.12        68.45        81.17 
TCGA-B6-A0RO TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      162.05       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        82.88        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-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
       44.02        48.13        45.83        31.17        23.44        38.01 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DQ TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 
       22.13        13.91         3.22        16.27         4.41        14.30 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H7 TCGA-BH-A0HA 
       31.00        24.43        10.78        15.16        23.08        52.96 
TCGA-BH-A0HB TCGA-BH-A0HK TCGA-BH-A0HP TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX 
       26.50         5.85        13.61        12.89        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W3 TCGA-BH-A0WA TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L 
       50.79        23.93        23.05         7.23        20.12        26.66 
TCGA-BH-A18M TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO 
       72.56        30.28        37.55        51.16        69.93        91.99 
TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F8 
      113.82        42.28        55.69        17.69        31.53        24.66 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FN TCGA-BH-A201 TCGA-BH-A204 
      114.15        33.17        74.73        72.07         6.90        83.31 
TCGA-BH-A28Q TCGA-BH-A42T TCGA-C8-A12M TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12W 
        6.44         0.99        11.77         0.07        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
        3.12         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-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A143 
        0.03         0.23        11.90        20.88        13.25        14.17 
TCGA-D8-A145 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC TCGA-D8-A1JD 
       13.48        14.17        17.49        16.50        15.78        18.15 
TCGA-D8-A1JE TCGA-D8-A1JI TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1X5 
       18.90        18.97        20.12        19.40        21.01        18.58 
TCGA-D8-A1X6 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XF TCGA-D8-A1XK TCGA-D8-A1XO 
       17.79        25.74        23.90        15.22        14.50         7.96 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A27G 
       16.31        12.99        15.32        15.52        14.24        13.45 
TCGA-D8-A27I TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W 
       14.43        13.48         4.80        10.09        12.53        12.26 
TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10E TCGA-E2-A14O 
       43.00        34.42        46.59        40.41        28.44        44.68 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A155 
       33.17        33.30        34.26        25.41        27.12        21.04 
TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15K 
       14.79        23.34        20.71        21.63        18.21         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-A1BD TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IU TCGA-E2-A1L7 
       17.10        38.30        32.78        33.73        11.08        27.42 
TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A56Z 
       39.62        24.59        43.04        16.93         5.52         7.20 
TCGA-E2-A573 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC 
       22.26        36.82        12.00        13.12        36.56        39.55 
TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R7 
       20.05        21.57         9.86        11.90         0.62        21.21 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A229 TCGA-E9-A22B 
       34.65         6.58        21.27        35.64        13.32        22.75 
TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A247 TCGA-E9-A295 
       12.89        23.51        24.10        17.06        27.22         0.72 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       26.07         0.62         0.26         0.23        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         8.28         4.60         5.56         4.70 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Z 
        3.65         3.19         3.25         2.63         3.88         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D7 
        5.59         3.22         6.21        15.91         2.10        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A5S0 
        7.53        44.61        26.20        14.10        10.29         9.80 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       54.51        33.90        18.21         7.23         4.44         6.81 

$`DEL PEAK 25(11Q23.2) 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-A04W TCGA-A2-A04Y TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CS 
       41.95        64.04        36.13        92.48        88.60        75.55 
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-A0EM TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0EU 
      101.72        89.36        80.28       107.61        37.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       31.82        24.72        24.16        99.19        27.12        44.88 
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-A0YJ TCGA-A2-A0YL TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G1 
       21.67        18.61        14.63        22.45        20.25        19.20 
TCGA-A2-A1G6 TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25D TCGA-A2-A25F TCGA-A2-A3XT 
       16.47        52.47       107.70        18.15        10.59        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RX TCGA-A2-A4RY 
       29.98        14.07        34.98        31.99         9.01         8.81 
TCGA-A2-A4S0 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA 
        8.91        38.30        34.29        35.47        37.45        35.67 
TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       33.11        23.61        24.26        23.74        23.80        21.73 
TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A5ZW 
       11.34        10.29        13.41        14.70        11.97        10.72 
TCGA-A7-A5ZX TCGA-A8-A06P TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 
       11.05        13.02        17.98        26.01        17.03        53.98 
TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07S 
       18.97        18.97        12.00         9.99         8.98         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A084 TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08R 
        9.96        28.04        15.06        23.08        19.99         0.99 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A092 TCGA-A8-A095 TCGA-A8-A099 TCGA-A8-A09N 
       93.04        40.01        16.01        41.98         9.99         1.02 
TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A7 TCGA-A8-A0AD TCGA-AC-A23G 
       25.02        15.02        14.01         0.99        38.04        10.85 
TCGA-AC-A23H TCGA-AC-A2FF TCGA-AC-A2FK TCGA-AC-A2QJ TCGA-AC-A3BB TCGA-AC-A3QP 
        2.66        55.43        38.79         2.27         0.99         9.40 
TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X 
        1.12         1.68         1.55         1.32         1.55         1.12 
TCGA-AC-A62Y TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR 
        1.81         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        38.53        62.04        99.25        94.59        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        13.22         9.99        82.88        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AL 
       37.41        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        40.83        36.26 
TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
       20.22        50.89        65.46        68.19        65.69         0.85 
TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A252 
       62.07        53.36        50.96        48.16        45.17        40.64 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
      128.65        20.25        17.10        16.96        20.38        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-A0IC TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IN TCGA-B6-A0IO 
      220.90        50.70        65.72       112.37        84.59       110.14 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM 
      110.93       140.88       211.56       189.01       234.28        78.02 
TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0WZ 
      172.96       102.77       140.48       100.70        89.46       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU 
      129.70        28.27        68.94        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 
       85.35        49.94        55.00        20.45        25.55        46.95 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF 
       40.83        39.55        39.16        56.98        51.68        25.71 
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-A0BW TCGA-BH-A0C7 TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS 
       11.67        42.90        48.23        17.26        15.65         2.56 
TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 
       38.47        45.17        47.41        15.68         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0H3 TCGA-BH-A0H5 
       46.19        32.65        24.49        30.35        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0RX 
       24.56        41.00        20.38         2.50        36.85         5.59 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18G TCGA-BH-A18K 
       24.95        42.35        44.81         8.81         2.01        90.84 
TCGA-BH-A18N TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A1ET 
       37.74        55.63        66.05         7.36        51.39        82.85 
TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F5 TCGA-BH-A1F6 TCGA-BH-A1FB 
       12.00        49.58        25.81        89.16        97.48       120.62 
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-A202 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
       72.07         0.72        38.60        57.83       130.16        10.65 
TCGA-BH-A2L8 TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O 
       20.12       109.28         8.94        11.93        11.77        12.66 
TCGA-C8-A12P TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A1HM 
       11.77        12.66        12.66         1.78         0.69         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-C8-A278 
        3.25         0.30         9.67         0.03         0.03         0.03 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JF 
       20.58        13.97        21.14        19.20        18.71        12.03 
TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JS 
       12.03        14.01        20.09        20.09        20.38        12.20 
TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XC 
       13.32        14.70        16.73        27.58        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ 
       17.16        14.73        21.83        19.92        17.69        16.41 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y1 
       15.85         6.35        15.16        12.66        16.54         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-A14U TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z 
       38.60        43.33        32.02        31.96        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D 
       23.24        19.43        23.87        25.05        22.82        17.29 
TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15L TCGA-E2-A1AZ TCGA-E2-A1B0 
       12.92        17.42        19.40        20.58        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IF 
       53.03        29.95        32.35        28.50        16.47        37.41 
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-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH 
       54.18        19.66        40.47        28.90        18.87       106.75 
TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 
      102.61         8.75        15.72        18.05        19.89        19.20 
TCGA-E9-A1N6 TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1R0 TCGA-E9-A1R3 TCGA-E9-A1R4 
       13.48        12.59        35.77        14.30         2.10         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD 
        1.38         2.76        32.09        20.81        40.24         0.66 
TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22A TCGA-E9-A244 
       34.59        34.13         0.79        12.53        39.09         0.69 
TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT 
        0.85         1.94         0.95        12.56        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-EW-A1IX TCGA-EW-A1IY 
       18.41        15.72         0.23         0.39        39.72         8.48 
TCGA-EW-A1IZ TCGA-EW-A1OW TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P6 
       18.21        22.82        41.13        39.78        52.96        18.48 
TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PB TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A1PH 
       30.08         7.86        19.99        10.52        34.55        19.96 
TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA 
       25.91        21.27        17.49         7.40       109.87       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK 
       53.13        53.52        42.71        42.28        61.91        62.33 
TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 
       76.64        77.33        38.20        32.28        53.95        57.63 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A74U TCGA-LL-A440 
       13.55        18.12        11.84        11.57         6.67         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A73Y TCGA-LL-A740 TCGA-MS-A51U 
        2.99         3.58         6.90         4.14         4.50         2.79 
TCGA-OL-A5D6 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66I 
       12.66        27.65        24.10        16.87        14.76        23.70 
TCGA-OL-A66L TCGA-W8-A86G 
       31.07         5.29 

  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                        188.68                         234.28 
  DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE 
                         20.73                          23.16 
[1] "0.0 - 188.7 (20.7)" "0.0 - 234.3 (23.2)"
[1] "hr=" "1.1"
D53V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 25(11Q23.2) MUTATED        32       32        4        5       166
  DEL PEAK 25(11Q23.2) WILD-TYPE      48       45        5        4       169
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 25(11Q23.2) MUTATED         127         1         81         16
  DEL PEAK 25(11Q23.2) WILD-TYPE        97         1         57         11
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 25(11Q23.2) MUTATED           25       11         0       9
  DEL PEAK 25(11Q23.2) WILD-TYPE         34        6         1       7
D53V3, multiclass
            clus
vv           DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  STAGE I                              32                             48
  STAGE IA                             32                             45
  STAGE IB                              4                              5
  STAGE II                              5                              4
  STAGE IIA                           166                            169
  STAGE IIB                           127                             97
  STAGE III                             1                              1
  STAGE IIIA                           81                             57
  STAGE IIIB                           16                             11
  STAGE IIIC                           25                             34
  STAGE IV                             11                              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 25(11Q23.2) MUTATED   112 308  68  21
  DEL PEAK 25(11Q23.2) WILD-TYPE 146 273  49  15
D53V4, multiclass
    clus
vv   DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  T1                          112                            146
  T2                          308                            273
  T3                           68                             49
  T4                           21                             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 25(11Q23.2) MUTATED   225 176  67  31
  DEL PEAK 25(11Q23.2) WILD-TYPE 243 154  44  39
D53V5, multiclass
    clus
vv   DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  N0                          225                            243
  N1                          176                            154
  N2                           67                             44
  N3                           31                             39
[1] 4 2
[1] 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(11Q23.2) MUTATED          2 422  11  74
  DEL PEAK 25(11Q23.2) WILD-TYPE        0 423   6  57
D53V6, multiclass
          clus
vv         DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  CM0 (I+)                            2                              0
  M0                                422                            423
  M1                                 11                              6
  MX                                 74                             57
[1] 4 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 25(11Q23.2) MUTATED   500   9
  DEL PEAK 25(11Q23.2) WILD-TYPE 484   2
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(11Q23.2) MUTATED    500    9
  DEL PEAK 25(11Q23.2) WILD-TYPE  484    2
        clus
vv       DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  FEMALE                          500                            484
  MALE                              9                              2
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 25(11Q23.2) MUTATED                            1
  DEL PEAK 25(11Q23.2) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 25(11Q23.2) MUTATED                             383
  DEL PEAK 25(11Q23.2) WILD-TYPE                           352
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 25(11Q23.2) MUTATED                               84
  DEL PEAK 25(11Q23.2) WILD-TYPE                             82
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 25(11Q23.2) MUTATED                     4
  DEL PEAK 25(11Q23.2) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 25(11Q23.2) MUTATED                                 15
  DEL PEAK 25(11Q23.2) WILD-TYPE                               14
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 25(11Q23.2) MUTATED                    4             17
  DEL PEAK 25(11Q23.2) WILD-TYPE                 10             27
D53V8, multiclass
                                  clus
vv                                 DEL PEAK 25(11Q23.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             383
  INFILTRATING LOBULAR CARCINOMA                             84
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           15
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             17
                                  clus
vv                                 DEL PEAK 25(11Q23.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               352
  INFILTRATING LOBULAR CARCINOMA                               82
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             14
  MUCINOUS CARCINOMA                                           10
  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"
D53V9, binary
                                cls
clus                               0   1
  DEL PEAK 25(11Q23.2) MUTATED   144 365
  DEL PEAK 25(11Q23.2) WILD-TYPE 138 348
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(11Q23.2) MUTATED    144  365
  DEL PEAK 25(11Q23.2) WILD-TYPE  138  348
     clus
vv    DEL PEAK 25(11Q23.2) MUTATED DEL PEAK 25(11Q23.2) WILD-TYPE
  NO                           144                            138
  YES                          365                            348
[1] 2 2
[1] FALSE
D53V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 25(11Q23.2) MUTATED                                  1    32
  DEL PEAK 25(11Q23.2) WILD-TYPE                                0    24
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 25(11Q23.2) MUTATED                          85   336
  DEL PEAK 25(11Q23.2) WILD-TYPE                        52   372
D53V11, multiclass
                                  clus
vv                                 DEL PEAK 25(11Q23.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      32
  BLACK OR AFRICAN AMERICAN                                  85
  WHITE                                                     336
                                  clus
vv                                 DEL PEAK 25(11Q23.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        24
  BLACK OR AFRICAN AMERICAN                                    52
  WHITE                                                       372
[1] 4 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 25(11Q23.2) MUTATED    19 397
  DEL PEAK 25(11Q23.2) WILD-TYPE  17 399
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(11Q23.2) MUTATED     19  397
  DEL PEAK 25(11Q23.2) WILD-TYPE   17  399
                        clus
vv                       DEL PEAK 25(11Q23.2) MUTATED
  HISPANIC OR LATINO                               19
  NOT HISPANIC OR LATINO                          397
                        clus
vv                       DEL PEAK 25(11Q23.2) WILD-TYPE
  HISPANIC OR LATINO                                 17
  NOT HISPANIC OR LATINO                            399
[1] 2 2
[1] FALSE

Clustering(54) Variable = DEL PEAK 26(12P13.2) MUTATION ANALYSIS
D54V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 26(12P13.2) MUTATED   144  22
  DEL PEAK 26(12P13.2) WILD-TYPE 716  92
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                           166                            808 
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                            22                             92 
$`DEL PEAK 26(12P13.2) MUTATED`
TCGA-A1-A0SI TCGA-A2-A04P TCGA-A2-A0CW TCGA-A2-A0D4 TCGA-A2-A0EV TCGA-A2-A0T0 
       20.88        18.02        64.04        25.22        31.82        17.52 
TCGA-A2-A0T7 TCGA-A2-A0YF TCGA-A2-A259 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A3XT 
       20.75        15.42        52.47        16.31        17.19        83.01 
TCGA-A2-A3XX TCGA-A2-A4RX TCGA-A2-A4S1 TCGA-A7-A0CJ TCGA-A7-A0DA TCGA-A7-A26I 
       38.40         9.01        12.00        30.61        35.67        21.73 
TCGA-A7-A2KD TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A075 TCGA-A8-A07G TCGA-A8-A085 
       22.32        17.98        41.06        17.03        18.97        36.95 
TCGA-A8-A08F TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A097 TCGA-A8-A09I TCGA-A8-A09Q 
       18.05        33.99        40.01        12.00        33.07        25.02 
TCGA-A8-A09T TCGA-A8-A09W TCGA-AC-A23H TCGA-AC-A2FM TCGA-AC-A2QI TCGA-AC-A2QJ 
       19.04         0.99         2.66        26.04         0.92         2.27 
TCGA-AC-A5XS TCGA-AC-A6IV TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AL TCGA-AN-A0FD 
        1.55         1.18         0.62         2.96         6.51         6.44 
TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FV TCGA-AN-A0XN TCGA-AN-A0XU TCGA-AO-A03L 
        4.64         7.59         0.33         0.33         0.33        80.28 
TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A0J2 TCGA-AO-A0JL TCGA-AO-A12D 
       81.63        68.75        47.87        32.78        55.33        64.04 
TCGA-AQ-A54O TCGA-AR-A0TR TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A1AH 
       21.86         5.26        76.14        65.36        83.87        75.55 
TCGA-AR-A1AJ TCGA-AR-A1AR TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A251 TCGA-AR-A252 
       52.77        17.23        50.89        65.46        45.17        40.64 
TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LL TCGA-AR-A2LM TCGA-B6-A0IG TCGA-B6-A0IH 
       39.85        93.83         7.36        40.04       146.50       112.37 
TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RP TCGA-B6-A0RU 
      176.98        18.77        68.45       234.28       102.77       131.21 
TCGA-B6-A0RV TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A2IU TCGA-BH-A0AZ TCGA-BH-A0B2 
      157.41       101.52       139.17       170.17        28.50        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B7 TCGA-BH-A0BP TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C7 
       39.55        56.98        48.69        11.67        41.75        42.90 
TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DQ TCGA-BH-A0DZ TCGA-BH-A0E6 
       23.44        38.01        13.91         3.22        16.27         9.63 
TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0HB TCGA-BH-A0WA TCGA-BH-A1EN TCGA-BH-A1EV 
       31.00        23.08        26.50        23.05        69.93        12.00 
TCGA-BH-A1FG TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU TCGA-C8-A12U TCGA-C8-A131 
      122.89        45.63        72.07        72.07        12.66         1.78 
TCGA-C8-A134 TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A274 
        0.69        11.34        11.34         3.25         0.43         0.03 
TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A142 TCGA-D8-A1JE TCGA-D8-A1JG 
        0.03        12.20         0.99        13.97        18.90        12.03 
TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XT 
       18.58        23.90        14.50        17.69        16.41         6.35 
TCGA-D8-A1XY TCGA-D8-A27F TCGA-D8-A27N TCGA-E2-A10A TCGA-E2-A14Q TCGA-E2-A14R 
       16.54        16.04         4.80        40.41        38.24        38.60 
TCGA-E2-A14Z TCGA-E2-A155 TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15M TCGA-E2-A15P 
       17.03        21.04        25.05        20.71         7.73        19.56 
TCGA-E2-A1BD TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LK TCGA-E9-A1N6 TCGA-E9-A1R4 
       17.10        39.62        24.59         8.75        13.48         6.12 
TCGA-E9-A1RH TCGA-E9-A227 TCGA-E9-A248 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5UO 
       34.59         0.79         1.94         0.62        15.72         0.23 
TCGA-EW-A1J6 TCGA-EW-A1OY TCGA-EW-A1P5 TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A2FV 
       28.77        29.85        23.11         6.15        13.94        25.91 
TCGA-GM-A2DI TCGA-GM-A2DK TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A73Z 
       61.91        62.33         4.70         3.25         3.88         4.50 
TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RU TCGA-OL-A66K 
        6.21        46.55        27.65        33.90 

$`DEL PEAK 26(12P13.2) 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-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SP 
       13.68        31.79         7.96        39.32        28.01        19.20 
TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04U 
       18.21       104.81        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-A0CL 
       63.12        64.04        55.43        36.13       125.59        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-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        14.63        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        14.07 
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         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG 
        8.91         6.74         3.42        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 
       33.01        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         9.96         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        23.08 
TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       19.99        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        19.07        93.04        19.07        16.01 
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 
       13.02        31.00        29.98        15.02         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         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A6IX 
        1.32         0.07         1.12         1.81         0.69         0.43 
TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04C 
        1.74         0.33         0.33         0.23         0.33         1.78 
TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        1.71         8.02         7.36         0.16         0.33         0.33 
TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        0.33         7.96         7.00         7.17         6.28         6.02 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XL TCGA-AN-A0XO 
        0.36         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-A03P TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 
       47.84        66.77        84.69        59.05        29.13        21.40 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       17.65        24.16        37.48        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-A0JM TCGA-AO-A124 TCGA-AO-A125 
       26.24        38.53        62.04        71.80       102.58        99.25 
TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E 
       93.70        94.59        96.10        90.58        77.56        57.30 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       48.36        41.62        28.37        14.73        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-A7U7 TCGA-AR-A0TP 
        5.65        15.62        13.22         2.56         9.99        82.88 
TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX 
       49.32        37.41        56.88        29.75        24.30        64.83 
TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AK 
       55.86        70.16        76.18        55.36        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-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       40.83        46.32        42.58        35.24        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
      109.58        73.02        68.19        65.69         0.85        66.05 
TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W 
       57.40        62.07        53.26        53.36        54.18        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH 
       48.16        51.75        56.15        34.82       128.65        20.25 
TCGA-AR-A2LK TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       42.87        17.10        20.81        16.96        20.38        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-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IM 
       12.13       220.90       129.57        50.70        65.72       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-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS 
       81.17        78.02       172.96       162.05       140.48       100.70 
TCGA-B6-A0RT TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX 
       89.46        97.48       188.68        79.63        17.98        21.47 
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-A401 TCGA-B6-A402 TCGA-B6-A408 
       58.88        43.59        73.51        85.35        54.28        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       82.88        55.00        24.53        38.79        20.45        25.55 
TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA 
       46.95        39.16        48.36        56.94        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-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BT 
       61.68        35.67        27.19        53.69        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.94        49.05        44.02        48.13        45.83        31.17 
TCGA-BH-A0DI TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       22.13        48.23        17.26        15.65         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-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       46.19        32.65        24.49        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-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-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-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-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-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-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL 
      114.15        33.17        74.73        36.92        63.35        55.00 
TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 
      144.59         6.90         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-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-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-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       19.66        40.47        28.90        18.87       106.75       102.61 
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        18.05 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 
       22.26        19.89        19.20        36.82        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-A1R5 
        9.86        11.90        14.30         0.62         2.10         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-A1RF TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A228 
       34.65         6.58        21.27        35.64        34.13        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H 
       13.32        39.09        22.75        12.89        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        12.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54Y 
        0.72        17.75         0.76        26.07        18.41         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.39         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-A1OV 
       18.21        18.90        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-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PB 
       29.82        18.48        30.08         7.86        18.90        19.99 
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-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-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-A2DF TCGA-GM-A2DH TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       42.71        42.28        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        32.28        69.30        53.95        57.63 
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         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ 
        3.65         3.19         2.63         4.14         4.50         5.59 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        3.22        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5DA TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ 
       44.61        24.10        26.20        16.87        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N 
        9.80        14.76        23.70        54.51        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        7.23         4.44         6.81         5.29 

  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                        234.28                         220.90 
  DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE 
                        21.385                         21.435 
[1] "0.0 - 234.3 (21.4)" "0.0 - 220.9 (21.4)"
[1] "hr=" "1"  
D54V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 26(12P13.2) MUTATED        11       13        0        2        58
  DEL PEAK 26(12P13.2) WILD-TYPE      69       64        9        7       277
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 26(12P13.2) MUTATED          45         0         23         10
  DEL PEAK 26(12P13.2) WILD-TYPE       179         2        115         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 26(12P13.2) MUTATED            7        1         0       1
  DEL PEAK 26(12P13.2) WILD-TYPE         52       16         1      15
D54V3, multiclass
            clus
vv           DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  STAGE I                              11                             69
  STAGE IA                             13                             64
  STAGE IB                              0                              9
  STAGE II                              2                              7
  STAGE IIA                            58                            277
  STAGE IIB                            45                            179
  STAGE III                             0                              2
  STAGE IIIA                           23                            115
  STAGE IIIB                           10                             17
  STAGE IIIC                            7                             52
  STAGE IV                              1                             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 26(12P13.2) MUTATED    38 106  17  10
  DEL PEAK 26(12P13.2) WILD-TYPE 220 475 100  26
D54V4, multiclass
    clus
vv   DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  T1                           38                            220
  T2                          106                            475
  T3                           17                            100
  T4                           10                             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 26(12P13.2) MUTATED    79  59  19   9
  DEL PEAK 26(12P13.2) WILD-TYPE 389 271  92  61
D54V5, multiclass
    clus
vv   DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  N0                           79                            389
  N1                           59                            271
  N2                           19                             92
  N3                            9                             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 26(12P13.2) MUTATED          1 153   1  16
  DEL PEAK 26(12P13.2) WILD-TYPE        1 692  16 115
D54V6, multiclass
          clus
vv         DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                153                            692
  M1                                  1                             16
  MX                                 16                            115
[1] 4 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 26(12P13.2) MUTATED   168   3
  DEL PEAK 26(12P13.2) WILD-TYPE 816   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(12P13.2) MUTATED    168    3
  DEL PEAK 26(12P13.2) WILD-TYPE  816    8
        clus
vv       DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  FEMALE                          168                            816
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 26(12P13.2) MUTATED                            0
  DEL PEAK 26(12P13.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 26(12P13.2) MUTATED                             145
  DEL PEAK 26(12P13.2) WILD-TYPE                           590
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 26(12P13.2) MUTATED                               14
  DEL PEAK 26(12P13.2) WILD-TYPE                            152
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 26(12P13.2) MUTATED                     1
  DEL PEAK 26(12P13.2) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 26(12P13.2) MUTATED                                  3
  DEL PEAK 26(12P13.2) WILD-TYPE                               26
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 26(12P13.2) MUTATED                    1              6
  DEL PEAK 26(12P13.2) WILD-TYPE                 13             38
D54V8, multiclass
                                  clus
vv                                 DEL PEAK 26(12P13.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             145
  INFILTRATING LOBULAR CARCINOMA                             14
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            3
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                              6
                                  clus
vv                                 DEL PEAK 26(12P13.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               590
  INFILTRATING LOBULAR CARCINOMA                              152
  MEDULLARY CARCINOMA                                           4
  MIXED HISTOLOGY (PLEASE SPECIFY)                             26
  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"
D54V9, binary
                                cls
clus                               0   1
  DEL PEAK 26(12P13.2) MUTATED    51 120
  DEL PEAK 26(12P13.2) WILD-TYPE 231 593
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(12P13.2) MUTATED     51  120
  DEL PEAK 26(12P13.2) WILD-TYPE  231  593
     clus
vv    DEL PEAK 26(12P13.2) MUTATED DEL PEAK 26(12P13.2) WILD-TYPE
  NO                            51                            231
  YES                          120                            593
[1] 2 2
[1] FALSE
D54V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 26(12P13.2) MUTATED                                  0    13
  DEL PEAK 26(12P13.2) WILD-TYPE                                1    43
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 26(12P13.2) MUTATED                          24   118
  DEL PEAK 26(12P13.2) WILD-TYPE                       113   590
D54V11, multiclass
                                  clus
vv                                 DEL PEAK 26(12P13.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  24
  WHITE                                                     118
                                  clus
vv                                 DEL PEAK 26(12P13.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                   113
  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"
D54V12, binary
                                cls
clus                               0   1
  DEL PEAK 26(12P13.2) MUTATED     6 136
  DEL PEAK 26(12P13.2) WILD-TYPE  30 660
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(12P13.2) MUTATED      6  136
  DEL PEAK 26(12P13.2) WILD-TYPE   30  660
                        clus
vv                       DEL PEAK 26(12P13.2) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          136
                        clus
vv                       DEL PEAK 26(12P13.2) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            660
[1] 2 2
[1] FALSE

Clustering(55) Variable = DEL PEAK 27(12Q23.1) MUTATION ANALYSIS
D55V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 27(12Q23.1) MUTATED   160  24
  DEL PEAK 27(12Q23.1) WILD-TYPE 700  90
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                           184                            790 
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                            24                             90 
$`DEL PEAK 27(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         9.01        12.00         3.42 
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 
       23.08        18.05         9.99         0.99        33.99        13.02 
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-AN-A04C TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FJ TCGA-AN-A0FK 
        1.81         1.78         0.16         0.33         7.96         7.00 
TCGA-AN-A0FL TCGA-AN-A0FZ TCGA-AN-A0XO TCGA-AO-A03O TCGA-AO-A0J2 TCGA-AO-A0J4 
        7.59         0.33        12.33        81.63        32.78        17.65 
TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12F 
       50.70        72.00        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        37.41        64.83 
TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AP TCGA-AR-A1AQ 
       65.36        70.16        61.84        52.77        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A24K TCGA-AR-A24S TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A256 
       17.23        50.89        62.07        45.17        40.64        93.83 
TCGA-AR-A2LL TCGA-AR-A2LN TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0RE 
        7.36        17.10       146.50       112.37       176.98       211.56 
TCGA-B6-A0RH TCGA-B6-A0RP TCGA-B6-A0RU TCGA-B6-A0WX TCGA-B6-A1KF TCGA-B6-A402 
      189.01       102.77       131.21        21.47       101.52        54.28 
TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0B2 TCGA-BH-A0B7 TCGA-BH-A0BL TCGA-BH-A0BP 
       49.94        38.79        40.83        56.98        44.05        48.69 
TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DX TCGA-BH-A0E0 
       53.69        41.75        44.02        42.90        47.41         4.41 
TCGA-BH-A0E2 TCGA-BH-A0EE TCGA-BH-A0H9 TCGA-BH-A0HY TCGA-BH-A18V TCGA-BH-A1EN 
       14.30        31.00        41.00        50.79        51.16        69.93 
TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F6 TCGA-BH-A1FN TCGA-BH-A1FU 
       91.99        12.00        55.69        97.48        72.07        72.07 
TCGA-BH-A208 TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A135 
       57.83        11.77        12.66         3.12         1.78         0.62 
TCGA-C8-A1HG TCGA-C8-A26Y TCGA-C8-A275 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A140 
       11.34         0.43         0.03        12.20        11.90        13.25 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A1X5 TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XK 
       13.97        14.17        18.58        14.73        21.83        14.50 
TCGA-D8-A27F TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A10C TCGA-E2-A14T TCGA-E2-A150 
       16.04        13.08        12.53        40.11        33.30        25.41 
TCGA-E2-A159 TCGA-E2-A1AZ TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IH TCGA-E2-A1IO 
       25.05        60.53        32.35        17.10        33.73        20.98 
TCGA-E2-A1L7 TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 
       27.42       106.75       102.61         8.75        43.04        16.93 
TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1RE 
       22.26        19.89        13.12        36.56        12.59        34.65 
TCGA-E9-A1RG TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-EW-A1OY 
       21.27        12.89        23.51         0.62        15.72        29.85 
TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A3U0 TCGA-EW-A423 
       29.82         7.86         6.15        19.96        17.49        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DI TCGA-GM-A3NY TCGA-GM-A3XL 
        7.40       109.87        59.57        61.91        38.20        69.30 
TCGA-JL-A3YW TCGA-LD-A74U TCGA-LL-A5YP TCGA-LL-A73Z TCGA-LL-A8F5 TCGA-OL-A5D7 
       11.84         6.67         3.25         4.50         6.21        46.55 
TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66K TCGA-W8-A86G 
       26.20         9.80        33.90         5.29 

$`DEL PEAK 27(12Q23.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI 
        8.52        14.37        43.43        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-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       125.59        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-A0CW 
      107.93        75.55        75.25         5.19        63.45        64.04 
TCGA-A2-A0CX TCGA-A2-A0D0 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
       56.81        21.14        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-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-A0SX TCGA-A2-A0SY 
       99.19        54.64        27.12        44.88        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-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH 
       20.75        32.55        25.28        15.42        21.90        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A1FV TCGA-A2-A1FW 
       14.50        18.61        19.33        14.63        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-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-A3KC TCGA-A2-A3KD TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV 
       10.59        20.88        39.65        83.01        29.98        14.07 
TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 
       49.48        31.99         7.30         8.81         8.91         6.74 
TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DA 
       38.30        34.29        35.47        30.61        37.45        35.67 
TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G 
       33.11        12.72        23.61        29.56        31.36        23.74 
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-A4SB 
       11.28        13.41        14.70        11.97        14.93        13.74 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06O 
       14.73        12.10        10.72        11.05         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        41.06        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       26.01        17.03        53.98         9.01        33.01        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-A07R TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z 
       10.98         8.98         7.99         9.96         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        19.99 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S 
       19.96        12.00        37.05        31.00        31.00        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        40.01        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       12.00         9.99         9.99        12.00         1.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       33.07        29.98        15.02         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-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-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       14.83         9.40         1.12         1.68         1.55         1.32 
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-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.43         1.74         0.33         0.33         0.23         0.33 
TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL 
        0.62         2.96         1.71         8.02         7.36         6.51 
TCGA-AN-A0AR TCGA-AN-A0AT 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-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XL 
        6.02         0.33         0.36         0.33         0.33         0.33 
TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU 
        0.33         0.30         0.33         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P 
        5.33         5.59        80.28        47.84        66.77        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 
       68.75        47.87        59.05        29.13        21.40        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC 
       37.48        20.32        22.36        53.03        21.53        50.86 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM 
       76.77        21.37        26.24        38.53        62.04        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D 
       99.25        93.70        94.59        90.58        77.56        64.04 
TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KR 
       57.30        41.62        28.37        14.73        82.62        70.39 
TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N 
        0.53        17.79         5.65        15.62        13.22         2.56 
TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT 
       21.86         9.99        82.88        49.32         5.26        56.88 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 
       29.75        24.30        55.86        76.14        83.87        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN 
       55.36        75.55        51.25        48.82        62.56        43.73 
TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       43.56        40.83        46.32        42.58        35.24        36.26 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O 
       20.22       109.58        73.02        65.46        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
        0.85        66.05        57.40        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 
       50.96        48.16        51.75        56.15        39.85        34.82 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ 
      128.65        20.25        42.87        40.04        20.81        16.96 
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-A0IB TCGA-B6-A0IC 
      143.38       149.59        12.13       220.90       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP 
       65.72        18.77       126.12        84.59       110.14       110.93 
TCGA-B6-A0IQ TCGA-B6-A0RG TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN 
      140.88        68.45       234.28        81.17        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV TCGA-B6-A0WS 
      162.05       140.48       100.70        89.46       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 
      188.68        79.63        17.98       113.79       129.57       129.70 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI 
      186.48        28.27        68.94        58.88        43.59        73.51 
TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU 
      139.17       170.17        85.35        82.88        55.00        24.53 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 
       20.45        25.55        28.50        46.95        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.94        51.68        37.22        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ 
       25.71        24.85        21.70        61.68        35.67        27.19 
TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 
       53.95        45.57        49.94        11.67        49.05        48.13 
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-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 
       45.17        16.27        15.68         9.63        44.81        46.19 
TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 
       32.65        24.49        24.43        30.35        10.78        15.16 
TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HA TCGA-BH-A0HB 
       37.78        35.51        24.56        23.08        52.96        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-A0HW TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       51.32        27.25         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-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-A18T TCGA-BH-A18U TCGA-BH-A1ES TCGA-BH-A1ET 
       37.55        66.05         7.36        51.39       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-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-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-A209 TCGA-BH-A28O TCGA-BH-A28Q 
        0.72        38.60        83.31       130.16        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-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.77        12.66         0.07        12.66        12.66        12.66 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        1.45         0.69         3.85         3.75        12.33        10.92 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.30         0.23         0.36         8.28         9.67         0.03 
TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z TCGA-D8-A141 
        0.03         0.99         0.03         0.23        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-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       18.71        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-A1JP TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 
       20.38        21.01        12.20        13.32        14.70        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-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       17.16        15.22        19.92        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
       15.85        16.31         6.35        12.99        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-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z5 
       13.48         4.80         0.76        10.09        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-A14P TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14V 
       40.96        38.24        38.60        33.17        43.33        34.26 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A152 TCGA-E2-A153 
       32.02        31.96        28.60        17.03        27.12        23.24 
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-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-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-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B4 
       17.06        14.07        14.99        53.62        53.03        29.95 
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-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 
       28.44        22.65         3.88        22.19        11.08        54.18 
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-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 
        5.52        15.72         7.20        18.05        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        12.56 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54Y 
        0.72        17.75         0.76        26.07        18.41         0.23 
TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
        0.39         0.26         0.23        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-A1OZ TCGA-EW-A1P0 
       28.77        25.94        22.82        29.95        40.41        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-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FR 
       19.99        13.94        10.52        14.43        34.55        55.00 
TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GM-A2DA 
       52.73        25.91        22.09        21.27        10.59       194.27 
TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DK 
       53.13        53.52        43.04        42.71        42.28        62.33 
TCGA-GM-A2DL TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW TCGA-GM-A3XG 
       90.84        76.64        77.33        53.36       110.50        32.28 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       53.95        57.63        13.55        18.12        11.57         8.28 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        4.70         3.65         3.19         2.63         3.88         4.14 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         5.59         3.22        15.91         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       12.66         7.53        44.61        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L 
       14.10        10.29        14.76        23.70        54.51        31.07 
TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       18.21         7.23         4.44         6.81 

  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE 
                        24.905                         20.880 
[1] "0.0 - 211.6 (24.9)" "0.0 - 234.3 (20.9)"
[1] "hr=" "1"  
D55V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 27(12Q23.1) MUTATED        17        7        0        2        68
  DEL PEAK 27(12Q23.1) WILD-TYPE      63       70        9        7       267
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 27(12Q23.1) MUTATED          46         0         27          8
  DEL PEAK 27(12Q23.1) WILD-TYPE       178         2        111         19
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 27(12Q23.1) MUTATED           11        2         0       1
  DEL PEAK 27(12Q23.1) WILD-TYPE         48       15         1      15
D55V3, multiclass
            clus
vv           DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  STAGE I                              17                             63
  STAGE IA                              7                             70
  STAGE IB                              0                              9
  STAGE II                              2                              7
  STAGE IIA                            68                            267
  STAGE IIB                            46                            178
  STAGE III                             0                              2
  STAGE IIIA                           27                            111
  STAGE IIIB                            8                             19
  STAGE IIIC                           11                             48
  STAGE IV                              2                             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 27(12Q23.1) MUTATED    34 122  23  10
  DEL PEAK 27(12Q23.1) WILD-TYPE 224 459  94  26
D55V4, multiclass
    clus
vv   DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  T1                           34                            224
  T2                          122                            459
  T3                           23                             94
  T4                           10                             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 27(12Q23.1) MUTATED    96  58  23  11
  DEL PEAK 27(12Q23.1) WILD-TYPE 372 272  88  59
D55V5, multiclass
    clus
vv   DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  N0                           96                            372
  N1                           58                            272
  N2                           23                             88
  N3                           11                             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 27(12Q23.1) MUTATED          0 166   2  22
  DEL PEAK 27(12Q23.1) WILD-TYPE        2 679  15 109
D55V6, multiclass
          clus
vv         DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                166                            679
  M1                                  2                             15
  MX                                 22                            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"
D55V7, binary
                                cls
clus                               0   1
  DEL PEAK 27(12Q23.1) MUTATED   189   1
  DEL PEAK 27(12Q23.1) WILD-TYPE 795  10
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(12Q23.1) MUTATED    189    1
  DEL PEAK 27(12Q23.1) WILD-TYPE  795   10
        clus
vv       DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  FEMALE                          189                            795
  MALE                              1                             10
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 27(12Q23.1) MUTATED                            0
  DEL PEAK 27(12Q23.1) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 27(12Q23.1) MUTATED                             154
  DEL PEAK 27(12Q23.1) WILD-TYPE                           581
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 27(12Q23.1) MUTATED                               19
  DEL PEAK 27(12Q23.1) WILD-TYPE                            147
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 27(12Q23.1) MUTATED                     3
  DEL PEAK 27(12Q23.1) WILD-TYPE                   2
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 27(12Q23.1) MUTATED                                  4
  DEL PEAK 27(12Q23.1) WILD-TYPE                               25
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 27(12Q23.1) MUTATED                    0             10
  DEL PEAK 27(12Q23.1) WILD-TYPE                 14             34
D55V8, multiclass
                                  clus
vv                                 DEL PEAK 27(12Q23.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             154
  INFILTRATING LOBULAR CARCINOMA                             19
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            4
  MUCINOUS CARCINOMA                                          0
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 27(12Q23.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               581
  INFILTRATING LOBULAR CARCINOMA                              147
  MEDULLARY CARCINOMA                                           2
  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"
D55V9, binary
                                cls
clus                               0   1
  DEL PEAK 27(12Q23.1) MUTATED    55 135
  DEL PEAK 27(12Q23.1) WILD-TYPE 227 578
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(12Q23.1) MUTATED     55  135
  DEL PEAK 27(12Q23.1) WILD-TYPE  227  578
     clus
vv    DEL PEAK 27(12Q23.1) MUTATED DEL PEAK 27(12Q23.1) WILD-TYPE
  NO                            55                            227
  YES                          135                            578
[1] 2 2
[1] FALSE
D55V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 27(12Q23.1) MUTATED                                  0    13
  DEL PEAK 27(12Q23.1) WILD-TYPE                                1    43
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 27(12Q23.1) MUTATED                          41   122
  DEL PEAK 27(12Q23.1) WILD-TYPE                        96   586
D55V11, multiclass
                                  clus
vv                                 DEL PEAK 27(12Q23.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      13
  BLACK OR AFRICAN AMERICAN                                  41
  WHITE                                                     122
                                  clus
vv                                 DEL PEAK 27(12Q23.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        43
  BLACK OR AFRICAN AMERICAN                                    96
  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 27(12Q23.1) MUTATED     6 159
  DEL PEAK 27(12Q23.1) WILD-TYPE  30 637
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(12Q23.1) MUTATED      6  159
  DEL PEAK 27(12Q23.1) WILD-TYPE   30  637
                        clus
vv                       DEL PEAK 27(12Q23.1) MUTATED
  HISPANIC OR LATINO                                6
  NOT HISPANIC OR LATINO                          159
                        clus
vv                       DEL PEAK 27(12Q23.1) WILD-TYPE
  HISPANIC OR LATINO                                 30
  NOT HISPANIC OR LATINO                            637
[1] 2 2
[1] FALSE

Clustering(56) Variable = DEL PEAK 28(12Q24.31) MUTATION ANALYSIS
D56V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 28(12Q24.31) MUTATED   160  26
  DEL PEAK 28(12Q24.31) WILD-TYPE 700  88
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                            186                             788 
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                             26                              88 
$`DEL PEAK 28(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         9.01        12.00        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        23.08         9.99         0.99        33.99        13.02 
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-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AS 
        2.27         1.81         1.68         1.78         8.02         0.33 
TCGA-AN-A0AT TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FZ 
        0.33         7.96         7.00         7.59         6.02         0.33 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XU TCGA-AO-A03O TCGA-AO-A0J2 TCGA-AO-A0J4 
        0.33        12.33         0.33        81.63        32.78        17.65 
TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12F 
       50.70        72.00        55.33       102.58        96.10        48.36 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A1AI TCGA-AR-A1AJ 
       26.93       130.09        64.83        65.36        61.84        52.77 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A24K TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A251 
       43.07        17.23        50.89        66.05        62.07        45.17 
TCGA-AR-A252 TCGA-AR-A2LL TCGA-AR-A2LN TCGA-B6-A0IH TCGA-B6-A0RE TCGA-B6-A0RP 
       40.64         7.36        17.10       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-E9-A1N9 
      102.61         8.75        16.93        22.26        19.89        13.12 
TCGA-E9-A1R2 TCGA-E9-A1RG TCGA-E9-A22E TCGA-E9-A244 TCGA-E9-A3QA TCGA-E9-A3X8 
        0.62        21.27        12.89         0.69         0.62        15.72 
TCGA-EW-A1OY TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PH TCGA-GI-A2C8 TCGA-GI-A2C9 
       29.85        29.82         7.86        19.96         7.40       109.87 
TCGA-GM-A2DI TCGA-GM-A3NY TCGA-GM-A3XL TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U 
       61.91        38.20        69.30        11.84         8.28         6.67 
TCGA-LL-A5YP TCGA-LL-A73Z TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66K TCGA-W8-A86G 
        3.25         4.50        10.29         9.80        33.90         5.29 

$`DEL PEAK 28(12Q24.31) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK 
        8.52        14.37        14.27        47.24        20.88        31.79 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q 
        7.96        39.32        28.01        18.21       104.81        41.95 
TCGA-A2-A04R TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK 
       82.16        63.12        64.04        55.43        36.13       125.59 
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-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-A0EQ TCGA-A2-A0ER TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV 
      107.61        79.76        74.40        35.05        34.29        31.82 
TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0SW TCGA-A2-A0SX 
       29.75        24.72        99.19        54.64        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-A0YM 
       21.67        14.50        18.61        19.33        14.63        31.73 
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-A3XT 
       18.15        91.92        10.59        20.88        39.65        83.01 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RY 
       29.98        14.07        49.48        31.99         7.30         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CH TCGA-A7-A0CJ 
        8.91         6.74         3.42        38.30        35.47        30.61 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A26E 
       37.45        35.67        33.11        12.72        23.61        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-A4SB 
       10.29        11.28        13.41        14.70        11.97        13.74 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY TCGA-A8-A06O 
       14.73        12.10        10.72        11.05         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        41.06        29.03        31.00 
TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E 
       26.01        17.03        53.98         9.01        33.01        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-A07W TCGA-A8-A07Z TCGA-A8-A082 
       10.98         7.99         9.96         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        19.99        18.05 
TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S 
       19.96        12.00        37.05        31.00        31.00        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        40.01        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E 
       12.00         9.99         9.99        12.00         1.02        31.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T 
       33.07        29.98        15.02         1.02         8.98        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 
       15.02         0.99        12.00        19.04        13.02        21.04 
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-A2FM TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04         1.02         0.92         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V 
        9.40         1.12         1.55         1.32         1.55         0.07 
TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP 
        1.12         1.81         1.18         0.69         0.43         1.74 
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-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD 
        1.71         7.36         6.51         0.16         0.33         6.44 
TCGA-AN-A0FF TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FX 
        4.64         7.17         6.28         0.33         0.36         0.33 
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-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P 
        5.33         5.59        80.28        47.84        66.77        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 
       68.75        47.87        59.05        29.13        21.40        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC 
       37.48        20.32        22.36        53.03        21.53        50.86 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JM 
       76.77        21.37        26.24        38.53        62.04        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D 
       99.25        93.70        94.59        90.58        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-A1KR TCGA-AO-A1KS TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       70.39         0.53        17.79        24.79         5.65        15.62 
TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ 
       13.22         2.56        21.86         9.99        82.88        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TY 
        5.26        37.41        56.88        29.75        24.30        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       76.14        70.16        83.87        76.18        55.36        75.55 
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-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY 
       40.83        46.32        42.58        35.24        36.26        20.22 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24R TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X 
       57.40        53.26        53.36        54.18        50.96        48.16 
TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE 
       51.75        56.15        39.85        34.82        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR 
       20.25        42.87        40.04        20.81        16.96        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-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
      146.50       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-A0RS TCGA-B6-A0RT 
       78.02       172.96       162.05       140.48       100.70        89.46 
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-A1KC 
      129.70       186.48        28.27        68.94        58.88        43.59 
TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B TCGA-B6-A40C 
       73.51       139.17       170.17        85.35        82.88        55.00 
TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B4 
       24.53        20.45        25.55        28.50        39.55        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.94        51.68        37.22        32.02        18.21 
TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ 
       25.71        24.85        21.70        61.68        35.67        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-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-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E6 TCGA-BH-A0E7 
       38.47        45.17        16.27        15.68         9.63        44.81 
TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ 
       46.19        32.65        24.49        24.43        30.35        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0HA 
       15.16        37.78        35.51        24.56        23.08        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-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-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-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-A1ES 
       55.63        37.55        66.05         7.36        51.39       113.82 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 
       82.85        42.28        49.58        25.81        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-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-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-A12V TCGA-C8-A12W TCGA-C8-A12X 
       12.66        11.77         0.07        12.66        12.66        12.66 
TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
        3.12         0.69         3.85         3.75        12.33        10.92 
TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN 
       11.34         0.16        12.03        10.42         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        0.30         0.23         0.36         8.28         9.67         0.03 
TCGA-C8-A275 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-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 
       20.58        13.48        21.14        19.20        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JG 
       16.50        18.71        15.78        18.90        12.03        12.03 
TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JN TCGA-D8-A1JP 
       14.01        18.97        20.09        20.09        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-A1XD 
       25.74        23.90        27.58        18.15         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XR TCGA-D8-A1XS 
       15.22        14.73        19.92        17.69        15.85        16.31 
TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ 
        6.35        12.99        15.16        12.66        16.54        15.32 
TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27F 
       15.52         3.81        14.24        14.14        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N 
       13.45        13.05        14.43         9.44        16.41         4.80 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        10.09        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-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-A152 TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       17.03        27.12        23.24        21.04        23.87        14.79 
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-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-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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LA 
       22.19        11.08        54.18        39.62        19.66        24.59 
TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
       40.47        28.90        43.04         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA 
       18.05        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-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 
       11.90        14.30         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-A1RE 
       21.21        32.09        20.81        40.24         0.66        34.65 
TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 
        6.58        34.59        35.64        34.13         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-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.85        27.22         1.94         0.95        12.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54Y TCGA-E9-A5FK 
       17.75         0.76        26.07        18.41         0.23         0.39 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26         0.23        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        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 
       18.12        11.57         4.60         0.66         2.99         3.58 
TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A6FQ 
        6.90         5.56         4.70         3.65         3.19         2.63 
TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 
        3.88         4.14         4.50         5.59         3.22         6.21 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 TCGA-OL-A5D8 
       15.91         2.79         2.10        12.66        46.55         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       14.76        23.70        54.51        31.07        18.21         7.23 
TCGA-OL-A66P TCGA-S3-A6ZG 
        4.44         6.81 

  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE 
                          21.22                           21.55 
[1] "0.0 - 211.6 (21.2)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.3"
D56V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 28(12Q24.31) MUTATED        16       10        0        3        65
  DEL PEAK 28(12Q24.31) WILD-TYPE      64       67        9        6       270
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 28(12Q24.31) MUTATED          49         0         25          6
  DEL PEAK 28(12Q24.31) WILD-TYPE       175         2        113         21
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 28(12Q24.31) MUTATED           13        3         0       1
  DEL PEAK 28(12Q24.31) WILD-TYPE         46       14         1      15
D56V3, multiclass
            clus
vv           DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  STAGE I                               16                              64
  STAGE IA                              10                              67
  STAGE IB                               0                               9
  STAGE II                               3                               6
  STAGE IIA                             65                             270
  STAGE IIB                             49                             175
  STAGE III                              0                               2
  STAGE IIIA                            25                             113
  STAGE IIIB                             6                              21
  STAGE IIIC                            13                              46
  STAGE IV                               3                              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
  DEL PEAK 28(12Q24.31) MUTATED    35 125  23   8
  DEL PEAK 28(12Q24.31) WILD-TYPE 223 456  94  28
D56V4, multiclass
    clus
vv   DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  T1                            35                             223
  T2                           125                             456
  T3                            23                              94
  T4                             8                              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 28(12Q24.31) MUTATED    99  56  22  13
  DEL PEAK 28(12Q24.31) WILD-TYPE 369 274  89  57
D56V5, multiclass
    clus
vv   DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  N0                            99                             369
  N1                            56                             274
  N2                            22                              89
  N3                            13                              57
[1] 4 2
[1] 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(12Q24.31) MUTATED          0 170   3  19
  DEL PEAK 28(12Q24.31) WILD-TYPE        2 675  14 112
D56V6, multiclass
          clus
vv         DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  CM0 (I+)                             0                               2
  M0                                 170                             675
  M1                                   3                              14
  MX                                  19                             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"
D56V7, binary
                                 cls
clus                                0   1
  DEL PEAK 28(12Q24.31) MUTATED   192   0
  DEL PEAK 28(12Q24.31) WILD-TYPE 792  11
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(12Q24.31) MUTATED    192    0
  DEL PEAK 28(12Q24.31) WILD-TYPE  792   11
        clus
vv       DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  FEMALE                           192                             792
  MALE                               0                              11
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 28(12Q24.31) MUTATED                            0
  DEL PEAK 28(12Q24.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 28(12Q24.31) MUTATED                             147
  DEL PEAK 28(12Q24.31) WILD-TYPE                           588
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 28(12Q24.31) MUTATED                               26
  DEL PEAK 28(12Q24.31) WILD-TYPE                            140
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 28(12Q24.31) MUTATED                     3
  DEL PEAK 28(12Q24.31) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 28(12Q24.31) MUTATED                                  6
  DEL PEAK 28(12Q24.31) WILD-TYPE                               23
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 28(12Q24.31) MUTATED                    0             10
  DEL PEAK 28(12Q24.31) WILD-TYPE                 14             34
D56V8, multiclass
                                  clus
vv                                 DEL PEAK 28(12Q24.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              147
  INFILTRATING LOBULAR CARCINOMA                              26
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             6
  MUCINOUS CARCINOMA                                           0
  OTHER  SPECIFY                                              10
                                  clus
vv                                 DEL PEAK 28(12Q24.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                588
  INFILTRATING LOBULAR CARCINOMA                               140
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              23
  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"
D56V9, binary
                                 cls
clus                                0   1
  DEL PEAK 28(12Q24.31) MUTATED    54 138
  DEL PEAK 28(12Q24.31) WILD-TYPE 228 575
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(12Q24.31) MUTATED     54  138
  DEL PEAK 28(12Q24.31) WILD-TYPE  228  575
     clus
vv    DEL PEAK 28(12Q24.31) MUTATED DEL PEAK 28(12Q24.31) WILD-TYPE
  NO                             54                             228
  YES                           138                             575
[1] 2 2
[1] FALSE
D56V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 28(12Q24.31) MUTATED                                  0    11
  DEL PEAK 28(12Q24.31) WILD-TYPE                                1    45
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 28(12Q24.31) MUTATED                          35   131
  DEL PEAK 28(12Q24.31) WILD-TYPE                       102   577
D56V11, multiclass
                                  clus
vv                                 DEL PEAK 28(12Q24.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       11
  BLACK OR AFRICAN AMERICAN                                   35
  WHITE                                                      131
                                  clus
vv                                 DEL PEAK 28(12Q24.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         45
  BLACK OR AFRICAN AMERICAN                                    102
  WHITE                                                        577
[1] 4 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 28(12Q24.31) MUTATED     5 159
  DEL PEAK 28(12Q24.31) WILD-TYPE  31 637
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 28(12Q24.31) MUTATED      5  159
  DEL PEAK 28(12Q24.31) WILD-TYPE   31  637
                        clus
vv                       DEL PEAK 28(12Q24.31) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           159
                        clus
vv                       DEL PEAK 28(12Q24.31) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             637
[1] 2 2
[1] FALSE

Clustering(57) Variable = DEL PEAK 29(13Q14.2) MUTATION ANALYSIS
D57V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 29(13Q14.2) MUTATED   396  56
  DEL PEAK 29(13Q14.2) WILD-TYPE 464  58
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                           452                            522 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                            56                             58 
$`DEL PEAK 29(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        14.63        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         9.01        12.00         6.74 
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        41.06        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        33.01        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        23.08        18.05        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        19.07        16.01        41.98         9.99        12.00 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09W 
       33.07        29.98        15.02         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         1.81 
TCGA-AC-A3W6 TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03X 
        1.68         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 
       17.65        37.48        76.77        26.24        38.53        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        93.70        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        21.86 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0TZ 
        9.99        82.88         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        70.16        83.87        55.36        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        35.24        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24V 
       73.02        68.19        66.05        62.07        53.26        54.18 
TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A254 
       50.96        51.75        56.15        45.17        40.64        39.85 
TCGA-AR-A255 TCGA-AR-A2LK TCGA-AR-A5QM TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0IB 
       34.82        42.87        54.74        10.59        77.62       129.57 
TCGA-B6-A0IE TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RP 
       65.72       140.88       211.56        68.45        81.17       102.77 
TCGA-B6-A0RQ TCGA-B6-A0RU TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX 
      140.48       131.21        97.48        79.63        17.98        21.47 
TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN TCGA-B6-A2IU 
       68.94        43.59       101.52        73.51       139.17       170.17 
TCGA-B6-A401 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       85.35        49.94        38.79        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA 
       46.95        39.16        56.94        56.98        51.68        37.22 
TCGA-BH-A0BC TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BV 
       32.02        21.70        44.05        48.69        53.69        49.94 
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-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DQ TCGA-BH-A0E0 
       38.01        13.91        48.23        15.65         3.22         4.41 
TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H7 
        9.63        46.19        31.00        10.78        15.16        23.08 
TCGA-BH-A0HB TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0RX TCGA-BH-A0W3 TCGA-BH-A0W7 
       26.50        12.89        27.25         5.59        23.93        44.81 
TCGA-BH-A0WA TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T 
       23.05        90.84        26.66        55.63        66.05         7.36 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EU TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EY 
       51.39        69.93        42.28        12.00        55.69        17.69 
TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FH 
       97.48        24.66       114.15        33.17        74.73        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A209 TCGA-BH-A28Q 
       63.35        72.07        72.07         0.72       130.16         6.44 
TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12U TCGA-C8-A135 TCGA-C8-A138 
       11.77        12.66        11.77        12.66         0.62         3.75 
TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HN 
       10.92        11.34        11.34         0.16        12.03         3.25 
TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A27B 
        0.30         0.36         0.43         0.03         0.03         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-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-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JK 
       15.78        18.15        18.90        12.03        18.97        20.12 
TCGA-D8-A1JL TCGA-D8-A1JM TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X5 TCGA-D8-A1X6 
       20.09        19.40        21.01        13.32        18.58        17.79 
TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XL TCGA-D8-A1XR 
       23.90        27.58        17.16        14.50        19.92        15.85 
TCGA-D8-A1XU TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A1Y3 
       12.99        16.54        15.52         3.81        14.24        14.14 
TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27T TCGA-D8-A27V 
       16.04        14.43         4.80        10.09        13.08        12.53 
TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10C TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14T 
       34.42        46.59        40.11        47.15        44.68        33.30 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A155 
       34.26        32.02        31.96        25.41        27.12        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15G TCGA-E2-A15M TCGA-E2-A15O 
       23.87        14.79        25.05        18.21         7.73        13.02 
TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1IE TCGA-E2-A1IG 
       19.56        17.06        14.07        60.53        38.30        32.78 
TCGA-E2-A1II TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LA 
       33.70         3.88        22.19        20.98        39.62        24.59 
TCGA-E2-A1LG TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E9-A1N6 
       18.87         8.75        43.04        16.93         7.20        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-A6HE 
        0.72        26.07         0.62         0.23         0.23        15.39 
TCGA-EW-A1IW TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 
       12.20        25.94        22.82        29.85        40.41        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PF 
       23.11        30.08         7.86        18.90         6.15        14.43 
TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
       19.96        52.73        17.49        53.13        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DL TCGA-GM-A3NW TCGA-GM-A3XL TCGA-GM-A5PX TCGA-LD-A66U 
       42.71        90.84       110.50        69.30        18.12         8.28 
TCGA-LD-A74U TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR 
        6.67         4.70         3.65         3.19         3.25         3.88 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OL-A5D7 TCGA-OL-A5DA 
        5.59         3.22        15.91         2.79        46.55        44.61 
TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-OL-A66N 
       26.20        10.29         9.80        23.70        33.90        18.21 
TCGA-OL-A66O TCGA-S3-A6ZG 
        7.23         6.81 

$`DEL PEAK 29(13Q14.2) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SM TCGA-A2-A04N 
        8.52        48.10        14.27        47.24         7.96       104.81 
TCGA-A2-A04P TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04Y TCGA-A2-A0CK 
       18.02        22.06        63.12        64.04        36.13       125.59 
TCGA-A2-A0CL TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0D2 TCGA-A2-A0D3 
       64.57        92.48        88.60       107.93        33.76        28.77 
TCGA-A2-A0EM TCGA-A2-A0EN TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ES TCGA-A2-A0ET 
      101.72        89.36       107.61        79.76        37.05        35.05 
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-A0T5 
       44.28        17.52        17.13         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-A0YJ TCGA-A2-A0YK TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 
       21.67        18.61        19.33        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-A25F TCGA-A2-A3KC TCGA-A2-A3KD TCGA-A2-A3XS 
       17.19        18.15        10.59        20.88        39.65        33.93 
TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S3 
       14.07        34.98        31.99         8.81         8.91         3.42 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13G 
       34.29        35.47        37.45        35.67        33.11        23.61 
TCGA-A7-A13H TCGA-A7-A26F TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3J0 
       29.56        24.26        23.80        20.61        11.34        10.29 
TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SB TCGA-A7-A4SE 
       11.28        13.41        14.70        11.97        13.74        21.17 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06P TCGA-A8-A06Q 
       14.73        12.10        10.72        11.05        13.02         1.02 
TCGA-A8-A075 TCGA-A8-A07E TCGA-A8-A07G TCGA-A8-A07J TCGA-A8-A07S TCGA-A8-A07U 
       17.03        19.99        18.97        12.00         7.99         9.96 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G 
       28.04        18.05        15.06         0.99        19.99        19.96 
TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 
       37.05         0.99        93.04        33.99        40.01        19.07 
TCGA-A8-A093 TCGA-A8-A097 TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E 
       17.95        12.00         9.99         1.02        13.02        31.00 
TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A6 
        8.98        19.04        15.02        12.00        13.02        21.04 
TCGA-A8-A0A7 TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB 
        0.99         0.95        10.85         2.66         1.48        40.57 
TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QI 
       55.43        36.99        38.79        26.04        50.70         0.92 
TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ 
        0.69        14.83         9.40         1.12         1.55         1.32 
TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AN-A03Y TCGA-AN-A041 
        1.55         0.07         1.18         0.43         0.33         0.23 
TCGA-AN-A049 TCGA-AN-A0AK TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FF 
        0.62         7.36         0.16         0.33         6.44         4.64 
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-A0FZ TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AO-A03M 
        0.36         0.33         0.30         0.33         0.33        47.84 
TCGA-AO-A03P TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J5 TCGA-AO-A0J7 
       84.69        59.05        29.13        32.78        24.16        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-A0JF TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D 
       21.37        99.25        94.59        90.58        77.56        64.04 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AR-A0TQ 
       28.37        14.73        82.62         5.65        13.22        49.32 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U3 TCGA-AR-A1AL 
       37.41        56.88        24.30        55.86        76.18        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        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24O 
       46.32        42.58        36.26       109.58        65.46        65.69 
TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A256 TCGA-AR-A2LE 
        0.85        57.40        53.36        48.16        93.83       128.65 
TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25         7.36        40.04        17.10        20.81        16.96 
TCGA-AR-A2LR TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       20.38        16.04        20.45       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK 
      220.90        50.70       146.50       112.37       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       110.14       110.93       189.01       234.28 
TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RV 
       78.02       172.96       162.05       100.70        89.46       157.41 
TCGA-B6-A0WT TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68       113.79       129.57       129.70       186.48        28.27 
TCGA-B6-A0X7 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0B2 
       58.88        54.28        82.88        55.00        24.53        40.83 
TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BM 
       39.55        48.36        18.21        25.71        24.85        61.68 
TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0C3 TCGA-BH-A0DE 
       35.67        27.19        53.95        45.57        48.13        31.17 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV 
       23.44        22.13        17.26         2.56        38.47        45.17 
TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0EA 
       47.41        16.27        15.68        14.30        44.81        32.65 
TCGA-BH-A0EB TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.49        24.43        30.35        37.78        35.51        24.56 
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-A0HW TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18F 
       36.85        51.32        50.79        24.95        42.35         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-A18R TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EX 
       37.55        51.16        91.99       113.82        82.85        49.58 
TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FG TCGA-BH-A1FL 
       25.81        31.53        89.16       120.62       122.89        55.00 
TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 
       45.63       144.59         6.90        38.60        83.31        57.83 
TCGA-BH-A28O TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L 
       10.65        20.12         0.99       109.28         8.94        11.93 
TCGA-C8-A12N TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 
       11.77         0.07        12.66        12.66        12.66         3.12 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE TCGA-C8-A1HL 
        1.78         1.45         0.69         3.85        12.33        10.42 
TCGA-C8-A1HM TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A 
        2.30         0.23         8.28         9.67         0.03        12.20 
TCGA-C8-A3M7 TCGA-D8-A141 TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JJ 
        0.03        20.58        18.71        12.03        14.01        20.09 
TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X7 TCGA-D8-A1X8 TCGA-D8-A1XB 
       20.38        12.20        14.70        16.73        25.74        18.15 
TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XO 
        2.66        15.22        14.73        21.83        17.69         7.96 
TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XZ 
       16.41        16.31         6.35        15.16        12.66        15.32 
TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27M 
       17.42        13.45        13.05         9.44        16.41        13.48 
TCGA-D8-A27P TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 
        0.76        12.26        14.50        18.51         7.33        43.00 
TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14P 
       27.52        40.41        37.51        28.44        28.87        40.96 
TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14Y TCGA-E2-A14Z 
       38.24        38.60        33.17        43.33        28.60        17.03 
TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E 
       23.24        19.43        23.34        22.82        17.29        20.71 
TCGA-E2-A15F TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L 
       21.63        12.92        17.42        19.40         9.04        20.58 
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-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK 
       16.47        17.10        37.41        33.73        28.44        22.65 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE 
       11.08        54.18        27.42        19.66        40.47        28.90 
TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 
      106.75       102.61         5.52        15.72        18.05        22.26 
TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF 
       19.89        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        12.56        17.75         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5FL TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
       15.72         0.39         0.26        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-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P6 TCGA-EW-A1PB TCGA-EW-A1PD 
       41.13        39.78        29.82        18.48        19.99        13.94 
TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       10.52        34.55        55.00        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-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       42.28        61.91        62.33        76.64        77.33        53.36 
TCGA-GM-A3NY TCGA-GM-A3XG TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-JL-A3YW 
       38.20        32.28        53.95        57.63        13.55        11.84 
TCGA-JL-A3YX TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
       11.57         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 
        5.56         2.63         4.14         4.50         4.50         6.21 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
        2.10        12.66         7.53        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66P TCGA-W8-A86G 
       14.10        14.76        54.51        31.07         4.44         5.29 

  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                        22.025                         21.105 
[1] "0.0 - 211.6 (22.0)" "0.0 - 234.3 (21.1)"
[1] "hr=" "1.3"
D57V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 29(13Q14.2) MUTATED        35       28        3        2       167
  DEL PEAK 29(13Q14.2) WILD-TYPE      45       49        6        7       168
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 29(13Q14.2) MUTATED         107         1         68         13
  DEL PEAK 29(13Q14.2) WILD-TYPE       117         1         70         14
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 29(13Q14.2) MUTATED           24        7         1       7
  DEL PEAK 29(13Q14.2) WILD-TYPE         35       10         0       9
D57V3, multiclass
            clus
vv           DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  STAGE I                              35                             45
  STAGE IA                             28                             49
  STAGE IB                              3                              6
  STAGE II                              2                              7
  STAGE IIA                           167                            168
  STAGE IIB                           107                            117
  STAGE III                             1                              1
  STAGE IIIA                           68                             70
  STAGE IIIB                           13                             14
  STAGE IIIC                           24                             35
  STAGE IV                              7                             10
  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 29(13Q14.2) MUTATED    99 292  54  17
  DEL PEAK 29(13Q14.2) WILD-TYPE 159 289  63  19
D57V4, multiclass
    clus
vv   DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  T1                           99                            159
  T2                          292                            289
  T3                           54                             63
  T4                           17                             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 29(13Q14.2) MUTATED   222 148  58  30
  DEL PEAK 29(13Q14.2) WILD-TYPE 246 182  53  40
D57V5, multiclass
    clus
vv   DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  N0                          222                            246
  N1                          148                            182
  N2                           58                             53
  N3                           30                             40
[1] 4 2
[1] 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(13Q14.2) MUTATED          1 398   7  58
  DEL PEAK 29(13Q14.2) WILD-TYPE        1 447  10  73
D57V6, multiclass
          clus
vv         DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                398                            447
  M1                                  7                             10
  MX                                 58                             73
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V7, binary
                                cls
clus                               0   1
  DEL PEAK 29(13Q14.2) MUTATED   458   6
  DEL PEAK 29(13Q14.2) WILD-TYPE 526   5
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(13Q14.2) MUTATED    458    6
  DEL PEAK 29(13Q14.2) WILD-TYPE  526    5
        clus
vv       DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  FEMALE                          458                            526
  MALE                              6                              5
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 29(13Q14.2) MUTATED                            0
  DEL PEAK 29(13Q14.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 29(13Q14.2) MUTATED                             375
  DEL PEAK 29(13Q14.2) WILD-TYPE                           360
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 29(13Q14.2) MUTATED                               55
  DEL PEAK 29(13Q14.2) WILD-TYPE                            111
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 29(13Q14.2) MUTATED                     4
  DEL PEAK 29(13Q14.2) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 29(13Q14.2) MUTATED                                 11
  DEL PEAK 29(13Q14.2) WILD-TYPE                               18
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 29(13Q14.2) MUTATED                    2             16
  DEL PEAK 29(13Q14.2) WILD-TYPE                 12             28
D57V8, multiclass
                                  clus
vv                                 DEL PEAK 29(13Q14.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             375
  INFILTRATING LOBULAR CARCINOMA                             55
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             16
                                  clus
vv                                 DEL PEAK 29(13Q14.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               360
  INFILTRATING LOBULAR CARCINOMA                              111
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             18
  MUCINOUS CARCINOMA                                           12
  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"
D57V9, binary
                                cls
clus                               0   1
  DEL PEAK 29(13Q14.2) MUTATED   140 324
  DEL PEAK 29(13Q14.2) WILD-TYPE 142 389
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(13Q14.2) MUTATED    140  324
  DEL PEAK 29(13Q14.2) WILD-TYPE  142  389
     clus
vv    DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  NO                           140                            142
  YES                          324                            389
[1] 2 2
[1] FALSE
D57V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 29(13Q14.2) MUTATED                                  0    26
  DEL PEAK 29(13Q14.2) WILD-TYPE                                1    30
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 29(13Q14.2) MUTATED                          77   309
  DEL PEAK 29(13Q14.2) WILD-TYPE                        60   399
D57V11, multiclass
                                  clus
vv                                 DEL PEAK 29(13Q14.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      26
  BLACK OR AFRICAN AMERICAN                                  77
  WHITE                                                     309
                                  clus
vv                                 DEL PEAK 29(13Q14.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        30
  BLACK OR AFRICAN AMERICAN                                    60
  WHITE                                                       399
[1] 4 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 29(13Q14.2) MUTATED    12 363
  DEL PEAK 29(13Q14.2) WILD-TYPE  24 433
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(13Q14.2) MUTATED     12  363
  DEL PEAK 29(13Q14.2) WILD-TYPE   24  433
                        clus
vv                       DEL PEAK 29(13Q14.2) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          363
                        clus
vv                       DEL PEAK 29(13Q14.2) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            433
[1] 2 2
[1] FALSE

Clustering(58) Variable = DEL PEAK 30(14Q24.1) MUTATION ANALYSIS
D58V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 30(14Q24.1) MUTATED   273  46
  DEL PEAK 30(14Q24.1) WILD-TYPE 587  68
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                           319                            655 
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                            46                             68 
$`DEL PEAK 30(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        41.06        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 
       13.02        33.07        29.98        15.02         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-AN-A04C TCGA-AN-A04D 
        2.27         1.81         1.12         0.69         1.78         1.71 
TCGA-AN-A0AK TCGA-AN-A0AS TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FT TCGA-AN-A0FX 
        7.36         0.33         6.44         7.96         6.02         0.33 
TCGA-AN-A0XN TCGA-AN-A0XT TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03T TCGA-AO-A0J2 
        0.33         0.33        66.77        84.69        47.87        32.78 
TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12F 
       17.65        37.48        55.33       102.58        96.10        48.36 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       61.87        70.39        24.79        26.93       130.09         5.65 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TT 
        2.56        21.86         9.99        82.88         5.26        56.88 
TCGA-AR-A0TV TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       29.75        65.36        70.16        55.36        75.55        61.84 
TCGA-AR-A1AJ TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AU 
       52.77        48.82        62.56        39.98        43.07        46.32 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24Q 
       36.26        20.22       109.58        50.89        73.02        66.05 
TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A256 
       54.18        51.75        56.15        45.17        34.82        93.83 
TCGA-B6-A0I1 TCGA-B6-A0I9 TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN 
       77.62        12.13       112.37       176.98       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RL TCGA-B6-A0WS TCGA-B6-A0WW 
      110.14       140.88       211.56        81.17        97.48        17.98 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A1KN 
       21.47       113.79        43.59       101.52        73.51       139.17 
TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B3 TCGA-BH-A0B5 
       24.53        38.79        20.45        28.50        39.55        48.36 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
       56.98        51.68        25.71        24.85        21.70        44.05 
TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C7 
       48.69        53.69        11.67        49.05        44.02        42.90 
TCGA-BH-A0DE TCGA-BH-A0E0 TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0H7 TCGA-BH-A0HX 
       31.17         4.41        14.30         9.63        23.08        27.25 
TCGA-BH-A0RX TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18Q TCGA-BH-A18T TCGA-BH-A18U 
        5.59        23.05         8.81        55.63         7.36        51.39 
TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1F8 
       51.16        69.93        55.69        17.69        97.48        24.66 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FM TCGA-BH-A202 TCGA-BH-A204 
      114.15        33.17        74.73        45.63         0.72        83.31 
TCGA-BH-A42T TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A132 
        0.99        11.93        11.77        12.66        12.66         1.45 
TCGA-C8-A134 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HK TCGA-C8-A1HM TCGA-C8-A1HN 
        0.69        10.92        11.34        12.03         2.30         3.25 
TCGA-C8-A26V TCGA-C8-A26Y TCGA-C8-A27B TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A142 
        0.30         0.43         0.99        11.90        20.88        13.97 
TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JG TCGA-D8-A1JL TCGA-D8-A1JM 
       19.20        18.71        15.78        12.03        20.09        19.40 
TCGA-D8-A1JP TCGA-D8-A1XA TCGA-D8-A1XB TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK 
       21.01        27.58        18.15        15.22        14.73        14.50 
TCGA-D8-A1XL TCGA-D8-A1XO TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XW TCGA-D8-A1XY 
       19.92         7.96         6.35        12.99        12.66        16.54 
TCGA-D8-A1XZ TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27M 
       15.32        15.52        14.14        16.04        14.43        13.48 
TCGA-D8-A27R TCGA-D8-A27T TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10F TCGA-E2-A14R 
       10.09        13.08        27.52        40.41        28.87        38.60 
TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A155 
       33.30        34.26        32.02        17.03        25.41        21.04 
TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15F TCGA-E2-A15M TCGA-E2-A15P 
       14.79        25.05        23.34        21.63         7.73        19.56 
TCGA-E2-A1AZ TCGA-E2-A1IE TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1LA 
       60.53        38.30        33.73        33.70        27.42        24.59 
TCGA-E2-A1LE TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 
       28.90       106.75       102.61         7.20        22.26        19.89 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1QZ TCGA-E9-A1R2 TCGA-E9-A1R4 
       13.48        12.00        13.12        11.90         0.62         6.12 
TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A226 TCGA-E9-A22A 
        1.38         2.76        21.21        20.81        34.13        39.09 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A2JS TCGA-E9-A3HO 
       22.75        12.89        23.51         0.69        17.75        26.07 
TCGA-E9-A3QA TCGA-EW-A1IZ TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW TCGA-EW-A1P4 
        0.62        18.21        28.77        25.94        22.82        29.82 
TCGA-EW-A1P8 TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV 
        7.86        14.43        19.96        55.00        52.73        25.91 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DC TCGA-GM-A2DH TCGA-GM-A2DK 
       10.16        10.59       109.87        53.52        42.28        62.33 
TCGA-GM-A3XL TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LL-A441 TCGA-LL-A5YP TCGA-LL-A7T0 
       69.30        18.12        11.57         2.99         3.25         3.22 
TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K 
        6.21        46.55        10.29         9.80        23.70        33.90 
TCGA-OL-A66N 
       18.21 

$`DEL PEAK 30(14Q24.1) 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-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       125.59 
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-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25        63.45        56.81        34.55        33.76        28.77 
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-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-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-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FW 
       21.67        14.50        19.33        14.63        31.73        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-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
      107.70        17.19        18.15        10.59        20.88        39.65 
TCGA-A2-A3XV TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY 
       14.07        34.98        31.99         7.30         9.01         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CG 
        8.91        12.00         6.74         3.42        38.30        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13G TCGA-A7-A13H 
       35.47        30.61        37.45        33.11        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-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SF 
       10.29        13.41        14.70        11.97        14.93        17.92 
TCGA-A7-A56D TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A8-A06O TCGA-A8-A06P 
       14.73        10.72        11.05        10.29        13.02        13.02 
TCGA-A8-A06R TCGA-A8-A06Y TCGA-A8-A075 TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07B 
       17.98        26.01        17.03        53.98         9.01        33.01 
TCGA-A8-A07E TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U 
       19.99        14.01        12.00        10.98         7.99         9.96 
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        23.08 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08R TCGA-A8-A08S 
       19.99        18.05        12.00        37.05         0.99        19.07 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
       93.04        33.99        40.01        19.07        16.01        17.95 
TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09E TCGA-A8-A09Q 
       41.98        12.00        12.00         1.02        31.00        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-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AD TCGA-AC-A23E TCGA-AC-A23G 
       13.02         0.99        13.02        38.04         2.37        10.85 
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-A2QI TCGA-AC-A3BB TCGA-AC-A3HN TCGA-AC-A3OD 
       26.04        50.70         0.92         0.99         0.69        14.83 
TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        9.40         1.12         1.68         1.55         1.32         1.55 
TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X 
        0.07         1.81         1.18         0.43         1.74         0.33 
TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A0AJ 
        0.33         0.23         0.33         0.62         2.96         8.02 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FF TCGA-AN-A0FK 
        6.51         0.16         0.33         0.33         4.64         7.00 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FV TCGA-AN-A0FW TCGA-AN-A0FY 
        7.59         7.17         6.28         0.33         0.36         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-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03O 
        0.33         5.33         5.59        80.28        47.84        81.63 
TCGA-AO-A03R TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J7 
       68.75        59.05        29.13        21.40        24.16        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        38.53        62.04        71.80 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12D 
       99.25        93.70        94.59        90.58        77.56        64.04 
TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KS 
       57.30        41.62        28.37        14.73        82.62         0.53 
TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TW 
       17.79        15.62        13.22        49.32        37.41        24.30 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A1AK 
       64.83        55.86        76.14        83.87        76.18        51.25 
TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW 
       43.73        43.56        17.23        40.83        42.58        35.24 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S 
       65.46        68.19        65.69         0.85        57.40        62.07 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A252 TCGA-AR-A254 
       53.26        53.36        50.96        48.16        40.64        39.85 
TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
      128.65        20.25        42.87         7.36        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        20.38        54.74        16.04        20.45 
TCGA-AR-A5QQ TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       10.59       143.38       149.59       220.90       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IK TCGA-B6-A0IP TCGA-B6-A0RG TCGA-B6-A0RH 
       65.72       146.50        18.77       110.93        68.45       189.01 
TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
      234.28        78.02       172.96       162.05       102.77       140.48 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WT TCGA-B6-A0WV 
      100.70        89.46       131.21       157.41       188.68        79.63 
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-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C 
      170.17        85.35        54.28        49.94        82.88        55.00 
TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0B6 TCGA-BH-A0BA 
       25.55        46.95        40.83        39.16        56.94        37.22 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS 
       32.02        18.21        61.68        35.67        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0C0 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DG 
       45.57        49.94        41.75        48.13        45.83        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-A0E1 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB TCGA-BH-A0EE 
       15.68        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-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-A0HY 
        2.50        13.61        36.85        12.89        51.32        50.79 
TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18I 
       23.93        24.95        42.35        44.81         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-A18R TCGA-BH-A18S TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
       37.55        66.05        91.99       113.82        82.85        42.28 
TCGA-BH-A1EV TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB 
       12.00        49.58        25.81        31.53        89.16       120.62 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
       72.07         6.90        38.60        57.83       130.16        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-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V TCGA-C8-A130 TCGA-C8-A131 
       11.77         0.07        12.66        12.66         3.12         1.78 
TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HI TCGA-C8-A1HJ 
        0.62         3.85         3.75        12.33        11.34         0.16 
TCGA-C8-A1HL TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
       10.42         0.23         0.36         8.28         9.67         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 
        0.03         0.03        12.20         0.03         0.23        13.25 
TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 
       20.58        14.17        13.48        21.14        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI 
       16.50        18.15        18.90        12.03        14.01        18.97 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU 
       20.09        20.12        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-A1XC 
       18.58        17.79        16.73        25.74        23.90         2.66 
TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XR TCGA-D8-A1XS 
       17.16        21.83        17.69        16.41        15.85        16.31 
TCGA-D8-A1XV TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H 
       15.16         3.81        14.24        17.42        13.45        13.05 
TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27P TCGA-D8-A27V TCGA-D8-A27W 
        9.44        16.41         4.80         0.76        12.53        12.26 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A109 
       14.50        18.51         7.33        43.00        34.42        46.59 
TCGA-E2-A10B TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P 
       37.51        40.11        28.44        47.15        44.68        40.96 
TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A152 
       38.24        33.17        43.33        31.96        28.60        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-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-A1B0 TCGA-E2-A1B1 
       13.02        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-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-A1IO 
       32.78        28.44        22.65         3.88        22.19        20.98 
TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L8 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LG 
       11.08        54.18        39.62        19.66        40.47        18.87 
TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 
        8.75        43.04        16.93         5.52        15.72        18.05 
TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE 
       19.20        36.82        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-A1RC TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH 
       40.24         0.66        34.65         6.58        21.27        34.59 
TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22H TCGA-E9-A243 
       35.64         0.79        12.53        13.32        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        12.56         0.72 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL 
        0.76        18.41        15.72         0.23         0.39         0.26 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1J1 
        0.23        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        32.28        53.95 
TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 
       57.63        13.55        11.84         8.28         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        0.66         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
        3.19         2.63         3.88         4.14         4.50         4.50 
TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 
        5.59        15.91         2.79         2.10        12.66         7.53 
TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY 
       44.61        27.65        24.10        26.20        16.87        14.10 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       14.76        54.51        31.07         7.23         4.44         6.81 
TCGA-W8-A86G 
        5.29 

  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                          0.30                           0.03 
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE 
                         22.82                          20.75 
[1] "0.3 - 211.6 (22.8)" "0.0 - 234.3 (20.8)"
[1] "hr=" "1.5"
D58V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 30(14Q24.1) MUTATED        22       21        0        2       114
  DEL PEAK 30(14Q24.1) WILD-TYPE      58       56        9        7       221
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 30(14Q24.1) MUTATED          81         0         47          7
  DEL PEAK 30(14Q24.1) WILD-TYPE       143         2         91         20
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 30(14Q24.1) MUTATED           15        5         0       8
  DEL PEAK 30(14Q24.1) WILD-TYPE         44       12         1       8
D58V3, multiclass
            clus
vv           DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  STAGE I                              22                             58
  STAGE IA                             21                             56
  STAGE IB                              0                              9
  STAGE II                              2                              7
  STAGE IIA                           114                            221
  STAGE IIB                            81                            143
  STAGE III                             0                              2
  STAGE IIIA                           47                             91
  STAGE IIIB                            7                             20
  STAGE IIIC                           15                             44
  STAGE IV                              5                             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 30(14Q24.1) MUTATED    62 219  32   9
  DEL PEAK 30(14Q24.1) WILD-TYPE 196 362  85  27
D58V4, multiclass
    clus
vv   DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  T1                           62                            196
  T2                          219                            362
  T3                           32                             85
  T4                            9                             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 30(14Q24.1) MUTATED   158 100  42  17
  DEL PEAK 30(14Q24.1) WILD-TYPE 310 230  69  53
D58V5, multiclass
    clus
vv   DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  N0                          158                            310
  N1                          100                            230
  N2                           42                             69
  N3                           17                             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 30(14Q24.1) MUTATED          1 275   5  42
  DEL PEAK 30(14Q24.1) WILD-TYPE        1 570  12  89
D58V6, multiclass
          clus
vv         DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                275                            570
  M1                                  5                             12
  MX                                 42                             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"
D58V7, binary
                                cls
clus                               0   1
  DEL PEAK 30(14Q24.1) MUTATED   319   4
  DEL PEAK 30(14Q24.1) WILD-TYPE 665   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(14Q24.1) MUTATED    319    4
  DEL PEAK 30(14Q24.1) WILD-TYPE  665    7
        clus
vv       DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  FEMALE                          319                            665
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 30(14Q24.1) MUTATED                            1
  DEL PEAK 30(14Q24.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 30(14Q24.1) MUTATED                             276
  DEL PEAK 30(14Q24.1) WILD-TYPE                           459
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 30(14Q24.1) MUTATED                               27
  DEL PEAK 30(14Q24.1) WILD-TYPE                            139
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 30(14Q24.1) MUTATED                     4
  DEL PEAK 30(14Q24.1) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 30(14Q24.1) MUTATED                                  3
  DEL PEAK 30(14Q24.1) WILD-TYPE                               26
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 30(14Q24.1) MUTATED                    1             10
  DEL PEAK 30(14Q24.1) WILD-TYPE                 13             34
D58V8, multiclass
                                  clus
vv                                 DEL PEAK 30(14Q24.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             276
  INFILTRATING LOBULAR CARCINOMA                             27
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            3
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             10
                                  clus
vv                                 DEL PEAK 30(14Q24.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               459
  INFILTRATING LOBULAR CARCINOMA                              139
  MEDULLARY CARCINOMA                                           1
  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"
D58V9, binary
                                cls
clus                               0   1
  DEL PEAK 30(14Q24.1) MUTATED   105 218
  DEL PEAK 30(14Q24.1) WILD-TYPE 177 495
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(14Q24.1) MUTATED    105  218
  DEL PEAK 30(14Q24.1) WILD-TYPE  177  495
     clus
vv    DEL PEAK 30(14Q24.1) MUTATED DEL PEAK 30(14Q24.1) WILD-TYPE
  NO                           105                            177
  YES                          218                            495
[1] 2 2
[1] FALSE
D58V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 30(14Q24.1) MUTATED                                  0    17
  DEL PEAK 30(14Q24.1) WILD-TYPE                                1    39
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 30(14Q24.1) MUTATED                          61   213
  DEL PEAK 30(14Q24.1) WILD-TYPE                        76   495
D58V11, multiclass
                                  clus
vv                                 DEL PEAK 30(14Q24.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      17
  BLACK OR AFRICAN AMERICAN                                  61
  WHITE                                                     213
                                  clus
vv                                 DEL PEAK 30(14Q24.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        39
  BLACK OR AFRICAN AMERICAN                                    76
  WHITE                                                       495
[1] 4 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 30(14Q24.1) MUTATED    11 259
  DEL PEAK 30(14Q24.1) WILD-TYPE  25 537
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(14Q24.1) MUTATED     11  259
  DEL PEAK 30(14Q24.1) WILD-TYPE   25  537
                        clus
vv                       DEL PEAK 30(14Q24.1) MUTATED
  HISPANIC OR LATINO                               11
  NOT HISPANIC OR LATINO                          259
                        clus
vv                       DEL PEAK 30(14Q24.1) WILD-TYPE
  HISPANIC OR LATINO                                 25
  NOT HISPANIC OR LATINO                            537
[1] 2 2
[1] FALSE

Clustering(59) Variable = DEL PEAK 31(15Q13.1) MUTATION ANALYSIS
D59V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 31(15Q13.1) MUTATED   298  44
  DEL PEAK 31(15Q13.1) WILD-TYPE 562  70
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                           342                            632 
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                            44                             70 
$`DEL PEAK 31(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         3.42        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        33.01 
TCGA-A8-A07F TCGA-A8-A07L TCGA-A8-A07R TCGA-A8-A07U TCGA-A8-A084 TCGA-A8-A08G 
       18.97        17.03         8.98         9.96        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        33.99        16.01        17.95 
TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A0A7 TCGA-A8-A0AB 
        9.99         1.02        15.02         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-AN-A04A TCGA-AN-A04D TCGA-AN-A0AJ 
        1.12         0.69         1.74         2.96         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ TCGA-AN-A0FK 
        7.36         0.33         0.33         6.44         7.96         7.00 
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-A0XN TCGA-AN-A0XO TCGA-AN-A0XS TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03P 
        0.33        12.33         0.33        80.28        47.84        84.69 
TCGA-AO-A03V TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J9 TCGA-AO-A0JB TCGA-AO-A0JD 
       29.13        37.48        20.32        53.03        50.70        72.00 
TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A1KQ TCGA-AO-A1KS 
       55.33       102.58        96.10        64.04        61.87         0.53 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TR 
       17.79        24.79        26.93         2.56        21.86         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
       37.41        56.88        29.75        24.30        64.83        55.86 
TCGA-AR-A0U1 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AN 
       70.16        55.36        75.55        61.84        52.77        43.73 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24R 
       43.07        17.23        35.24        20.22       109.58        57.40 
TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A255 
       62.07        54.18        50.96        51.75        45.17        34.82 
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-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       16.93        22.26        19.89        13.48        12.00        13.12 
TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NI TCGA-E9-A1R4 TCGA-E9-A1RC TCGA-E9-A1RE 
       36.56        12.59         9.86         6.12        40.24        34.65 
TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A22E 
        6.58        21.27        34.59        35.64        34.13        12.89 
TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A295 
       23.51         0.69        27.22         1.94         0.95         0.72 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A5FL TCGA-EW-A1J6 TCGA-EW-A1OV 
       26.07         0.62        15.72         0.26        28.77        25.94 
TCGA-EW-A1OW TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PH 
       22.82        40.41        29.82         7.86         6.15        19.96 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       55.00        52.73        25.91        21.27        17.49        10.16 
TCGA-EW-A424 TCGA-GI-A2C9 TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YX 
       10.59       109.87        42.71        42.28        69.30        11.57 
TCGA-LL-A441 TCGA-LL-A5YN TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A8F5 
        2.99         3.65         3.25         2.63         3.88         6.21 
TCGA-OL-A5D7 TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66K TCGA-S3-A6ZG TCGA-W8-A86G 
       46.55         9.80        23.70        33.90         6.81         5.29 

$`DEL PEAK 31(15Q13.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SJ 
        8.52        14.37        43.43        14.27        47.24        13.68 
TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04R TCGA-A2-A04T 
        7.96        39.32        18.21       104.81        82.16        73.84 
TCGA-A2-A04V TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CP 
       63.12        55.43        36.13       125.59       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CR TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0D1 TCGA-A2-A0D2 
       88.60       107.93         5.19        63.45        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0EU 
       28.77       101.72       107.61        74.40        37.05        34.29 
TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0ST TCGA-A2-A0SX TCGA-A2-A0SY 
       31.82        29.75        24.72        99.19        50.43        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-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YH TCGA-A2-A0YI 
       32.55        25.28        15.42        21.90        21.67        14.50 
TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YT TCGA-A2-A1FV TCGA-A2-A1FW TCGA-A2-A1FX 
       19.33        14.63        23.77        23.47        17.36        36.79 
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-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-A3XV TCGA-A2-A3XW TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RX 
       83.01        14.07        49.48        34.98        31.99         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG 
        8.81         8.91        12.00         6.74        38.30        34.29 
TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0DB TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A26F 
       35.47        30.61        33.11        12.72        23.61        24.26 
TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 
       23.74        23.80        20.61        11.34        10.59        10.29 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A4SF 
       13.41        14.70        11.97        14.93        13.74        17.92 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06P 
       10.72        11.05        10.42         8.75        13.02        13.02 
TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A075 TCGA-A8-A079 TCGA-A8-A07E 
        1.02        41.06        29.03        17.03         9.01        19.99 
TCGA-A8-A07G TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       18.97        14.01        12.00         9.99        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-A08F TCGA-A8-A08J TCGA-A8-A08P TCGA-A8-A08R 
       23.08        19.99        18.05        37.05        31.00         0.99 
TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 TCGA-A8-A097 
       19.07        93.04        40.01        19.07        41.98        12.00 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K 
        9.99        12.00        13.02        31.00        33.07        29.98 
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-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AD 
       12.00        19.04        13.02        21.04        13.02        38.04 
TCGA-AC-A23C TCGA-AC-A23G TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB TCGA-AC-A2FF 
        0.95        10.85         2.66         1.48        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A3BB 
       36.99        38.79        50.70         1.02         0.92         0.99 
TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.69         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IX 
        1.32         1.55         0.07         1.81         1.18         0.43 
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-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0FF TCGA-AN-A0FL TCGA-AN-A0FN 
        6.51         0.16         0.33         4.64         7.59         7.17 
TCGA-AN-A0FS TCGA-AN-A0XL TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT TCGA-AN-A0XU 
        6.28         0.33         0.30         0.33         0.33         0.33 
TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T 
        5.33         5.59        66.77        81.63        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J8 
       59.05        32.78        21.40        17.65        24.16        22.36 
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        38.53 
TCGA-AO-A0JJ TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A 
       62.04        71.80        99.25        93.70        94.59        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-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       82.62        70.39       130.09         5.65        15.62        13.22 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 
        9.99        82.88        49.32        76.14        65.36        83.87 
TCGA-AR-A0U3 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AP 
       76.18        51.25        48.82        62.56        43.56        39.98 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AX TCGA-AR-A24K TCGA-AR-A24L 
       40.83        46.32        42.58        36.26        50.89        73.02 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T 
       65.46        68.19        65.69         0.85        66.05        53.26 
TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A2LE 
       53.36        48.16        56.15        40.64        39.85       128.65 
TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       20.25         7.36        40.04        17.10        20.81        16.96 
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-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-A0IO TCGA-B6-A0IP TCGA-B6-A0RH TCGA-B6-A0RI 
      126.12        84.59       110.14       110.93       189.01       234.28 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RV 
       81.17        78.02       172.96       140.48        89.46       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-A1KN TCGA-B6-A2IU 
      186.48        28.27        68.94        58.88       139.17       170.17 
TCGA-B6-A401 TCGA-B6-A408 TCGA-B6-A40B TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       85.35        49.94        82.88        20.45        25.55        28.50 
TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0BC TCGA-BH-A0BD 
       46.95        39.55        39.16        56.98        32.02        18.21 
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-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DD 
       27.19        53.69        53.95        49.94        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-A0DQ TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ 
       17.26         3.22         2.56        38.47        45.17        16.27 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE 
       15.68        14.30        44.81        46.19        32.65        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-A0HA TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HQ 
       24.56        52.96        20.38         5.85         2.50        36.85 
TCGA-BH-A0HW TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18G TCGA-BH-A18I 
       51.32        23.93        24.95        42.35         2.01         7.23 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18V 
       72.56        37.74        30.28        37.55        66.05        51.16 
TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1EY TCGA-BH-A1F0 
       82.85        42.28        55.69        49.58        17.69        25.81 
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-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       63.35        55.00        72.07       144.59        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A209 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        0.72        83.31       130.16        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-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A137 
        0.07        12.66        12.66         1.78         1.45         3.85 
TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A26V TCGA-C8-A26W 
       12.33        11.34        11.34        10.42         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A27A TCGA-C8-A27B 
        0.36         8.28         9.67         0.03        12.20         0.99 
TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 
        0.03         0.23        11.90        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-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-A1X9 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD 
       16.73        25.74        23.90        27.58         2.66        17.16 
TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XV 
       14.73        21.83        17.69        15.85         6.35        15.16 
TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27G 
       12.66        15.52        14.24        14.14        17.42        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-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-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
        7.33        43.00        34.42        27.52        40.41        37.51 
TCGA-E2-A10E TCGA-E2-A14P TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U 
       28.44        40.96        38.24        33.17        33.30        43.33 
TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A155 TCGA-E2-A156 
       31.96        28.60        17.03        23.24        21.04        23.87 
TCGA-E2-A158 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F 
       14.79        23.34        22.82        17.29        20.71        21.63 
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-A1BC TCGA-E2-A1IE TCGA-E2-A1IG TCGA-E2-A1IH 
       29.95        32.35        16.47        38.30        32.78        33.73 
TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IU TCGA-E2-A1L6 
       28.44        22.65         3.88        22.19        11.08        54.18 
TCGA-E2-A1L9 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A2P6 
       19.66        24.59        28.90        18.87        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NC 
       15.72         7.20        18.05        19.20        36.82        39.55 
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-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-A1RD TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B 
        0.66         0.79        12.53        13.32        39.09        22.75 
TCGA-E9-A22H TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A2JT 
       24.10        17.06         0.85        12.56        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW 
       18.41         0.23         0.39         0.23        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 
       32.28        53.95        57.63        13.55        18.12        11.84 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         6.67         4.60         0.66         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
        5.56         4.70         3.19         4.14         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        15.91         2.79         2.10        12.66 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX 
        7.53        44.61        27.65        24.10        26.20        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66L TCGA-OL-A66N 
       14.10        10.29        14.76        54.51        31.07        18.21 
TCGA-OL-A66O TCGA-OL-A66P 
        7.23         4.44 

  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE 
                         24.23                          20.58 
[1] "0.0 - 211.6 (24.2)" "0.0 - 234.3 (20.6)"
[1] "hr=" "1.2"
D59V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 31(15Q13.1) MUTATED        26       19        2        1       132
  DEL PEAK 31(15Q13.1) WILD-TYPE      54       58        7        8       203
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 31(15Q13.1) MUTATED          78         1         55          6
  DEL PEAK 31(15Q13.1) WILD-TYPE       146         1         83         21
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 31(15Q13.1) MUTATED           16        8         0       4
  DEL PEAK 31(15Q13.1) WILD-TYPE         43        9         1      12
D59V3, multiclass
            clus
vv           DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  STAGE I                              26                             54
  STAGE IA                             19                             58
  STAGE IB                              2                              7
  STAGE II                              1                              8
  STAGE IIA                           132                            203
  STAGE IIB                            78                            146
  STAGE III                             1                              1
  STAGE IIIA                           55                             83
  STAGE IIIB                            6                             21
  STAGE IIIC                           16                             43
  STAGE IV                              8                              9
  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 31(15Q13.1) MUTATED    68 230  39  11
  DEL PEAK 31(15Q13.1) WILD-TYPE 190 351  78  25
D59V4, multiclass
    clus
vv   DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  T1                           68                            190
  T2                          230                            351
  T3                           39                             78
  T4                           11                             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 31(15Q13.1) MUTATED   178 102  48  19
  DEL PEAK 31(15Q13.1) WILD-TYPE 290 228  63  51
D59V5, multiclass
    clus
vv   DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  N0                          178                            290
  N1                          102                            228
  N2                           48                             63
  N3                           19                             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 31(15Q13.1) MUTATED          0 301   8  40
  DEL PEAK 31(15Q13.1) WILD-TYPE        2 544   9  91
D59V6, multiclass
          clus
vv         DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                301                            544
  M1                                  8                              9
  MX                                 40                             91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V7, binary
                                cls
clus                               0   1
  DEL PEAK 31(15Q13.1) MUTATED   345   4
  DEL PEAK 31(15Q13.1) WILD-TYPE 639   7
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(15Q13.1) MUTATED    345    4
  DEL PEAK 31(15Q13.1) WILD-TYPE  639    7
        clus
vv       DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  FEMALE                          345                            639
  MALE                              4                              7
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 31(15Q13.1) MUTATED                            1
  DEL PEAK 31(15Q13.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 31(15Q13.1) MUTATED                             290
  DEL PEAK 31(15Q13.1) WILD-TYPE                           445
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 31(15Q13.1) MUTATED                               32
  DEL PEAK 31(15Q13.1) WILD-TYPE                            134
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 31(15Q13.1) MUTATED                     4
  DEL PEAK 31(15Q13.1) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 31(15Q13.1) MUTATED                                  8
  DEL PEAK 31(15Q13.1) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 31(15Q13.1) MUTATED                    1             12
  DEL PEAK 31(15Q13.1) WILD-TYPE                 13             32
D59V8, multiclass
                                  clus
vv                                 DEL PEAK 31(15Q13.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             290
  INFILTRATING LOBULAR CARCINOMA                             32
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             12
                                  clus
vv                                 DEL PEAK 31(15Q13.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               445
  INFILTRATING LOBULAR CARCINOMA                              134
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  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"
D59V9, binary
                                cls
clus                               0   1
  DEL PEAK 31(15Q13.1) MUTATED   111 238
  DEL PEAK 31(15Q13.1) WILD-TYPE 171 475
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(15Q13.1) MUTATED    111  238
  DEL PEAK 31(15Q13.1) WILD-TYPE  171  475
     clus
vv    DEL PEAK 31(15Q13.1) MUTATED DEL PEAK 31(15Q13.1) WILD-TYPE
  NO                           111                            171
  YES                          238                            475
[1] 2 2
[1] FALSE
D59V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 31(15Q13.1) MUTATED                                  0    22
  DEL PEAK 31(15Q13.1) WILD-TYPE                                1    34
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 31(15Q13.1) MUTATED                          61   236
  DEL PEAK 31(15Q13.1) WILD-TYPE                        76   472
D59V11, multiclass
                                  clus
vv                                 DEL PEAK 31(15Q13.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      22
  BLACK OR AFRICAN AMERICAN                                  61
  WHITE                                                     236
                                  clus
vv                                 DEL PEAK 31(15Q13.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        34
  BLACK OR AFRICAN AMERICAN                                    76
  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"
D59V12, binary
                                cls
clus                               0   1
  DEL PEAK 31(15Q13.1) MUTATED    12 284
  DEL PEAK 31(15Q13.1) WILD-TYPE  24 512
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(15Q13.1) MUTATED     12  284
  DEL PEAK 31(15Q13.1) WILD-TYPE   24  512
                        clus
vv                       DEL PEAK 31(15Q13.1) MUTATED
  HISPANIC OR LATINO                               12
  NOT HISPANIC OR LATINO                          284
                        clus
vv                       DEL PEAK 31(15Q13.1) WILD-TYPE
  HISPANIC OR LATINO                                 24
  NOT HISPANIC OR LATINO                            512
[1] 2 2
[1] FALSE

Clustering(60) Variable = DEL PEAK 32(16Q24.3) MUTATION ANALYSIS
D60V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 32(16Q24.3) MUTATED   550  69
  DEL PEAK 32(16Q24.3) WILD-TYPE 310  45
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                           619                            355 
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                            69                             45 
$`DEL PEAK 32(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       125.59       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        14.63        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         8.81         3.42 
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        41.06        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        33.01        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        23.08        19.99        18.05        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        19.07        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       19.07        16.01        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        15.02         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         9.40         1.12         1.81 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IV 
        1.68         1.55         1.55         0.07         1.12         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        0.69         0.43         1.74         0.33         0.33         0.23 
TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AR 
        0.33         0.62         1.78         8.02         7.36         0.33 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FW TCGA-AN-A0FZ TCGA-AN-A0XL 
        7.00         7.17         6.28         0.36         0.33         0.33 
TCGA-AN-A0XN 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-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03V 
       80.28        66.77        81.63        84.69        68.75        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-A0JI 
       50.70        50.86        72.00        76.77        21.37        38.53 
TCGA-AO-A0JJ TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12A TCGA-AO-A12B 
       62.04        99.25        93.70        96.10        90.58        77.56 
TCGA-AO-A12E TCGA-AO-A12G TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS 
       57.30        41.62        82.62        61.87        70.39         0.53 
TCGA-AO-A1KT TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TV 
       17.79        15.62        13.22         2.56         9.99        29.75 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       55.86        76.14        83.87        76.18        55.36        75.55 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AP TCGA-AR-A1AQ 
       51.25        48.82        62.56        43.73        39.98        43.07 
TCGA-AR-A1AR TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L 
       17.23        35.24        36.26       109.58        50.89        73.02 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U 
       68.19        65.69         0.85        62.07        53.26        53.36 
TCGA-AR-A24V TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 
       54.18        48.16        45.17        39.85        34.82        93.83 
TCGA-AR-A2LE TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO 
      128.65        42.87         7.36        40.04        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       16.96        16.04       149.59       220.90       129.57        50.70 
TCGA-B6-A0IH TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG 
      112.37       126.12       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-A0RS TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WW 
      140.48       100.70       157.41        97.48       188.68        17.98 
TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KI TCGA-B6-A2IU 
      129.57       129.70        58.88        43.59        73.51       170.17 
TCGA-B6-A402 TCGA-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
       54.28        49.94        82.88        55.00        24.53        20.45 
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-A0BA TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BM 
       56.94        56.98        37.22        32.02        25.71        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT TCGA-BH-A0C1 
       35.67        48.69        27.19        53.95        45.57        44.02 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DO 
       48.13        42.90        31.17        38.01        13.91        17.26 
TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DZ TCGA-BH-A0E0 
       15.65         2.56        38.47        45.17        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-A0GY TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 
       24.49        31.00        30.35        15.16        37.78        35.51 
TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       24.56        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-A0W3 
       36.85        12.89        51.32        27.25        50.79        23.93 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18J 
       24.95        42.35        44.81         8.81         7.23        20.12 
TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18T 
       90.84        26.66        72.56        37.74        30.28         7.36 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EV 
       51.39        69.93        91.99        82.85        42.28        12.00 
TCGA-BH-A1EW TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB 
       55.69        17.69        31.53        89.16        24.66       120.62 
TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FL TCGA-BH-A1FN 
      114.15        33.17        74.73       122.89        55.00        72.07 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        0.72        38.60        83.31        57.83       130.16        10.65 
TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N 
        6.44        20.12         0.99         8.94        11.93        11.77 
TCGA-C8-A12P TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE TCGA-C8-A1HF 
       11.77         0.62         3.85         3.75        12.33        10.92 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W 
       11.34        11.34         2.30         3.25         0.30         0.23 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A274 TCGA-C8-A278 TCGA-C8-A3M7 TCGA-C8-A3M8 
        0.36         0.43         0.03         0.03         0.03         0.23 
TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A145 TCGA-D8-A146 
       11.90        20.88        20.58        13.97        13.48        21.14 
TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       14.17        17.49        15.78        18.15        18.90        12.03 
TCGA-D8-A1JI TCGA-D8-A1JJ 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-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XB 
       14.70        18.58        17.79        25.74        23.90        18.15 
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-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y3 TCGA-D8-A27G TCGA-D8-A27I 
       16.54        15.52         3.81        14.14        13.45        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-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C 
       18.51         7.33        34.42        46.59        40.41        40.11 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14S TCGA-E2-A14U 
       28.44        28.87        44.68        38.24        33.17        43.33 
TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A153 TCGA-E2-A154 
       34.26        32.02        28.60        17.03        23.24        19.43 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        25.05        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-A1B4 TCGA-E2-A1B5 TCGA-E2-A1BC TCGA-E2-A1BD 
       14.07        14.99        29.95        32.35        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IL 
       38.30        37.41        33.73        33.70        28.44         3.88 
TCGA-E2-A1IO TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L8 TCGA-E2-A1LA 
       20.98        11.08        54.18        27.42        39.62        24.59 
TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LK TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 
       18.87       106.75         8.75        43.04        16.93         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 
       15.72        18.05        22.26        19.20        36.82        12.00 
TCGA-E9-A1NC TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R0 
       39.55        20.05        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-A1RA TCGA-E9-A1RB TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RG TCGA-E9-A1RI 
       32.09        20.81         0.66        34.65        21.27        35.64 
TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A22E TCGA-E9-A22G TCGA-E9-A22H TCGA-E9-A243 
       34.13         0.79        12.89        23.51        24.10        17.06 
TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 
        0.69        27.22         1.94         0.95        12.56         0.72 
TCGA-E9-A2JS TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A6HE TCGA-EW-A1IW 
       17.75        26.07        15.72         0.23        15.39        12.20 
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-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       28.77        25.94        40.41        52.96        23.11        18.48 
TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A2FS TCGA-EW-A3E8 
        7.86         6.15        10.52        34.55        52.73        21.27 
TCGA-EW-A423 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DC 
       10.16        10.59         7.40        59.57       194.27        53.52 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DL TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       42.28        61.91        90.84        77.33        53.36       110.50 
TCGA-GM-A3NY TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       38.20        53.95        57.63        13.55        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        8.28         6.67         4.60         6.90         5.56         3.65 
TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        3.22        15.91         2.79         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5S0 
        7.53        44.61        24.10        26.20        16.87         9.80 
TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG 
       54.51        33.90        31.07        18.21         4.44         6.81 
TCGA-W8-A86G 
        5.29 

$`DEL PEAK 32(16Q24.3) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SJ TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04Q 
        8.52        13.68        19.20        18.21        18.02        41.95 
TCGA-A2-A04T TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y TCGA-A2-A0CL TCGA-A2-A0CM 
       73.84        64.04        55.43        36.13        64.57        24.79 
TCGA-A2-A0CW TCGA-A2-A0D2 TCGA-A2-A0EP TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0ST 
       64.04        33.76       107.61        37.05        35.05        99.19 
TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0YE 
       27.12        44.88        50.43         8.38        18.71        18.21 
TCGA-A2-A0YG TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1FZ 
       21.90        14.50        18.61        23.77        17.36        22.45 
TCGA-A2-A1G1 TCGA-A2-A1G6 TCGA-A2-A25B TCGA-A2-A25C TCGA-A2-A25F TCGA-A2-A3XS 
       19.20        16.47        16.31        17.19        10.59        33.93 
TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ 
       29.98        14.07        49.48        38.40        34.98        31.99 
TCGA-A2-A3Y0 TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 
       38.37         7.30         9.01         8.91        12.00         6.74 
TCGA-A7-A0D9 TCGA-A7-A13E TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A2KD 
       37.45        10.72        24.26        23.74        23.80        22.32 
TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SD TCGA-A7-A4SF 
       11.34        10.29        13.41        14.70        14.50        17.92 
TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06R 
       14.73        12.10        10.29        10.42         8.75        17.98 
TCGA-A8-A06Y TCGA-A8-A076 TCGA-A8-A07I TCGA-A8-A07O TCGA-A8-A07R TCGA-A8-A07U 
       26.01        53.98        14.01         9.99         8.98         9.96 
TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A08A TCGA-A8-A08I TCGA-A8-A08J 
        9.99        28.04        18.05         0.99        12.00        37.05 
TCGA-A8-A08R TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I TCGA-AC-A23C 
        0.99         1.02        13.02        31.00        33.07         0.95 
TCGA-AC-A23H TCGA-AC-A2FK TCGA-AC-A2QH TCGA-AC-A2QJ TCGA-AC-A3YJ TCGA-AC-A62Y 
        2.66        38.79         1.02         2.27         1.32         1.81 
TCGA-AN-A04A TCGA-AN-A04D TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT 
        2.96         1.71         6.51         0.16         0.33         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV 
        6.44         4.64         7.96         7.59         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03M 
        0.33         0.33         0.33         5.33         5.59        47.84 
TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0JG 
       47.87        59.05        32.78        17.65        37.48        26.24 
TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A128 TCGA-AO-A12D TCGA-AO-A12F 
       55.33        71.80       102.58        94.59        64.04        48.36 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 
       28.37        14.73        24.79        26.93       130.09         5.65 
TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT 
       21.86        82.88        49.32         5.26        37.41        56.88 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0U0 TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AJ 
       24.30        64.83        65.36        70.16        61.84        52.77 
TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24M 
       43.56        40.83        46.32        42.58        20.22        65.46 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24W TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A252 
       66.05        57.40        50.96        51.75        56.15        40.64 
TCGA-AR-A2LH TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I1 
       20.25        20.38        54.74        20.45        10.59        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I9 TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IJ TCGA-B6-A0IK 
      143.38        12.13        65.72       146.50       176.98        18.77 
TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0RO TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WV 
       84.59       110.14       162.05        89.46       131.21        79.63 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KF 
       21.47       113.79       186.48        28.27        68.94       101.52 
TCGA-B6-A1KN TCGA-B6-A401 TCGA-BH-A0AV TCGA-BH-A0B3 TCGA-BH-A0B9 TCGA-BH-A0BD 
      139.17        85.35        38.79        39.55        51.68        18.21 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BR TCGA-BH-A0BV TCGA-BH-A0BW 
       24.85        21.70        44.05        53.69        49.94        11.67 
TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0DD TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DL 
       49.05        41.75        45.83        23.44        22.13        48.23 
TCGA-BH-A0DQ TCGA-BH-A0DX TCGA-BH-A0EI TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 
        3.22        47.41        24.43        10.78        23.08        41.00 
TCGA-BH-A0HA TCGA-BH-A0RX TCGA-BH-A0WA TCGA-BH-A18G TCGA-BH-A18Q TCGA-BH-A18R 
       52.96         5.59        23.05         2.01        55.63        37.55 
TCGA-BH-A18S TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EX TCGA-BH-A1F0 TCGA-BH-A1F6 
       66.05        51.16       113.82        49.58        25.81        97.48 
TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       36.92        63.35        45.63       144.59        72.07         6.90 
TCGA-BH-A42U TCGA-C8-A12M TCGA-C8-A12O TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A12V 
      109.28        11.77        12.66         0.07        12.66        12.66 
TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A134 
       12.66        12.66         3.12         1.78         1.45         0.69 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 
        0.16        12.03        10.42         8.28         9.67         0.03 
TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A140 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JA 
       12.20         0.99        13.25        14.17        19.20        16.50 
TCGA-D8-A1JB TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1JM 
       18.71        12.03        14.01        20.12        20.09        19.40 
TCGA-D8-A1X7 TCGA-D8-A1XA TCGA-D8-A1XC TCGA-D8-A1XD TCGA-D8-A1XF TCGA-D8-A1XG 
       16.73        27.58         2.66        17.16        15.22        14.73 
TCGA-D8-A1XJ TCGA-D8-A1XM TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW 
       21.83        17.69         6.35        12.99        15.16        12.66 
TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27M 
       15.32        14.24        17.42        16.04        13.05        13.48 
TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10B 
        4.80        10.09        12.26        43.00        27.52        37.51 
TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14X TCGA-E2-A150 
       47.15        40.96        38.60        33.30        31.96        25.41 
TCGA-E2-A152 TCGA-E2-A158 TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B6 
       27.12        14.79        60.53        53.62        53.03        28.50 
TCGA-E2-A1IG TCGA-E2-A1IK TCGA-E2-A1IN TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LE 
       32.78        22.65        22.19        19.66        40.47        28.90 
TCGA-E2-A1LI TCGA-E2-A56Z TCGA-E2-A574 TCGA-E9-A1N6 TCGA-E9-A1N9 TCGA-E9-A1NA 
      102.61         7.20        19.89        13.48        13.12        36.56 
TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1RC TCGA-E9-A1RF TCGA-E9-A1RH TCGA-E9-A228 
       12.59        35.77        40.24         6.58        34.59        12.53 
TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22B TCGA-E9-A245 TCGA-E9-A2JT TCGA-E9-A3Q9 
       13.32        39.09        22.75         0.85         0.76        18.41 
TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-EW-A1IX TCGA-EW-A1OW 
        0.62         0.39         0.26         0.23        39.72        22.82 
TCGA-EW-A1OX TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P7 
       29.95        29.85        41.13        39.78        29.82        30.08 
TCGA-EW-A1PA TCGA-EW-A1PB TCGA-EW-A1PD TCGA-EW-A1PF TCGA-EW-A1PH TCGA-EW-A2FR 
       18.90        19.99        13.94        14.43        19.96        55.00 
TCGA-EW-A2FV TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-GI-A2C9 TCGA-GM-A2DB TCGA-GM-A2DD 
       25.91        22.09        17.49       109.87        53.13        43.04 
TCGA-GM-A2DF TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A3XG TCGA-GM-A3XL TCGA-JL-A3YW 
       42.71        62.33        76.64        32.28        69.30        11.84 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP 
        0.66         2.99         3.58         4.70         3.19         3.25 
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-A8F5 TCGA-OL-A5RU TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I 
        6.21        27.65        14.10        10.29        14.76        23.70 
TCGA-OL-A66O 
        7.23 

  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                        234.28                         186.48 
  DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE 
                         21.37                          21.70 
[1] "0.0 - 234.3 (21.4)" "0.0 - 186.5 (21.7)"
[1] "hr=" "1.3"
D60V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 32(16Q24.3) MUTATED        59       43        5        8       213
  DEL PEAK 32(16Q24.3) WILD-TYPE      21       34        4        1       122
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 32(16Q24.3) MUTATED         142         1         86         14
  DEL PEAK 32(16Q24.3) WILD-TYPE        82         1         52         13
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 32(16Q24.3) MUTATED           43        7         0      12
  DEL PEAK 32(16Q24.3) WILD-TYPE         16       10         1       4
D60V3, multiclass
            clus
vv           DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  STAGE I                              59                             21
  STAGE IA                             43                             34
  STAGE IB                              5                              4
  STAGE II                              8                              1
  STAGE IIA                           213                            122
  STAGE IIB                           142                             82
  STAGE III                             1                              1
  STAGE IIIA                           86                             52
  STAGE IIIB                           14                             13
  STAGE IIIC                           43                             16
  STAGE IV                              7                             10
  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 32(16Q24.3) MUTATED   166 363  83  19
  DEL PEAK 32(16Q24.3) WILD-TYPE  92 218  34  17
D60V4, multiclass
    clus
vv   DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  T1                          166                             92
  T2                          363                            218
  T3                           83                             34
  T4                           19                             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 32(16Q24.3) MUTATED   302 203  68  51
  DEL PEAK 32(16Q24.3) WILD-TYPE 166 127  43  19
D60V5, multiclass
    clus
vv   DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  N0                          302                            166
  N1                          203                            127
  N2                           68                             43
  N3                           51                             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                             CM0 (I+)  M0  M1  MX
  DEL PEAK 32(16Q24.3) MUTATED          2 539   7  85
  DEL PEAK 32(16Q24.3) WILD-TYPE        0 306  10  46
D60V6, multiclass
          clus
vv         DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  CM0 (I+)                            2                              0
  M0                                539                            306
  M1                                  7                             10
  MX                                 85                             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"
D60V7, binary
                                cls
clus                               0   1
  DEL PEAK 32(16Q24.3) MUTATED   626   7
  DEL PEAK 32(16Q24.3) WILD-TYPE 358   4
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(16Q24.3) MUTATED    626    7
  DEL PEAK 32(16Q24.3) WILD-TYPE  358    4
        clus
vv       DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  FEMALE                          626                            358
  MALE                              7                              4
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 32(16Q24.3) MUTATED                            0
  DEL PEAK 32(16Q24.3) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 32(16Q24.3) MUTATED                             445
  DEL PEAK 32(16Q24.3) WILD-TYPE                           290
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 32(16Q24.3) MUTATED                              149
  DEL PEAK 32(16Q24.3) WILD-TYPE                             17
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 32(16Q24.3) MUTATED                     2
  DEL PEAK 32(16Q24.3) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 32(16Q24.3) MUTATED                                 20
  DEL PEAK 32(16Q24.3) WILD-TYPE                                9
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 32(16Q24.3) MUTATED                    1             16
  DEL PEAK 32(16Q24.3) WILD-TYPE                 13             28
D60V8, multiclass
                                  clus
vv                                 DEL PEAK 32(16Q24.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             445
  INFILTRATING LOBULAR CARCINOMA                            149
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           20
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                             16
                                  clus
vv                                 DEL PEAK 32(16Q24.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               290
  INFILTRATING LOBULAR CARCINOMA                               17
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                              9
  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"
D60V9, binary
                                cls
clus                               0   1
  DEL PEAK 32(16Q24.3) MUTATED   174 459
  DEL PEAK 32(16Q24.3) WILD-TYPE 108 254
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(16Q24.3) MUTATED    174  459
  DEL PEAK 32(16Q24.3) WILD-TYPE  108  254
     clus
vv    DEL PEAK 32(16Q24.3) MUTATED DEL PEAK 32(16Q24.3) WILD-TYPE
  NO                           174                            108
  YES                          459                            254
[1] 2 2
[1] FALSE
D60V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 32(16Q24.3) MUTATED                                  1    32
  DEL PEAK 32(16Q24.3) WILD-TYPE                                0    24
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 32(16Q24.3) MUTATED                          71   460
  DEL PEAK 32(16Q24.3) WILD-TYPE                        66   248
D60V11, multiclass
                                  clus
vv                                 DEL PEAK 32(16Q24.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      32
  BLACK OR AFRICAN AMERICAN                                  71
  WHITE                                                     460
                                  clus
vv                                 DEL PEAK 32(16Q24.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              0
  ASIAN                                                        24
  BLACK OR AFRICAN AMERICAN                                    66
  WHITE                                                       248
[1] 4 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 32(16Q24.3) MUTATED    18 500
  DEL PEAK 32(16Q24.3) WILD-TYPE  18 296
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(16Q24.3) MUTATED     18  500
  DEL PEAK 32(16Q24.3) WILD-TYPE   18  296
                        clus
vv                       DEL PEAK 32(16Q24.3) MUTATED
  HISPANIC OR LATINO                               18
  NOT HISPANIC OR LATINO                          500
                        clus
vv                       DEL PEAK 32(16Q24.3) WILD-TYPE
  HISPANIC OR LATINO                                 18
  NOT HISPANIC OR LATINO                            296
[1] 2 2
[1] FALSE

Clustering(61) Variable = DEL PEAK 33(17P12) MUTATION ANALYSIS
D61V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 33(17P12) MUTATED   515  71
  DEL PEAK 33(17P12) WILD-TYPE 345  43
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                         586                          388 
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                          71                           43 
$`DEL PEAK 33(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       125.59 
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 
       14.63        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        14.07        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         9.01        12.00         3.42        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 
       33.01        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        23.08 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O 
       18.05        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        19.07        33.99        16.01        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        33.07        29.98        15.02         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 
        1.81         1.68         1.12         1.81         0.43         1.74 
TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.23         0.33         2.96         1.78         1.71         8.02 
TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ 
        6.51         0.16         0.33         0.33         6.44         7.96 
TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ 
        7.59         6.02         0.33         0.33         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XT 
        0.33         0.33        12.33         0.30         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        0.33         5.59        47.84        66.77        81.63        84.69 
TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 
       68.75        47.87        29.13        32.78        21.40        17.65 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE TCGA-AO-A0JG TCGA-AO-A0JJ 
       21.53        50.70        72.00        76.77        26.24        62.04 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A126 TCGA-AO-A129 TCGA-AO-A12D TCGA-AO-A12G 
       71.80       102.58        93.70        96.10        64.04        41.62 
TCGA-AO-A1KQ TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L 
       61.87        70.39         0.53        24.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TR 
        5.65        13.22         2.56        21.86        82.88         5.26 
TCGA-AR-A0TT TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       56.88        24.30        55.86        76.14        70.16        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AM 
       76.18        55.36        75.55        61.84        52.77        62.56 
TCGA-AR-A1AN TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AX 
       43.73        43.07        17.23        40.83        46.32        36.26 
TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R 
       20.22       109.58        73.02        65.69         0.85        57.40 
TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24Z TCGA-AR-A250 
       62.07        53.26        53.36        54.18        51.75        56.15 
TCGA-AR-A252 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LK 
       40.64        39.85        34.82        93.83       128.65        42.87 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A5QM TCGA-AR-A5QP TCGA-AR-A5QQ TCGA-B6-A0I9 
        7.36        40.04        54.74        20.45        10.59        12.13 
TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK 
      129.57        65.72       146.50       112.37       176.98        18.77 
TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG 
      126.12        84.59       110.14       140.88       211.56        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU 
      189.01       234.28        81.17       100.70        89.46       131.21 
TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X1 
      157.41        97.48        79.63       113.79       129.57       186.48 
TCGA-B6-A0X7 TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW 
       58.88       139.17        54.28        49.94        38.79        20.45 
TCGA-BH-A0AY TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0B5 
       25.55        46.95        40.83        39.55        39.16        48.36 
TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BM 
       56.94        51.68        37.22        32.02        25.71        61.68 
TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 
       48.69        27.19        53.69        11.67        49.05        41.75 
TCGA-BH-A0C1 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DI TCGA-BH-A0DK 
       44.02        42.90        45.83        31.17        22.13        13.91 
TCGA-BH-A0DL TCGA-BH-A0DP TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 
       48.23        15.65        47.41        16.27         4.41        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H7 
        9.63        46.19        31.00        24.43        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-A0HY TCGA-BH-A0W4 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I 
       50.79        24.95        44.81        23.05         8.81         7.23 
TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18S TCGA-BH-A18T 
       20.12        26.66        30.28        55.63        66.05         7.36 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1EU TCGA-BH-A1EV 
       51.39        51.16        91.99       113.82        42.28        12.00 
TCGA-BH-A1EY TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1F8 TCGA-BH-A1FD TCGA-BH-A1FE 
       17.69        31.53        97.48        24.66        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A201 
      122.89        36.92        63.35        45.63        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-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A130 TCGA-C8-A131 
       12.66        11.77         0.07        12.66         3.12         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HF 
        1.45         0.69         0.62         3.85         3.75        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-A26Y TCGA-C8-A26Z 
        3.25         0.30         0.23         0.36         0.43         8.28 
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-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1J9 
       20.88        13.48        21.14        19.20        14.17        17.49 
TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       16.50        18.71        15.78        18.15        18.90        12.03 
TCGA-D8-A1JJ TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JT TCGA-D8-A1X5 
       20.09        20.12        20.38        21.01        13.32        18.58 
TCGA-D8-A1X7 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XF TCGA-D8-A1XJ TCGA-D8-A1XK 
       16.73        23.90        27.58        15.22        21.83        14.50 
TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XQ TCGA-D8-A1XS TCGA-D8-A1XT TCGA-D8-A1XU 
       19.92        17.69        16.41        16.31         6.35        12.99 
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-A27G TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27T 
       13.45        13.05        13.48         4.80        10.09        13.08 
TCGA-E2-A105 TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R 
       43.00        40.11        28.87        44.68        38.24        38.60 
TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y 
       33.17        33.30        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-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15G TCGA-E2-A15H 
       14.79        25.05        23.34        20.71        18.21        12.92 
TCGA-E2-A15I TCGA-E2-A15M TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 
       17.42         7.73        14.07        14.99        60.53        53.62 
TCGA-E2-A1B1 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE TCGA-E2-A1IG 
       53.03        32.35        28.50        16.47        38.30        32.78 
TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IJ TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L7 
       33.73        33.70        28.44        22.19        20.98        27.42 
TCGA-E2-A1L8 TCGA-E2-A1LA TCGA-E2-A1LE TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LI 
       39.62        24.59        28.90        18.87       106.75       102.61 
TCGA-E2-A1LL TCGA-E2-A2P5 TCGA-E2-A2P6 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E9-A1N5 
       43.04        16.93         5.52         7.20        22.26        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1NC TCGA-E9-A1ND 
       13.48        12.00        13.12        36.56        39.55        12.59 
TCGA-E9-A1NF TCGA-E9-A1QZ TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R6 
       20.05        11.90        14.30         0.62         6.12         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RA TCGA-E9-A1RB TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG 
       21.21        32.09        20.81        34.65         6.58        21.27 
TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A228 TCGA-E9-A229 TCGA-E9-A22A 
       34.59        35.64        34.13        12.53        13.32        39.09 
TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A247 TCGA-E9-A295 TCGA-E9-A2JS 
       22.75        23.51         0.69        27.22         0.72        17.75 
TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A5UO 
       26.07         0.62        15.72         0.23         0.26         0.23 
TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 
       15.39        12.20        18.90        13.25        16.57        15.68 
TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P4 
       28.77        25.94        29.85        40.41        52.96        29.82 
TCGA-EW-A1P5 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE 
       23.11         7.86        18.90         6.15        13.94        10.52 
TCGA-EW-A1PF TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3E8 TCGA-EW-A423 
       14.43        55.00        52.73        25.91        21.27        10.16 
TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
        7.40       109.87       194.27        53.13        53.52        43.04 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A3XL 
       42.71        42.28        61.91        62.33        90.84        69.30 
TCGA-JL-A3YW TCGA-LD-A74U TCGA-LL-A441 TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A73Z 
       11.84         6.67         2.99         4.70         3.19         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5D6 
        4.50         5.59         3.22         6.21        15.91        12.66 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RW TCGA-OL-A5RY TCGA-OL-A5RZ 
       46.55         7.53        44.61        26.20        14.10        10.29 
TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66O TCGA-W8-A86G 
        9.80        23.70         7.23         5.29 

$`DEL PEAK 33(17P12) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SG TCGA-A1-A0SM TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04U 
        8.52        14.27         7.96       104.81        41.95        22.06 
TCGA-A2-A04X TCGA-A2-A0CL TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0D2 
       55.43        64.57        92.48        88.60        75.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET 
       28.77       101.72       107.61        74.40        37.05        35.05 
TCGA-A2-A0EU TCGA-A2-A0EW TCGA-A2-A0ST TCGA-A2-A0SU TCGA-A2-A0T0 TCGA-A2-A0T2 
       34.29        29.75        99.19        54.64        17.52         8.38 
TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YI TCGA-A2-A0YJ 
       17.46        18.90        25.28        15.42        14.50        18.61 
TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G6 TCGA-A2-A25C TCGA-A2-A25E 
       31.73        36.79        22.45        16.47        17.19        91.92 
TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3XS TCGA-A2-A3XU TCGA-A2-A3XX TCGA-A2-A4RY 
       10.59        20.88        33.93        29.98        38.40         8.81 
TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CE TCGA-A7-A0CH TCGA-A7-A0DB TCGA-A7-A13E 
        8.91         6.74        35.31        35.47        33.11        10.72 
TCGA-A7-A13G TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3J1 
       23.61        20.61        11.34        10.59        10.29        11.28 
TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A6VV 
       13.41        14.70        11.97        12.10        10.72        10.29 
TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Y TCGA-A8-A07F TCGA-A8-A07J 
       13.02         1.02        41.06        26.01        18.97        12.00 
TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A08A 
       10.98         7.99         9.96        28.04        18.05         0.99 
TCGA-A8-A08C TCGA-A8-A08P TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A095 
       19.99        31.00        93.04        40.01        19.07        41.98 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09Q TCGA-A8-A09T 
        9.99        12.00        13.02        31.00        25.02        19.04 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A9 TCGA-AC-A23G TCGA-AC-A23H 
       15.02         0.99        12.00        13.02        10.85         2.66 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO 
        1.48        38.53        55.43        36.99        38.79        50.70 
TCGA-AC-A2QH TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.02         0.69         9.40         1.55         1.32         1.55 
TCGA-AC-A62V TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A049 
        0.07         1.18         0.69         0.33         0.33         0.62 
TCGA-AN-A0AK TCGA-AN-A0AR TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        7.36         0.33         4.64         7.00         7.17         6.28 
TCGA-AN-A0FW TCGA-AN-A0XS TCGA-AN-A0XV TCGA-AO-A03L TCGA-AO-A03U TCGA-AO-A0J5 
        0.36         0.33         5.33        80.28        59.05        24.16 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JF 
       37.48        20.32        22.36        53.03        50.86        21.37 
TCGA-AO-A0JI TCGA-AO-A0JL TCGA-AO-A125 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
       38.53        55.33        99.25        94.59        90.58        77.56 
TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KT 
       57.30        48.36        28.37        14.73        82.62        17.79 
TCGA-AQ-A1H2 TCGA-AQ-A7U7 TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TX 
       15.62         9.99        49.32        37.41        29.75        64.83 
TCGA-AR-A0U0 TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AV 
       65.36        51.25        48.82        43.56        39.98        42.58 
TCGA-AR-A1AW TCGA-AR-A24K TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24W 
       35.24        50.89        65.46        68.19        66.05        50.96 
TCGA-AR-A24X TCGA-AR-A251 TCGA-AR-A2LH TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ 
       48.16        45.17        20.25        17.10        20.81        16.96 
TCGA-AR-A2LR TCGA-AR-A5QN TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA 
       20.38        16.04        77.62       143.38       149.59       220.90 
TCGA-B6-A0IC TCGA-B6-A0IP TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP 
       50.70       110.93        78.02       172.96       162.05       102.77 
TCGA-B6-A0RQ TCGA-B6-A0WT TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0X0 TCGA-B6-A0X4 
      140.48       188.68        17.98        21.47       129.70        28.27 
TCGA-B6-A0X5 TCGA-B6-A1KC TCGA-B6-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 
       68.94        43.59       101.52        73.51       170.17        85.35 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ TCGA-BH-A0B7 TCGA-BH-A0BD 
       82.88        55.00        24.53        28.50        56.98        18.21 
TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BO TCGA-BH-A0BS TCGA-BH-A0BT 
       24.85        21.70        44.05        35.67        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0C3 TCGA-BH-A0DG TCGA-BH-A0DH TCGA-BH-A0DO TCGA-BH-A0DQ 
       49.94        48.13        23.44        38.01        17.26         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0EA 
        2.56        38.47        45.17        15.68        44.81        32.65 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.49        30.35        10.78        37.78        35.51        24.56 
TCGA-BH-A0H9 TCGA-BH-A0HI TCGA-BH-A0HO TCGA-BH-A0HQ TCGA-BH-A0HX TCGA-BH-A0RX 
       41.00        20.38         2.50        36.85        27.25         5.59 
TCGA-BH-A0W3 TCGA-BH-A0W5 TCGA-BH-A18G TCGA-BH-A18K TCGA-BH-A18M TCGA-BH-A18N 
       23.93        42.35         2.01        90.84        72.56        37.74 
TCGA-BH-A18R TCGA-BH-A1EN TCGA-BH-A1ET TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 
       37.55        69.93        82.85        55.69        49.58        25.81 
TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
       89.16       120.62       114.15        55.00       144.59        72.07 
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-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A1HE 
       11.77        11.77        12.66        12.66        12.66        12.33 
TCGA-C8-A273 TCGA-C8-A274 TCGA-C8-A275 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
        9.67         0.03         0.03        13.25        20.58        13.97 
TCGA-D8-A143 TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL TCGA-D8-A1JM 
       14.17        12.03        14.01        18.97        20.09        19.40 
TCGA-D8-A1JS TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X8 TCGA-D8-A1XB TCGA-D8-A1XC 
       12.20        14.70        17.79        25.74        18.15         2.66 
TCGA-D8-A1XD TCGA-D8-A1XG TCGA-D8-A1XO TCGA-D8-A1XR TCGA-D8-A1XV TCGA-D8-A1XW 
       17.16        14.73         7.96        15.85        15.16        12.66 
TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L TCGA-D8-A27P 
       17.42        16.04        14.43         9.44        16.41         0.76 
TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 
       12.53        12.26        14.50        18.51         7.33        34.42 
TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A14N 
       27.52        46.59        40.41        37.51        28.44        47.15 
TCGA-E2-A14P TCGA-E2-A14U TCGA-E2-A154 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       40.96        43.33        19.43        22.82        17.29        21.63 
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-A1B4 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU 
       29.95        17.10        37.41        22.65         3.88        11.08 
TCGA-E2-A1L6 TCGA-E2-A1L9 TCGA-E2-A1LB TCGA-E2-A1LK TCGA-E2-A3DX TCGA-E2-A570 
       54.18        19.66        40.47         8.75        15.72        18.05 
TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1R3 
       19.89        19.20        35.77        21.57         9.86         2.10 
TCGA-E9-A1R5 TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A227 TCGA-E9-A22E TCGA-E9-A22H 
        1.38        40.24         0.66         0.79        12.89        24.10 
TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT 
       17.06         0.85         1.94         0.95        12.56         0.76 
TCGA-E9-A3Q9 TCGA-E9-A5FK TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1OW 
       18.41         0.39        39.72         8.48        18.21        22.82 
TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1PB 
       29.95        41.13        39.78        18.48        30.08        19.99 
TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FW TCGA-EW-A3U0 TCGA-EW-A424 TCGA-GM-A2D9 
       34.55        19.96        22.09        17.49        10.59        59.57 
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        32.28 
TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U 
       53.95        57.63        13.55        18.12        11.57         8.28 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YN 
        4.60         0.66         3.58         6.90         5.56         3.65 
TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-MS-A51U TCGA-OK-A5Q2 
        3.25         2.63         3.88         4.14         2.79         2.10 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K 
       27.65        24.10        16.87        14.76        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG 
       31.07        18.21         4.44         6.81 

  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                        0.03                         0.03 
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                      234.28                       220.90 
  DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE 
                      21.845                       20.595 
[1] "0.0 - 234.3 (21.8)" "0.0 - 220.9 (20.6)"
[1] "hr=" "1.1"
D61V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 33(17P12) MUTATED        49       42        3        4       194
  DEL PEAK 33(17P12) WILD-TYPE      31       35        6        5       141
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 33(17P12) MUTATED         144         1         88         14
  DEL PEAK 33(17P12) WILD-TYPE        80         1         50         13
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 33(17P12) MUTATED           37       12         1      10
  DEL PEAK 33(17P12) WILD-TYPE         22        5         0       6
D61V3, multiclass
            clus
vv           DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  STAGE I                            49                           31
  STAGE IA                           42                           35
  STAGE IB                            3                            6
  STAGE II                            4                            5
  STAGE IIA                         194                          141
  STAGE IIB                         144                           80
  STAGE III                           1                            1
  STAGE IIIA                         88                           50
  STAGE IIIB                         14                           13
  STAGE IIIC                         37                           22
  STAGE IV                           12                            5
  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 33(17P12) MUTATED   139 366  73  20
  DEL PEAK 33(17P12) WILD-TYPE 119 215  44  16
D61V4, multiclass
    clus
vv   DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  T1                        139                          119
  T2                        366                          215
  T3                         73                           44
  T4                         20                           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                            N0  N1  N2  N3
  DEL PEAK 33(17P12) MUTATED   284 193  71  42
  DEL PEAK 33(17P12) WILD-TYPE 184 137  40  28
D61V5, multiclass
    clus
vv   DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  N0                        284                          184
  N1                        193                          137
  N2                         71                           40
  N3                         42                           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 33(17P12) MUTATED          1 512  12  75
  DEL PEAK 33(17P12) WILD-TYPE        1 333   5  56
D61V6, multiclass
          clus
vv         DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  CM0 (I+)                          1                            1
  M0                              512                          333
  M1                               12                            5
  MX                               75                           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"
D61V7, binary
                              cls
clus                             0   1
  DEL PEAK 33(17P12) MUTATED   592   8
  DEL PEAK 33(17P12) WILD-TYPE 392   3
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(17P12) MUTATED    592    8
  DEL PEAK 33(17P12) WILD-TYPE  392    3
        clus
vv       DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  FEMALE                        592                          392
  MALE                            8                            3
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 33(17P12) MUTATED                            0
  DEL PEAK 33(17P12) WILD-TYPE                          1
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 33(17P12) MUTATED                             466
  DEL PEAK 33(17P12) WILD-TYPE                           269
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 33(17P12) MUTATED                               82
  DEL PEAK 33(17P12) WILD-TYPE                             84
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 33(17P12) MUTATED                     4
  DEL PEAK 33(17P12) WILD-TYPE                   1
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 33(17P12) MUTATED                                 18
  DEL PEAK 33(17P12) WILD-TYPE                               11
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 33(17P12) MUTATED                    4             25
  DEL PEAK 33(17P12) WILD-TYPE                 10             19
D61V8, multiclass
                                  clus
vv                                 DEL PEAK 33(17P12) MUTATED
  INFILTRATING CARCINOMA NOS                                0
  INFILTRATING DUCTAL CARCINOMA                           466
  INFILTRATING LOBULAR CARCINOMA                           82
  MEDULLARY CARCINOMA                                       4
  MIXED HISTOLOGY (PLEASE SPECIFY)                         18
  MUCINOUS CARCINOMA                                        4
  OTHER  SPECIFY                                           25
                                  clus
vv                                 DEL PEAK 33(17P12) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             269
  INFILTRATING LOBULAR CARCINOMA                             84
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                           11
  MUCINOUS CARCINOMA                                         10
  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"
D61V9, binary
                              cls
clus                             0   1
  DEL PEAK 33(17P12) MUTATED   176 424
  DEL PEAK 33(17P12) WILD-TYPE 106 289
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(17P12) MUTATED    176  424
  DEL PEAK 33(17P12) WILD-TYPE  106  289
     clus
vv    DEL PEAK 33(17P12) MUTATED DEL PEAK 33(17P12) WILD-TYPE
  NO                         176                          106
  YES                        424                          289
[1] 2 2
[1] FALSE
D61V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 33(17P12) MUTATED                                  1    41
  DEL PEAK 33(17P12) WILD-TYPE                                0    15
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 33(17P12) MUTATED                          88   413
  DEL PEAK 33(17P12) WILD-TYPE                        49   295
D61V11, multiclass
                                  clus
vv                                 DEL PEAK 33(17P12) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          1
  ASIAN                                                    41
  BLACK OR AFRICAN AMERICAN                                88
  WHITE                                                   413
                                  clus
vv                                 DEL PEAK 33(17P12) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      15
  BLACK OR AFRICAN AMERICAN                                  49
  WHITE                                                     295
[1] 4 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 33(17P12) MUTATED    21 485
  DEL PEAK 33(17P12) WILD-TYPE  15 311
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 33(17P12) MUTATED     21  485
  DEL PEAK 33(17P12) WILD-TYPE   15  311
                        clus
vv                       DEL PEAK 33(17P12) MUTATED
  HISPANIC OR LATINO                             21
  NOT HISPANIC OR LATINO                        485
                        clus
vv                       DEL PEAK 33(17P12) WILD-TYPE
  HISPANIC OR LATINO                               15
  NOT HISPANIC OR LATINO                          311
[1] 2 2
[1] FALSE

Clustering(62) Variable = DEL PEAK 34(17Q21.31) MUTATION ANALYSIS
D62V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 34(17Q21.31) MUTATED   295  41
  DEL PEAK 34(17Q21.31) WILD-TYPE 565  73
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                            336                             638 
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                             41                              73 
$`DEL PEAK 34(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        14.63        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 
        9.01        12.00        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        33.01        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 
       23.08        12.00        37.05         9.99        33.99         1.02 
TCGA-A8-A09D TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09N TCGA-A8-A09X TCGA-A8-A0A7 
       13.02        33.07        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         1.81         1.68         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        21.86        82.88        49.32        56.88        64.83 
TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       55.86        70.16        76.18        55.36        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-A24S TCGA-AR-A24U TCGA-AR-A252 TCGA-AR-A254 
       66.05        57.40        62.07        53.36        40.64        39.85 
TCGA-AR-A256 TCGA-B6-A0I9 TCGA-B6-A0IB TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ 
       93.83        12.13       129.57        65.72       112.37       176.98 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RH TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A1KF 
      140.88       211.56       189.01       131.21       157.41       101.52 
TCGA-B6-A1KN TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0B0 
      139.17        49.94        38.79        20.45        25.55        46.95 
TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BC 
       48.36        56.94        56.98        51.68        37.22        32.02 
TCGA-BH-A0BF TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DG 
       25.71        48.69        53.69        41.75        44.02        23.44 
TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E2 
       13.91        48.23        47.41        16.27         4.41        14.30 
TCGA-BH-A0E6 TCGA-BH-A0E9 TCGA-BH-A0EE TCGA-BH-A0HB TCGA-BH-A0HP TCGA-BH-A0HY 
        9.63        46.19        31.00        26.50        13.61        50.79 
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-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A1EN TCGA-BH-A1ES TCGA-BH-A1EU 
       30.28        55.63        37.55        69.93       113.82        42.28 
TCGA-BH-A1EY TCGA-BH-A1F6 TCGA-BH-A1FD TCGA-BH-A1FH TCGA-BH-A1FM TCGA-BH-A1FU 
       17.69        97.48        33.17        36.92        45.63        72.07 
TCGA-BH-A203 TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12P 
       38.60        57.83       130.16        11.93        11.77        11.77 
TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A137 
        0.07        12.66         1.78         1.45         0.62         3.85 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL 
        3.75        10.92        11.34         0.16        12.03        10.42 
TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A273 TCGA-C8-A275 TCGA-C8-A278 
        0.30         0.23         0.36         9.67         0.03         0.03 
TCGA-C8-A27B TCGA-C8-A3M7 TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A145 
        0.99         0.03        11.90        20.88        13.25        13.48 
TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JG TCGA-D8-A1JJ 
       21.14        14.17        17.49        16.50        12.03        20.09 
TCGA-D8-A1JK TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1X5 TCGA-D8-A1XJ TCGA-D8-A1XK 
       20.12        19.40        20.38        18.58        21.83        14.50 
TCGA-D8-A1XQ TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1XZ TCGA-D8-A27F TCGA-D8-A27G 
       16.41         6.35        12.99        15.32        16.04        13.45 
TCGA-D8-A27H TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27T TCGA-D8-A27V TCGA-E2-A14Q 
       13.05        13.48         4.80        13.08        12.53        38.24 
TCGA-E2-A14R TCGA-E2-A14V TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       38.60        34.26        31.96        28.60        17.03        25.41 
TCGA-E2-A152 TCGA-E2-A155 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15E TCGA-E2-A15G 
       27.12        21.04        14.79        25.05        20.71        18.21 
TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 TCGA-E2-A1B5 
       12.92         7.73        60.53        53.62        53.03        32.35 
TCGA-E2-A1II TCGA-E2-A1L7 TCGA-E2-A1LB TCGA-E2-A1LE TCGA-E2-A1LL TCGA-E2-A2P5 
       33.70        27.42        40.47        28.90        43.04        16.93 
TCGA-E2-A573 TCGA-E9-A1N5 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1NA TCGA-E9-A1NC 
       22.26        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-LL-A5YN TCGA-LL-A5YO TCGA-LL-A73Z TCGA-LL-A7SZ TCGA-OL-A5D6 
        6.67         3.65         3.19         4.50         5.59        12.66 
TCGA-OL-A5D7 TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A5S0 TCGA-OL-A66I TCGA-OL-A66O 
       46.55        26.20        10.29         9.80        23.70         7.23 

$`DEL PEAK 34(17Q21.31) 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-A0SO TCGA-A1-A0SQ TCGA-A2-A04N TCGA-A2-A04Q TCGA-A2-A04R TCGA-A2-A04U 
       28.01        18.21       104.81        41.95        82.16        22.06 
TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CP 
       63.12        36.13       125.59        64.57       112.08        92.48 
TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0CT TCGA-A2-A0CU TCGA-A2-A0D2 TCGA-A2-A0D3 
       88.60        75.55        75.25         5.19        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-A0SV TCGA-A2-A0T0 TCGA-A2-A0T1 
       24.16        99.19        54.64        27.12        17.52        17.13 
TCGA-A2-A0T2 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YC 
        8.38        20.52        17.46        18.90        20.75        32.55 
TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YM TCGA-A2-A1FV 
       25.28        15.42        21.67        14.50        31.73        23.47 
TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 TCGA-A2-A25C 
       36.79        22.45        20.25        19.56        16.47        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-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A4RW 
       29.98        14.07        49.48        38.40        31.99         7.30 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE 
        8.81         8.91         6.74         3.42        38.30        35.31 
TCGA-A7-A0CH TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E TCGA-A7-A13F TCGA-A7-A13G 
       35.47        37.45        33.11        10.72        12.72        23.61 
TCGA-A7-A13H TCGA-A7-A26H TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ 
       29.56        23.80        20.61        22.32        11.34        10.59 
TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SB 
       10.29        11.28        13.41        14.70        14.93        13.74 
TCGA-A7-A5ZV TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06T 
       12.10        10.72        11.05        13.02        13.02        41.06 
TCGA-A8-A06U TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A07F TCGA-A8-A07G TCGA-A8-A07J 
       29.03        26.01         1.02        18.97        18.97        12.00 
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         9.96         9.99 
TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C 
       28.04        18.05        36.95        13.02         0.99        19.99 
TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S 
       18.05        19.96        31.00        31.00         0.99        19.07 
TCGA-A8-A08T TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        40.01        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09E TCGA-A8-A09M 
       12.00         9.99         9.99        12.00        31.00        15.02 
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-A0A2 TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23E 
       19.04        13.02        21.04        13.02        17.03         2.37 
TCGA-AC-A23G TCGA-AC-A2FB TCGA-AC-A2FF TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FM 
       10.85        40.57        55.43        36.99        38.79        26.04 
TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP 
       50.70         0.92         2.27         0.69        14.83         9.40 
TCGA-AC-A3TN TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62V TCGA-AC-A62X 
        1.12         1.55         1.32         1.55         0.07         1.12 
TCGA-AC-A6IV TCGA-AC-A6IW TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 
        1.18         0.69         1.74         0.33         0.33         0.23 
TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AR 
        0.62         1.78         1.71         8.02         7.36         0.33 
TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FX TCGA-AN-A0FZ 
        4.64         7.00         7.17         6.28         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XS TCGA-AN-A0XV 
        0.33         0.33        12.33         0.30         0.33         5.33 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J4 
       81.63        84.69        68.75        47.87        59.05        17.65 
TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JC TCGA-AO-A0JE 
       37.48        20.32        22.36        53.03        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 
       21.37        38.53        62.04       102.58        99.25        93.70 
TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E TCGA-AO-A12F TCGA-AO-A12G 
       94.59        90.58        77.56        57.30        48.36        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-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TS 
       24.79        15.62        13.22         9.99         5.26        37.41 
TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A1AK 
       29.75        24.30        76.14        65.36        83.87        51.25 
TCGA-AR-A1AL TCGA-AR-A1AM TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV 
       48.82        62.56        43.56        40.83        46.32        42.58 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24M 
       35.24        36.26       109.58        50.89        73.02        65.46 
TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W 
       68.19        65.69         0.85        53.26        54.18        50.96 
TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A255 TCGA-AR-A2LE 
       48.16        51.75        56.15        45.17        34.82       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        17.10        20.81 
TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP TCGA-AR-A5QQ 
       16.96        20.38        54.74        16.04        20.45        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IG 
       77.62       143.38       149.59       220.90        50.70       146.50 
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-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-A0WS TCGA-B6-A0WT TCGA-B6-A0WV 
      140.48       100.70        89.46        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-A1KI TCGA-B6-A2IU 
       28.27        68.94        58.88        43.59        73.51       170.17 
TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AZ 
       85.35        54.28        82.88        55.00        24.53        28.50 
TCGA-BH-A0B2 TCGA-BH-A0B3 TCGA-BH-A0B4 TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BJ 
       40.83        39.55        39.16        18.21        24.85        21.70 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT 
       44.05        61.68        35.67        27.19        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD 
       49.94        11.67        49.05        48.13        42.90        45.83 
TCGA-BH-A0DE TCGA-BH-A0DH TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
       31.17        38.01        22.13        17.26        15.65         3.22 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0E1 TCGA-BH-A0E7 TCGA-BH-A0EA 
        2.56        38.47        45.17        15.68        44.81        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-A0HA TCGA-BH-A0HI 
       35.51        24.56        23.08        41.00        52.96        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-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A18K TCGA-BH-A18L 
        5.59        23.93        24.95        42.35        90.84        26.66 
TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18U TCGA-BH-A18V 
       72.56        37.74        66.05         7.36        51.39        51.16 
TCGA-BH-A1EO TCGA-BH-A1ET TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1EX TCGA-BH-A1F0 
       91.99        82.85        12.00        55.69        49.58        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FE 
       31.53        89.16        24.66       120.62       114.15        74.73 
TCGA-BH-A1FG TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A201 
      122.89        63.35        55.00        72.07       144.59         6.90 
TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 TCGA-BH-A42T 
        0.72        83.31        10.65         6.44        20.12         0.99 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12V TCGA-C8-A12W 
      109.28         8.94        11.77        12.66        12.66        12.66 
TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HM 
       12.66         3.12         0.69        12.33        11.34         2.30 
TCGA-C8-A1HN TCGA-C8-A26Y TCGA-C8-A26Z TCGA-C8-A274 TCGA-C8-A27A TCGA-C8-A3M8 
        3.25         0.43         8.28         0.03        12.20         0.23 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JC 
       20.58        13.97        14.17        19.20        18.71        15.78 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JL 
       18.15        18.90        12.03        14.01        18.97        20.09 
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-A1XG TCGA-D8-A1XL TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XR 
       15.22        14.73        19.92        17.69         7.96        15.85 
TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1Y0 TCGA-D8-A1Y1 
       16.31        15.16        12.66        16.54        15.52         3.81 
TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27E TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       14.24        14.14        17.42        14.43         9.44        16.41 
TCGA-D8-A27P TCGA-D8-A27R TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 
        0.76        10.09        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-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-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14W TCGA-E2-A153 TCGA-E2-A154 
       33.17        33.30        43.33        32.02        23.24        19.43 
TCGA-E2-A156 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15I 
       23.87        23.34        22.82        17.29        21.63        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-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD 
       14.07        14.99        29.95        28.50        16.47        17.10 
TCGA-E2-A1IE TCGA-E2-A1IF TCGA-E2-A1IG TCGA-E2-A1IH TCGA-E2-A1IJ TCGA-E2-A1IK 
       38.30        37.41        32.78        33.73        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-A1LG TCGA-E2-A1LH TCGA-E2-A1LI TCGA-E2-A1LK 
       19.66        24.59        18.87       106.75       102.61         8.75 
TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 
        5.52        15.72         7.20        18.05        19.89        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        12.56         0.72 
TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 TCGA-E9-A54Y TCGA-E9-A5FK 
       17.75         0.76        26.07        18.41         0.23         0.39 
TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.23        15.39        12.20        39.72         8.48        18.21 
TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV TCGA-EW-A1OW 
       13.25        16.57        15.68        28.77        25.94        22.82 
TCGA-EW-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 TCGA-EW-A1P5 TCGA-EW-A1P6 
       29.85        41.13        39.78        52.96        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG 
       30.08        19.99         6.15        13.94        10.52        34.55 
TCGA-EW-A2FR TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 
       55.00        52.73        22.09        21.27        17.49        10.16 
TCGA-EW-A424 TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A2DK 
       10.59        59.57        53.52        42.71        42.28        62.33 
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        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX 
       69.30        53.95        57.63        13.55        18.12        11.57 
TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y 
        8.28         4.60         0.66         2.99         3.58         6.90 
TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        5.56         4.70         3.25         2.63         3.88         4.14 
TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         3.22         6.21        15.91         2.79         2.10 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
        7.53        44.61        27.65        24.10        16.87        14.10 
TCGA-OL-A66H TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66P 
       14.76        54.51        33.90        31.07        18.21         4.44 
TCGA-S3-A6ZG TCGA-W8-A86G 
        6.81         5.29 

  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE 
                         21.465                          21.420 
[1] "0.0 - 211.6 (21.5)" "0.0 - 234.3 (21.4)"
[1] "hr=" "1.1"
D62V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 34(17Q21.31) MUTATED        26       21        2        0       119
  DEL PEAK 34(17Q21.31) WILD-TYPE      54       56        7        9       216
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 34(17Q21.31) MUTATED          78         0         55          6
  DEL PEAK 34(17Q21.31) WILD-TYPE       146         2         83         21
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 34(17Q21.31) MUTATED           21        9         1       5
  DEL PEAK 34(17Q21.31) WILD-TYPE         38        8         0      11
D62V3, multiclass
            clus
vv           DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  STAGE I                               26                              54
  STAGE IA                              21                              56
  STAGE IB                               2                               7
  STAGE II                               0                               9
  STAGE IIA                            119                             216
  STAGE IIB                             78                             146
  STAGE III                              0                               2
  STAGE IIIA                            55                              83
  STAGE IIIB                             6                              21
  STAGE IIIC                            21                              38
  STAGE IV                               9                               8
  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 34(17Q21.31) MUTATED    72 214  43  13
  DEL PEAK 34(17Q21.31) WILD-TYPE 186 367  74  23
D62V4, multiclass
    clus
vv   DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  T1                            72                             186
  T2                           214                             367
  T3                            43                              74
  T4                            13                              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 34(17Q21.31) MUTATED   160 105  49  25
  DEL PEAK 34(17Q21.31) WILD-TYPE 308 225  62  45
D62V5, multiclass
    clus
vv   DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  N0                           160                             308
  N1                           105                             225
  N2                            49                              62
  N3                            25                              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 34(17Q21.31) MUTATED          1 297   9  37
  DEL PEAK 34(17Q21.31) WILD-TYPE        1 548   8  94
D62V6, multiclass
          clus
vv         DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  CM0 (I+)                             1                               1
  M0                                 297                             548
  M1                                   9                               8
  MX                                  37                              94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D62V7, binary
                                 cls
clus                                0   1
  DEL PEAK 34(17Q21.31) MUTATED   342   2
  DEL PEAK 34(17Q21.31) WILD-TYPE 642   9
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 34(17Q21.31) MUTATED    342    2
  DEL PEAK 34(17Q21.31) WILD-TYPE  642    9
        clus
vv       DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  FEMALE                           342                             642
  MALE                               2                               9
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 34(17Q21.31) MUTATED                            0
  DEL PEAK 34(17Q21.31) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 34(17Q21.31) MUTATED                             280
  DEL PEAK 34(17Q21.31) WILD-TYPE                           455
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 34(17Q21.31) MUTATED                               31
  DEL PEAK 34(17Q21.31) WILD-TYPE                            135
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 34(17Q21.31) MUTATED                     4
  DEL PEAK 34(17Q21.31) WILD-TYPE                   1
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 34(17Q21.31) MUTATED                                 11
  DEL PEAK 34(17Q21.31) WILD-TYPE                               18
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 34(17Q21.31) MUTATED                    1             16
  DEL PEAK 34(17Q21.31) WILD-TYPE                 13             28
D62V8, multiclass
                                  clus
vv                                 DEL PEAK 34(17Q21.31) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              280
  INFILTRATING LOBULAR CARCINOMA                              31
  MEDULLARY CARCINOMA                                          4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            11
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              16
                                  clus
vv                                 DEL PEAK 34(17Q21.31) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                455
  INFILTRATING LOBULAR CARCINOMA                               135
  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"
D62V9, binary
                                 cls
clus                                0   1
  DEL PEAK 34(17Q21.31) MUTATED   101 243
  DEL PEAK 34(17Q21.31) WILD-TYPE 181 470
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 34(17Q21.31) MUTATED    101  243
  DEL PEAK 34(17Q21.31) WILD-TYPE  181  470
     clus
vv    DEL PEAK 34(17Q21.31) MUTATED DEL PEAK 34(17Q21.31) WILD-TYPE
  NO                            101                             181
  YES                           243                             470
[1] 2 2
[1] FALSE
D62V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 34(17Q21.31) MUTATED                                  0    32
  DEL PEAK 34(17Q21.31) WILD-TYPE                                1    24
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 34(17Q21.31) MUTATED                          57   227
  DEL PEAK 34(17Q21.31) WILD-TYPE                        80   481
D62V11, multiclass
                                  clus
vv                                 DEL PEAK 34(17Q21.31) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       32
  BLACK OR AFRICAN AMERICAN                                   57
  WHITE                                                      227
                                  clus
vv                                 DEL PEAK 34(17Q21.31) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         24
  BLACK OR AFRICAN AMERICAN                                     80
  WHITE                                                        481
[1] 4 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 34(17Q21.31) MUTATED    12 276
  DEL PEAK 34(17Q21.31) WILD-TYPE  24 520
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 34(17Q21.31) MUTATED     12  276
  DEL PEAK 34(17Q21.31) WILD-TYPE   24  520
                        clus
vv                       DEL PEAK 34(17Q21.31) MUTATED
  HISPANIC OR LATINO                                12
  NOT HISPANIC OR LATINO                           276
                        clus
vv                       DEL PEAK 34(17Q21.31) WILD-TYPE
  HISPANIC OR LATINO                                  24
  NOT HISPANIC OR LATINO                             520
[1] 2 2
[1] FALSE

Clustering(63) Variable = DEL PEAK 35(18Q23) MUTATION ANALYSIS
D63V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 35(18Q23) MUTATED   274  41
  DEL PEAK 35(18Q23) WILD-TYPE 586  73
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                         315                          659 
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                          41                           73 
$`DEL PEAK 35(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        14.63        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        12.00 
TCGA-A2-A4S3 TCGA-A7-A0CG TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A26F 
        3.42        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        23.08        18.05        37.05 
TCGA-A8-A08R TCGA-A8-A092 TCGA-A8-A09A TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E 
        0.99        16.01         9.99        12.00        13.02        31.00 
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         1.81         1.68 
TCGA-AC-A62V TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A041 TCGA-AN-A04A 
        0.07         0.43         1.74         0.33         0.23         2.96 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM TCGA-AN-A0FL TCGA-AN-A0FV TCGA-AN-A0FW 
        7.36         6.51         0.16         7.59         0.33         0.36 
TCGA-AN-A0FZ TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XU TCGA-AO-A03L TCGA-AO-A03N 
        0.33         0.33         0.30         0.33        80.28        66.77 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0JA TCGA-AO-A0JB 
       32.78        17.65        37.48        20.32        21.53        50.70 
TCGA-AO-A0JD TCGA-AO-A0JJ TCGA-AO-A124 TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F 
       72.00        62.04       102.58        64.04        57.30        48.36 
TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 
       17.79        24.79        26.93       130.09         5.65        15.62 
TCGA-AQ-A54O TCGA-AR-A0TP TCGA-AR-A0TT TCGA-AR-A0U1 TCGA-AR-A1AP TCGA-AR-A1AV 
       21.86        82.88        56.88        70.16        39.98        42.58 
TCGA-AR-A24H TCGA-AR-A24M TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24V TCGA-AR-A24W 
      109.58        65.46        57.40        62.07        54.18        50.96 
TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A2LN TCGA-AR-A2LR 
       56.15        45.17        40.64        34.82        17.10        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        22.26 
TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1RF 
       19.89        19.20        36.56        12.59        20.05         6.58 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A1RI TCGA-E9-A22E TCGA-E9-A248 TCGA-E9-A295 
       21.27        34.59        35.64        12.89         1.94         0.72 
TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A54Y TCGA-E9-A5FL TCGA-EW-A1IW TCGA-EW-A1IZ 
       17.75         0.62         0.23         0.26        12.20        18.21 
TCGA-EW-A1J1 TCGA-EW-A1OW TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1P3 TCGA-EW-A1P8 
       18.90        22.82        29.85        40.41        52.96         7.86 
TCGA-EW-A1PA TCGA-EW-A1PF TCGA-EW-A2FR TCGA-EW-A2FV TCGA-EW-A423 TCGA-GI-A2C8 
       18.90        14.43        55.00        25.91        10.16         7.40 
TCGA-GI-A2C9 TCGA-GM-A2DL TCGA-JL-A3YW TCGA-LD-A74U TCGA-LL-A441 TCGA-LL-A5YL 
      109.87        90.84        11.84         6.67         2.99         5.56 
TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LQ-A4E4 TCGA-OL-A5D6 
        4.70         3.19         3.25         3.88        15.91        12.66 
TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66N 
       26.20         9.80        18.21 

$`DEL PEAK 35(18Q23) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SG TCGA-A1-A0SH TCGA-A1-A0SJ 
        8.52        43.43        48.10        14.27        47.24        13.68 
TCGA-A1-A0SK TCGA-A1-A0SM TCGA-A1-A0SN TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04N 
       31.79         7.96        39.32        19.20        18.21       104.81 
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       125.59 
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-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 
       75.25        63.45        56.81        34.55        33.76        28.77 
TCGA-A2-A0D4 TCGA-A2-A0EM TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
       25.22       101.72        80.28        79.76        74.40        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-A0SW TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 
       44.88        17.52        17.13         8.38        18.71        17.46 
TCGA-A2-A0T6 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YF TCGA-A2-A0YJ TCGA-A2-A1FV 
       18.90        32.55        25.28        15.42        18.61        23.47 
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-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-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A3Y0 
       14.07        49.48        38.40        34.98        31.99        38.37 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30         9.01         8.81         8.91         6.74        38.30 
TCGA-A7-A0CE TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13E 
       35.31        35.47        30.61        37.45        33.11        10.72 
TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A26I 
       23.61        29.56        31.36        23.74        23.80        21.73 
TCGA-A7-A26J TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF 
       20.61        22.32        11.34        10.59        10.29        13.41 
TCGA-A7-A425 TCGA-A7-A426 TCGA-A7-A4SD TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VY 
       14.70        11.97        14.50        10.72        11.05         8.75 
TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06T TCGA-A8-A06Z TCGA-A8-A076 
       13.02        13.02         1.02        41.06         1.02        53.98 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I TCGA-A8-A07J 
        9.01        33.01        19.99        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 
       17.03         9.99         7.99         9.96        28.04        18.05 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08C TCGA-A8-A08G TCGA-A8-A08I TCGA-A8-A08L 
       13.02         0.99        19.99        19.96        12.00         9.99 
TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08S TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       31.00        31.00        19.07        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09C 
       19.07        17.95        41.98        12.00         9.99         1.02 
TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09V 
       33.07        29.98        15.02         8.98        19.04        15.02 
TCGA-A8-A09W TCGA-A8-A0A1 TCGA-A8-A0A4 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB 
        0.99        12.00        13.02         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-A2FG TCGA-AC-A2FK TCGA-AC-A2FM TCGA-AC-A2FO TCGA-AC-A2QH 
       40.57        36.99        38.79        26.04        50.70         1.02 
TCGA-AC-A2QI TCGA-AC-A3HN TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3YI 
        0.92         0.69        14.83         9.40         1.12         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.32         1.55         1.12         1.81         1.18         0.69 
TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ 
        0.33         0.33         0.62         1.78         1.71         8.02 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        0.33         0.33         0.33         6.44         4.64         7.96 
TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FX TCGA-AN-A0FY 
        7.00         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XV 
        0.33        12.33         0.33         0.33         0.33         5.33 
TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T 
        5.59        47.84        81.63        84.69        68.75        47.87 
TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J3 TCGA-AO-A0J5 TCGA-AO-A0J8 TCGA-AO-A0J9 
       59.05        29.13        21.40        24.16        22.36        53.03 
TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JL 
       50.86        76.77        21.37        26.24        38.53        55.33 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12A 
       71.80        99.25        93.70        94.59        96.10        90.58 
TCGA-AO-A12B TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ 
       77.56        41.62        28.37        14.73        82.62        61.87 
TCGA-AO-A1KR TCGA-AO-A1KS TCGA-AQ-A1H3 TCGA-AQ-A54N TCGA-AQ-A7U7 TCGA-AR-A0TQ 
       70.39         0.53        13.22         2.56         9.99        49.32 
TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY 
        5.26        37.41        29.75        24.30        64.83        55.86 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH 
       76.14        65.36        83.87        76.18        55.36        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-A1AQ TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW 
       43.56        43.07        17.23        40.83        46.32        35.24 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O 
       36.26        20.22        50.89        73.02        68.19        65.69 
TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24X TCGA-AR-A24Z 
        0.85        66.05        53.26        53.36        48.16        51.75 
TCGA-AR-A254 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL 
       39.85        93.83       128.65        20.25        42.87         7.36 
TCGA-AR-A2LM TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QN TCGA-AR-A5QP TCGA-B6-A0I1 
       40.04        20.81        16.96        16.04        20.45        77.62 
TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
      143.38       149.59        12.13       220.90       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN 
       65.72       146.50       112.37       176.98       126.12        84.59 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN 
      110.93       140.88       189.01       234.28        78.02       172.96 
TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
      162.05       140.48        89.46       131.21       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 
      188.68        21.47       129.57       129.70       186.48        28.27 
TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-B6-A1KC TCGA-B6-A1KN TCGA-B6-A401 TCGA-B6-A408 
       68.94        58.88        43.59       139.17        85.35        49.94 
TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW TCGA-BH-A0AY 
       82.88        55.00        24.53        38.79        20.45        25.55 
TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0B9 
       46.95        40.83        48.36        56.94        56.98        51.68 
TCGA-BH-A0BC TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO 
       32.02        25.71        21.70        44.05        61.68        35.67 
TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0C1 TCGA-BH-A0C3 
       27.19        53.69        53.95        49.94        44.02        48.13 
TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL 
       45.83        31.17        23.44        22.13        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-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-A0GZ 
       46.19        32.65        24.49        31.00        24.43        10.78 
TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0HB TCGA-BH-A0HK 
       15.16        37.78        35.51        24.56        26.50         5.85 
TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX 
        2.50        13.61        36.85        51.32        50.79         5.59 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18I TCGA-BH-A18J 
       24.95        42.35        44.81         2.01         7.23        20.12 
TCGA-BH-A18L TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R TCGA-BH-A18S 
       26.66        72.56        37.74        30.28        37.55        66.05 
TCGA-BH-A18T TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EW TCGA-BH-A1EX 
        7.36       113.82        82.85        42.28        55.69        49.58 
TCGA-BH-A1F2 TCGA-BH-A1F5 TCGA-BH-A1FB TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FE 
       31.53        89.16       120.62       114.15        33.17        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FN TCGA-BH-A1FR 
      122.89        36.92        63.35        55.00        72.07       144.59 
TCGA-BH-A1FU TCGA-BH-A202 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       72.07         0.72        57.83        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-A12U TCGA-C8-A12V 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-A1HF TCGA-C8-A1HG TCGA-C8-A1HL TCGA-C8-A1HN TCGA-C8-A26V 
        3.85        10.92        11.34        10.42         3.25         0.30 
TCGA-C8-A26W TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A143 TCGA-D8-A145 
        0.23         0.23        13.25        20.58        14.17        13.48 
TCGA-D8-A147 TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JF TCGA-D8-A1JK TCGA-D8-A1JM 
       19.20        18.71        18.15        12.03        20.12        19.40 
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-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-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-A27H TCGA-D8-A27I TCGA-D8-A27K TCGA-D8-A27L 
       17.42        13.45        13.05        14.43         9.44        16.41 
TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z5 TCGA-D8-A4Z1 
        0.76        13.08        12.53        12.26        14.50         7.33 
TCGA-E2-A105 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10F TCGA-E2-A14N 
       43.00        27.52        40.41        37.51        28.87        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-A153 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 
       28.60        17.03        23.24        21.04        23.87        14.79 
TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
       22.82        17.29        21.63        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-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-A1II TCGA-E2-A1IJ TCGA-E2-A1IK TCGA-E2-A1IL TCGA-E2-A1IU 
       32.78        33.70        28.44        22.65         3.88        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-A1LG TCGA-E2-A2P5 TCGA-E2-A3DX TCGA-E2-A56Z TCGA-E2-A570 TCGA-E9-A1N5 
       18.87        16.93        15.72         7.20        18.05        36.82 
TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1NG 
       13.48        12.00        13.12        39.55        35.77        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-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
        0.66        34.65        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-A244 
       39.09        22.75        23.51        24.10        17.06         0.69 
TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO 
        0.85        27.22         0.95        12.56         0.76        26.07 
TCGA-E9-A3Q9 TCGA-E9-A3X8 TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX 
       18.41        15.72         0.39         0.23        15.39        39.72 
TCGA-EW-A1IY TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1J6 TCGA-EW-A1OV 
        8.48        13.25        16.57        15.68        28.77        25.94 
TCGA-EW-A1OX TCGA-EW-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 
       29.95        41.13        39.78        29.82        23.11        18.48 
TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PC TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG 
       30.08        19.99         6.15        13.94        10.52        34.55 
TCGA-EW-A1PH TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A424 
       19.96        52.73        22.09        21.27        17.49        10.59 
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-A2DI TCGA-GM-A2DK TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO 
       42.28        61.91        62.33        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        32.28        69.30        53.95        57.63 
TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A440 
       13.55        18.12        11.57         8.28         4.60         0.66 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z 
        3.58         6.90         3.65         2.63         4.14         4.50 
TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.50         5.59         3.22         6.21         2.79         2.10 
TCGA-OL-A5D7 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX 
       46.55         7.53        44.61        27.65        24.10        16.87 
TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K 
       14.10        10.29        14.76        23.70        54.51        33.90 
TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       31.07         7.23         4.44         6.81         5.29 

  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                        0.03                         0.23 
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                      211.56                       234.28 
  DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE 
                       20.09                        23.47 
[1] "0.0 - 211.6 (20.1)" "0.2 - 234.3 (23.5)"
[1] "hr=" "1.6"
D63V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 35(18Q23) MUTATED        22       25        0        2       104
  DEL PEAK 35(18Q23) WILD-TYPE      58       52        9        7       231
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 35(18Q23) MUTATED          69         0         54         13
  DEL PEAK 35(18Q23) WILD-TYPE       155         2         84         14
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 35(18Q23) MUTATED           25        4         0       5
  DEL PEAK 35(18Q23) WILD-TYPE         34       13         1      11
D63V3, multiclass
            clus
vv           DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  STAGE I                            22                           58
  STAGE IA                           25                           52
  STAGE IB                            0                            9
  STAGE II                            2                            7
  STAGE IIA                         104                          231
  STAGE IIB                          69                          155
  STAGE III                           0                            2
  STAGE IIIA                         54                           84
  STAGE IIIB                         13                           14
  STAGE IIIC                         25                           34
  STAGE IV                            4                           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 35(18Q23) MUTATED    69 200  38  16
  DEL PEAK 35(18Q23) WILD-TYPE 189 381  79  20
D63V4, multiclass
    clus
vv   DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  T1                         69                          189
  T2                        200                          381
  T3                         38                           79
  T4                         16                           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 35(18Q23) MUTATED   145 101  46  26
  DEL PEAK 35(18Q23) WILD-TYPE 323 229  65  44
D63V5, multiclass
    clus
vv   DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  N0                        145                          323
  N1                        101                          229
  N2                         46                           65
  N3                         26                           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 35(18Q23) MUTATED          1 277   4  42
  DEL PEAK 35(18Q23) WILD-TYPE        1 568  13  89
D63V6, multiclass
          clus
vv         DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  CM0 (I+)                          1                            1
  M0                              277                          568
  M1                                4                           13
  MX                               42                           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"
D63V7, binary
                              cls
clus                             0   1
  DEL PEAK 35(18Q23) MUTATED   319   5
  DEL PEAK 35(18Q23) WILD-TYPE 665   6
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 35(18Q23) MUTATED    319    5
  DEL PEAK 35(18Q23) WILD-TYPE  665    6
        clus
vv       DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  FEMALE                        319                          665
  MALE                            5                            6
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 35(18Q23) MUTATED                            1
  DEL PEAK 35(18Q23) WILD-TYPE                          0
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 35(18Q23) MUTATED                             260
  DEL PEAK 35(18Q23) WILD-TYPE                           475
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 35(18Q23) MUTATED                               41
  DEL PEAK 35(18Q23) WILD-TYPE                            125
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 35(18Q23) MUTATED                     2
  DEL PEAK 35(18Q23) WILD-TYPE                   3
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 35(18Q23) MUTATED                                  8
  DEL PEAK 35(18Q23) WILD-TYPE                               21
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 35(18Q23) MUTATED                    0             11
  DEL PEAK 35(18Q23) WILD-TYPE                 14             33
D63V8, multiclass
                                  clus
vv                                 DEL PEAK 35(18Q23) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           260
  INFILTRATING LOBULAR CARCINOMA                           41
  MEDULLARY CARCINOMA                                       2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          8
  MUCINOUS CARCINOMA                                        0
  OTHER  SPECIFY                                           11
                                  clus
vv                                 DEL PEAK 35(18Q23) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             475
  INFILTRATING LOBULAR CARCINOMA                            125
  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"
D63V9, binary
                              cls
clus                             0   1
  DEL PEAK 35(18Q23) MUTATED   104 220
  DEL PEAK 35(18Q23) WILD-TYPE 178 493
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 35(18Q23) MUTATED    104  220
  DEL PEAK 35(18Q23) WILD-TYPE  178  493
     clus
vv    DEL PEAK 35(18Q23) MUTATED DEL PEAK 35(18Q23) WILD-TYPE
  NO                         104                          178
  YES                        220                          493
[1] 2 2
[1] FALSE
D63V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 35(18Q23) MUTATED                                  0    27
  DEL PEAK 35(18Q23) WILD-TYPE                                1    29
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 35(18Q23) MUTATED                          44   221
  DEL PEAK 35(18Q23) WILD-TYPE                        93   487
D63V11, multiclass
                                  clus
vv                                 DEL PEAK 35(18Q23) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    27
  BLACK OR AFRICAN AMERICAN                                44
  WHITE                                                   221
                                  clus
vv                                 DEL PEAK 35(18Q23) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      29
  BLACK OR AFRICAN AMERICAN                                  93
  WHITE                                                     487
[1] 4 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 35(18Q23) MUTATED    11 262
  DEL PEAK 35(18Q23) WILD-TYPE  25 534
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 35(18Q23) MUTATED     11  262
  DEL PEAK 35(18Q23) WILD-TYPE   25  534
                        clus
vv                       DEL PEAK 35(18Q23) MUTATED
  HISPANIC OR LATINO                             11
  NOT HISPANIC OR LATINO                        262
                        clus
vv                       DEL PEAK 35(18Q23) WILD-TYPE
  HISPANIC OR LATINO                               25
  NOT HISPANIC OR LATINO                          534
[1] 2 2
[1] FALSE

Clustering(64) Variable = DEL PEAK 36(19P13.3) MUTATION ANALYSIS
D64V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 36(19P13.3) MUTATED   278  47
  DEL PEAK 36(19P13.3) WILD-TYPE 582  67
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                           325                            649 
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                            47                             67 
$`DEL PEAK 36(19P13.3) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SQ TCGA-A2-A04P TCGA-A2-A04T 
       14.37        13.68        31.79        18.21        18.02        73.84 
TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CM TCGA-A2-A0CW TCGA-A2-A0D0 TCGA-A2-A0D4 
       22.06        55.43        24.79        64.04        21.14        25.22 
TCGA-A2-A0EO TCGA-A2-A0SX TCGA-A2-A0T3 TCGA-A2-A0T7 TCGA-A2-A0YE TCGA-A2-A0YG 
       80.28        50.43        18.71        20.75        18.21        21.90 
TCGA-A2-A0YH TCGA-A2-A0YJ TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G0 TCGA-A2-A25D 
       21.67        18.61        23.77        17.36        20.25        18.15 
TCGA-A2-A25E TCGA-A2-A3XT TCGA-A2-A3XX TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4S1 
       91.92        83.01        38.40        31.99        38.37        12.00 
TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0DA TCGA-A7-A13E TCGA-A7-A26G TCGA-A7-A26I 
        3.42        35.31        35.67        10.72        23.74        21.73 
TCGA-A7-A2KD TCGA-A7-A3IZ TCGA-A7-A4SD TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D 
       22.32        10.59        14.50        21.17        17.92        14.73 
TCGA-A7-A5ZV TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VX TCGA-A7-A6VY TCGA-A8-A06Q 
       12.10        10.29         9.37        10.42         8.75         1.02 
TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Z TCGA-A8-A075 
       17.98        41.06        29.03        31.00         1.02        17.03 
TCGA-A8-A076 TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P 
       53.98         9.01        18.97        17.03         9.99        10.98 
TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A085 TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08I 
        8.98         9.99        36.95        18.05        19.96        12.00 
TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A092 TCGA-A8-A097 
       37.05        31.00         0.99        19.07        16.01        12.00 
TCGA-A8-A09A TCGA-A8-A09C TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09Q 
        9.99         1.02        33.07        29.98        15.02        25.02 
TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FM TCGA-AC-A2QH TCGA-AC-A3OD 
        1.48        38.53        38.20        26.04         1.02        14.83 
TCGA-AC-A62V TCGA-AC-A6IX TCGA-AN-A041 TCGA-AN-A04C TCGA-AN-A0AJ TCGA-AN-A0AK 
        0.07         0.43         0.23         1.78         8.02         7.36 
TCGA-AN-A0AL TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FJ 
        6.51         0.33         0.33         0.33         6.44         7.96 
TCGA-AN-A0FL TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XT 
        7.59         6.02         0.33         0.33         0.33         0.33 
TCGA-AN-A0XU TCGA-AN-A0XW TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J2 
        0.33         5.59        47.84        66.77        84.69        32.78 
TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0JD TCGA-AO-A0JM TCGA-AO-A129 TCGA-AO-A12D 
       21.40        17.65        72.00        71.80        96.10        64.04 
TCGA-AO-A12F TCGA-AO-A12G TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L 
       48.36        41.62        70.39        17.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TS TCGA-AR-A0TT 
        5.65         2.56        82.88        49.32        37.41        56.88 
TCGA-AR-A0TW TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AK 
       24.30        70.16        83.87        75.55        52.77        51.25 
TCGA-AR-A1AQ TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24H TCGA-AR-A24R TCGA-AR-A24S 
       43.07        35.24        36.26       109.58        57.40        62.07 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LR TCGA-AR-A5QQ 
       56.15        40.64        93.83        42.87        20.38        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0IB TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN 
       77.62       143.38       129.57       176.98       126.12        84.59 
TCGA-B6-A0IO TCGA-B6-A0IQ TCGA-B6-A0RL TCGA-B6-A0RO TCGA-B6-A0RS TCGA-B6-A0RU 
      110.14       140.88        81.17       162.05       100.70       131.21 
TCGA-B6-A0WY TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AU 
      113.79       101.52       139.17        54.28        49.94        24.53 
TCGA-BH-A0AV TCGA-BH-A0AY TCGA-BH-A0B3 TCGA-BH-A0B6 TCGA-BH-A0B9 TCGA-BH-A0BF 
       38.79        25.55        39.55        56.94        51.68        25.71 
TCGA-BH-A0BG TCGA-BH-A0BL TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BW 
       24.85        44.05        48.69        53.69        45.57        11.67 
TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E6 TCGA-BH-A0EB TCGA-BH-A0H0 TCGA-BH-A0H7 
        3.22         4.41         9.63        24.49        15.16        23.08 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18F 
       12.89        51.32        27.25        50.79        23.05         8.81 
TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18Q TCGA-BH-A18S 
        7.23        20.12        90.84        26.66        55.63        66.05 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F8 
       51.39        51.16        69.93        12.00        55.69        24.66 
TCGA-BH-A1FC TCGA-BH-A1FJ TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A1FU TCGA-BH-A204 
      114.15        63.35        45.63        72.07        72.07        83.31 
TCGA-BH-A208 TCGA-BH-A209 TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A12Q TCGA-C8-A12U 
       57.83       130.16        11.93        11.77         0.07        12.66 
TCGA-C8-A12W TCGA-C8-A130 TCGA-C8-A132 TCGA-C8-A135 TCGA-C8-A138 TCGA-C8-A1HF 
       12.66         3.12         1.45         0.62         3.75        10.92 
TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A26Y 
        0.16        12.03        10.42         2.30         3.25         0.43 
TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A140 TCGA-D8-A147 
        8.28         9.67        12.20        11.90        13.25        19.20 
TCGA-D8-A1JC TCGA-D8-A1JF TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JL TCGA-D8-A1JM 
       15.78        12.03        18.97        20.09        20.09        19.40 
TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XA TCGA-D8-A1XJ TCGA-D8-A1XL TCGA-D8-A1XQ 
       18.58        23.90        27.58        21.83        19.92        16.41 
TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y2 TCGA-D8-A1Y3 TCGA-D8-A27G 
        6.35        16.54        15.32        14.24        14.14        13.45 
TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27R TCGA-D8-A27W TCGA-E2-A109 TCGA-E2-A14O 
       13.48         4.80        10.09        12.26        46.59        44.68 
TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14Y TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A158 
       40.96        38.60        28.60        25.41        27.12        14.79 
TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15H TCGA-E2-A15M TCGA-E2-A15P 
       25.05        23.34        20.71        12.92         7.73        19.56 
TCGA-E2-A15S TCGA-E2-A1AZ TCGA-E2-A1B1 TCGA-E2-A1IH TCGA-E2-A1II TCGA-E2-A1IN 
       14.07        60.53        53.03        33.73        33.70        22.19 
TCGA-E2-A1LG TCGA-E2-A1LL TCGA-E2-A573 TCGA-E9-A1N6 TCGA-E9-A1N8 TCGA-E9-A1N9 
       18.87        43.04        22.26        13.48        12.00        13.12 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG TCGA-E9-A1NI TCGA-E9-A1QZ 
       39.55        12.59        20.05        21.57         9.86        11.90 
TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RG TCGA-E9-A1RH 
        0.62         2.10        20.81        40.24        21.27        34.59 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A248 
       35.64        34.13        22.75        23.51         0.69         1.94 
TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A3QA TCGA-E9-A5FK TCGA-E9-A5UO TCGA-EW-A1J1 
        0.72        17.75         0.62         0.39         0.23        18.90 
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-A1P4 TCGA-EW-A1P8 TCGA-EW-A1PC TCGA-EW-A1PH TCGA-EW-A2FR TCGA-EW-A2FS 
       29.82         7.86         6.15        19.96        55.00        52.73 
TCGA-EW-A3U0 TCGA-EW-A423 TCGA-GM-A2DA TCGA-GM-A2DC TCGA-GM-A2DH TCGA-LL-A5YN 
       17.49        10.16       194.27        53.52        42.28         3.65 
TCGA-LL-A5YP TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-OL-A5D7 TCGA-OL-A5RW 
        3.25         3.88         3.22         6.21        46.55        26.20 
TCGA-OL-A5S0 
        9.80 

$`DEL PEAK 36(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       125.59        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        14.63        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        14.07        49.48        34.98 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD 
        7.30         9.01         8.81         8.91         6.74        38.30 
TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 TCGA-A7-A0DB TCGA-A7-A13D 
       34.29        35.47        30.61        37.45        33.11        31.73 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A13H TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26H 
       12.72        23.61        29.56        31.36        24.26        23.80 
TCGA-A7-A26J TCGA-A7-A3IY TCGA-A7-A3J0 TCGA-A7-A3J1 TCGA-A7-A3RF TCGA-A7-A425 
       20.61        11.34        10.29        11.28        13.41        14.70 
TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SB TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A8-A06O 
       11.97        14.93        13.74        10.72        11.05        13.02 
TCGA-A8-A06P TCGA-A8-A06Y TCGA-A8-A07B TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07I 
       13.02        26.01        33.01        19.99        18.97        14.01 
TCGA-A8-A07J TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A084 
       12.00         7.99         9.96        28.04        18.05        15.06 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08P 
       13.02         0.99        23.08        19.99         9.99        31.00 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A093 TCGA-A8-A095 
       93.04        33.99        40.01        19.07        17.95        41.98 
TCGA-A8-A099 TCGA-A8-A09B TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09N TCGA-A8-A09R 
        9.99        12.00        13.02        31.00         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-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-A2FB TCGA-AC-A2FF 
        0.95         2.37        10.85         2.66        40.57        55.43 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ TCGA-AC-A3BB 
       36.99        38.79        50.70         0.92         2.27         0.99 
TCGA-AC-A3HN TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
        0.69         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A6IW 
        1.32         1.55         1.12         1.81         1.18         0.69 
TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
        1.74         0.33         0.33         0.33         0.62         2.96 
TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FN TCGA-AN-A0FS 
        1.71         0.16         4.64         7.00         7.17         6.28 
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-A0XS 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-A03T TCGA-AO-A03U TCGA-AO-A03V TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
       47.87        59.05        29.13        24.16        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-A0JL TCGA-AO-A124 
       21.37        26.24        38.53        62.04        55.33       102.58 
TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12E 
       99.25        93.70        94.59        90.58        77.56        57.30 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AQ-A04H 
       28.37        14.73        82.62        61.87         0.53        24.79 
TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TV 
       15.62        13.22        21.86         9.99         5.26        29.75 
TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A0U4 
       64.83        55.86        76.14        65.36        76.18        55.36 
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-A1AR TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24K 
       17.23        40.83        46.32        42.58        20.22        50.89 
TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q 
       73.02        65.46        68.19        65.69         0.85        66.05 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z 
       53.26        53.36        54.18        50.96        48.16        51.75 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL 
       45.17        39.85        34.82       128.65        20.25         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A5QM TCGA-AR-A5QN 
       40.04        17.10        20.81        16.96        54.74        16.04 
TCGA-AR-A5QP TCGA-B6-A0I5 TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IC TCGA-B6-A0IE 
       20.45       149.59        12.13       220.90        50.70        65.72 
TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IP TCGA-B6-A0RE TCGA-B6-A0RG 
      146.50       112.37        18.77       110.93       211.56        68.45 
TCGA-B6-A0RH TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RP TCGA-B6-A0RQ 
      189.01       234.28        78.02       172.96       102.77       140.48 
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-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-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A40B 
       58.88        43.59        73.51       170.17        85.35        82.88 
TCGA-B6-A40C TCGA-BH-A0AW TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B2 TCGA-BH-A0B4 
       55.00        20.45        28.50        46.95        40.83        39.16 
TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BJ 
       48.36        56.98        37.22        32.02        18.21        21.70 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BV TCGA-BH-A0BZ 
       61.68        35.67        27.19        53.95        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-A0DS TCGA-BH-A0DT TCGA-BH-A0DV TCGA-BH-A0DX TCGA-BH-A0DZ 
       15.65         2.56        38.47        45.17        47.41        16.27 
TCGA-BH-A0E1 TCGA-BH-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EE 
       15.68        14.30        44.81        46.19        32.65        31.00 
TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 
       24.43        30.35        10.78        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-A0RX TCGA-BH-A0W3 TCGA-BH-A0W4 TCGA-BH-A0W5 
       13.61        36.85         5.59        23.93        24.95        42.35 
TCGA-BH-A0W7 TCGA-BH-A18G TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18R 
       44.81         2.01        72.56        37.74        30.28        37.55 
TCGA-BH-A18T TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX 
        7.36        91.99       113.82        82.85        42.28        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-A1FL TCGA-BH-A1FR 
       33.17        74.73       122.89        36.92        55.00       144.59 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        6.90         0.72        38.60        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-A12V TCGA-C8-A12X TCGA-C8-A131 TCGA-C8-A134 TCGA-C8-A137 TCGA-C8-A1HE 
       12.66        12.66         1.78         0.69         3.85        12.33 
TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A274 
       11.34        11.34         0.30         0.23         0.36         0.03 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A13Z 
        0.03         0.03         0.99         0.03         0.23        20.88 
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-A1JD TCGA-D8-A1JE TCGA-D8-A1JG 
       17.49        16.50        18.71        18.15        18.90        12.03 
TCGA-D8-A1JH TCGA-D8-A1JK TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1JS TCGA-D8-A1JT 
       14.01        20.12        20.38        21.01        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-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-A1Y1 TCGA-D8-A27E TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27I TCGA-D8-A27K 
        3.81        17.42        16.04        13.05        14.43         9.44 
TCGA-D8-A27L TCGA-D8-A27P TCGA-D8-A27T TCGA-D8-A27V TCGA-D8-A3Z5 TCGA-D8-A3Z6 
       16.41         0.76        13.08        12.53        14.50        18.51 
TCGA-D8-A4Z1 TCGA-E2-A105 TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
        7.33        43.00        34.42        27.52        40.41        37.51 
TCGA-E2-A10C TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14Q TCGA-E2-A14S 
       40.11        28.44        28.87        47.15        38.24        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-A153 TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A15C TCGA-E2-A15D 
       23.24        19.43        21.04        23.87        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-A15O TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1B0 TCGA-E2-A1B4 TCGA-E2-A1B5 
       13.02        17.06        14.99        53.62        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-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-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX 
      106.75       102.61         8.75        16.93         5.52        15.72 
TCGA-E2-A56Z TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1NA 
        7.20        18.05        19.89        19.20        36.82        36.56 
TCGA-E9-A1NE TCGA-E9-A1R0 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1R7 
       35.77        14.30         6.12         1.38         2.76        21.21 
TCGA-E9-A1RA TCGA-E9-A1RD TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A227 TCGA-E9-A228 
       32.09         0.66        34.65         6.58         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-A247 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JT TCGA-E9-A3HO TCGA-E9-A3Q9 
       27.22         0.95        12.56         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX 
       15.72         0.23         0.26        15.39        12.20        39.72 
TCGA-EW-A1IY TCGA-EW-A1IZ TCGA-EW-A1J2 TCGA-EW-A1J3 TCGA-EW-A1J5 TCGA-EW-A1P0 
        8.48        18.21        13.25        16.57        15.68        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-A1PD TCGA-EW-A1PE TCGA-EW-A1PF TCGA-EW-A1PG TCGA-EW-A2FV 
       19.99        13.94        10.52        14.43        34.55        25.91 
TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A424 TCGA-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 
       22.09        21.27        10.59         7.40       109.87        59.57 
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        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       11.57         8.28         6.67         4.60         0.66         2.99 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YO TCGA-LL-A6FQ 
        3.58         6.90         5.56         4.70         3.19         2.63 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.14         4.50         4.50         5.59        15.91         2.79 
TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV 
        2.10        12.66         7.53        44.61        27.65        24.10 
TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J 
       16.87        14.10        10.29        14.76        23.70        54.51 
TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O TCGA-OL-A66P TCGA-S3-A6ZG 
       33.90        31.07        18.21         7.23         4.44         6.81 
TCGA-W8-A86G 
        5.29 

  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                        194.27                         234.28 
  DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE 
                         21.27                          21.53 
[1] "0.1 - 194.3 (21.3)" "0.0 - 234.3 (21.5)"
[1] "hr=" "1.4"
D64V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 36(19P13.3) MUTATED        25       21        2        0       121
  DEL PEAK 36(19P13.3) WILD-TYPE      55       56        7        9       214
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 36(19P13.3) MUTATED          73         1         47          9
  DEL PEAK 36(19P13.3) WILD-TYPE       151         1         91         18
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 36(19P13.3) MUTATED           20        7         0       4
  DEL PEAK 36(19P13.3) WILD-TYPE         39       10         1      12
D64V3, multiclass
            clus
vv           DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  STAGE I                              25                             55
  STAGE IA                             21                             56
  STAGE IB                              2                              7
  STAGE II                              0                              9
  STAGE IIA                           121                            214
  STAGE IIB                            73                            151
  STAGE III                             1                              1
  STAGE IIIA                           47                             91
  STAGE IIIB                            9                             18
  STAGE IIIC                           20                             39
  STAGE IV                              7                             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 36(19P13.3) MUTATED    73 212  33  12
  DEL PEAK 36(19P13.3) WILD-TYPE 185 369  84  24
D64V4, multiclass
    clus
vv   DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  T1                           73                            185
  T2                          212                            369
  T3                           33                             84
  T4                           12                             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 36(19P13.3) MUTATED   161 104  37  24
  DEL PEAK 36(19P13.3) WILD-TYPE 307 226  74  46
D64V5, multiclass
    clus
vv   DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  N0                          161                            307
  N1                          104                            226
  N2                           37                             74
  N3                           24                             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 36(19P13.3) MUTATED          1 287   7  35
  DEL PEAK 36(19P13.3) WILD-TYPE        1 558  10  96
D64V6, multiclass
          clus
vv         DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                287                            558
  M1                                  7                             10
  MX                                 35                             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"
D64V7, binary
                                cls
clus                               0   1
  DEL PEAK 36(19P13.3) MUTATED   328   2
  DEL PEAK 36(19P13.3) WILD-TYPE 656   9
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 36(19P13.3) MUTATED    328    2
  DEL PEAK 36(19P13.3) WILD-TYPE  656    9
        clus
vv       DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  FEMALE                          328                            656
  MALE                              2                              9
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 36(19P13.3) MUTATED                            1
  DEL PEAK 36(19P13.3) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 36(19P13.3) MUTATED                             282
  DEL PEAK 36(19P13.3) WILD-TYPE                           453
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 36(19P13.3) MUTATED                               17
  DEL PEAK 36(19P13.3) WILD-TYPE                            149
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 36(19P13.3) MUTATED                     4
  DEL PEAK 36(19P13.3) WILD-TYPE                   1
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 36(19P13.3) MUTATED                                  8
  DEL PEAK 36(19P13.3) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 36(19P13.3) MUTATED                    4             13
  DEL PEAK 36(19P13.3) WILD-TYPE                 10             31
D64V8, multiclass
                                  clus
vv                                 DEL PEAK 36(19P13.3) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             282
  INFILTRATING LOBULAR CARCINOMA                             17
  MEDULLARY CARCINOMA                                         4
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          4
  OTHER  SPECIFY                                             13
                                  clus
vv                                 DEL PEAK 36(19P13.3) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               453
  INFILTRATING LOBULAR CARCINOMA                              149
  MEDULLARY CARCINOMA                                           1
  MIXED HISTOLOGY (PLEASE SPECIFY)                             21
  MUCINOUS CARCINOMA                                           10
  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"
D64V9, binary
                                cls
clus                               0   1
  DEL PEAK 36(19P13.3) MUTATED    94 236
  DEL PEAK 36(19P13.3) WILD-TYPE 188 477
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 36(19P13.3) MUTATED     94  236
  DEL PEAK 36(19P13.3) WILD-TYPE  188  477
     clus
vv    DEL PEAK 36(19P13.3) MUTATED DEL PEAK 36(19P13.3) WILD-TYPE
  NO                            94                            188
  YES                          236                            477
[1] 2 2
[1] FALSE
D64V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 36(19P13.3) MUTATED                                  0    24
  DEL PEAK 36(19P13.3) WILD-TYPE                                1    32
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 36(19P13.3) MUTATED                          56   217
  DEL PEAK 36(19P13.3) WILD-TYPE                        81   491
D64V11, multiclass
                                  clus
vv                                 DEL PEAK 36(19P13.3) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      24
  BLACK OR AFRICAN AMERICAN                                  56
  WHITE                                                     217
                                  clus
vv                                 DEL PEAK 36(19P13.3) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        32
  BLACK OR AFRICAN AMERICAN                                    81
  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"
D64V12, binary
                                cls
clus                               0   1
  DEL PEAK 36(19P13.3) MUTATED    11 265
  DEL PEAK 36(19P13.3) WILD-TYPE  25 531
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 36(19P13.3) MUTATED     11  265
  DEL PEAK 36(19P13.3) WILD-TYPE   25  531
                        clus
vv                       DEL PEAK 36(19P13.3) MUTATED
  HISPANIC OR LATINO                               11
  NOT HISPANIC OR LATINO                          265
                        clus
vv                       DEL PEAK 36(19P13.3) WILD-TYPE
  HISPANIC OR LATINO                                 25
  NOT HISPANIC OR LATINO                            531
[1] 2 2
[1] FALSE

Clustering(65) Variable = DEL PEAK 37(19Q13.32) MUTATION ANALYSIS
D65V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 37(19Q13.32) MUTATED   163  28
  DEL PEAK 37(19Q13.32) WILD-TYPE 697  86
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                            191                             783 
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                             28                              86 
$`DEL PEAK 37(19Q13.32) MUTATED`
TCGA-A1-A0SO TCGA-A1-A0SQ TCGA-A2-A04U TCGA-A2-A04X TCGA-A2-A0CW TCGA-A2-A0D1 
       28.01        18.21        22.06        55.43        64.04        34.55 
TCGA-A2-A0EO TCGA-A2-A0SV TCGA-A2-A0SX TCGA-A2-A0T7 TCGA-A2-A0YG TCGA-A2-A0YJ 
       80.28        27.12        50.43        20.75        21.90        18.61 
TCGA-A2-A0YM TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A1G1 TCGA-A2-A3XT TCGA-A7-A0CJ 
       31.73        23.77        17.36        19.20        83.01        30.61 
TCGA-A7-A13E TCGA-A7-A2KD TCGA-A7-A3J1 TCGA-A7-A4SE TCGA-A7-A56D TCGA-A7-A6VY 
       10.72        22.32        11.28        21.17        14.73         8.75 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A076 TCGA-A8-A07G TCGA-A8-A07O 
        1.02        17.98        41.06        53.98        18.97         9.99 
TCGA-A8-A08B TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08L TCGA-A8-A08S TCGA-A8-A09C 
       23.08        18.05        19.96         9.99        19.07         1.02 
TCGA-A8-A09I TCGA-A8-A09M TCGA-A8-A09N TCGA-AC-A23C TCGA-AC-A2FM TCGA-AC-A62V 
       33.07        15.02         1.02         0.95        26.04         0.07 
TCGA-AN-A041 TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FV TCGA-AN-A0FZ TCGA-AO-A03L 
        0.23         0.33         0.33         0.33         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0JD 
       66.77        84.69        29.13        32.78        21.40        72.00 
TCGA-AO-A0JE TCGA-AO-A0JL TCGA-AO-A124 TCGA-AO-A129 TCGA-AO-A1KQ TCGA-AO-A1KT 
       76.77        55.33       102.58        96.10        61.87        17.79 
TCGA-AQ-A04H TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AR-A0TY TCGA-AR-A0U0 TCGA-AR-A0U2 
       24.79       130.09         5.65        55.86        65.36        83.87 
TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AJ TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24R 
       76.18        55.36        52.77       109.58        73.02        57.40 
TCGA-AR-A24S TCGA-AR-A251 TCGA-AR-A252 TCGA-AR-A2LK TCGA-AR-A5QQ TCGA-B6-A0I1 
       62.07        45.17        40.64        42.87        10.59        77.62 
TCGA-B6-A0IB TCGA-B6-A0IQ TCGA-B6-A0RV TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 
      129.57       140.88       157.41        21.47       113.79       186.48 
TCGA-B6-A1KF TCGA-B6-A1KN TCGA-B6-A402 TCGA-B6-A408 TCGA-BH-A0AV TCGA-BH-A0B9 
      101.52       139.17        54.28        49.94        38.79        51.68 
TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0C0 TCGA-BH-A0C7 TCGA-BH-A0DQ TCGA-BH-A0EB 
       48.69        53.69        41.75        42.90         3.22        24.49 
TCGA-BH-A0EE TCGA-BH-A0H7 TCGA-BH-A0HY TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18I 
       31.00        23.08        50.79        23.05         8.81         7.23 
TCGA-BH-A18K TCGA-BH-A18S TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1EY 
       90.84        66.05         7.36        51.16       113.82        17.69 
TCGA-BH-A1F6 TCGA-BH-A1FC TCGA-BH-A1FU TCGA-BH-A204 TCGA-BH-A209 TCGA-C8-A12M 
       97.48       114.15        72.07        83.31       130.16        11.77 
TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12U TCGA-C8-A132 TCGA-C8-A1HF TCGA-C8-A1HL 
       11.77         0.07        12.66         1.45        10.92        10.42 
TCGA-C8-A26X TCGA-C8-A26Y TCGA-C8-A278 TCGA-C8-A27A TCGA-C8-A27B TCGA-D8-A13Y 
        0.36         0.43         0.03        12.20         0.99        11.90 
TCGA-D8-A140 TCGA-D8-A147 TCGA-D8-A1JC TCGA-D8-A1JG TCGA-D8-A1JI TCGA-D8-A1JJ 
       13.25        19.20        15.78        12.03        18.97        20.09 
TCGA-D8-A1JK TCGA-D8-A1JP TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XQ 
       20.12        21.01        27.58        17.16        14.50        16.41 
TCGA-D8-A1XT TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27R 
        6.35        16.54        15.32        14.14        16.04        10.09 
TCGA-E2-A109 TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A159 TCGA-E2-A15H 
       46.59        44.68        40.96        38.60        25.05        12.92 
TCGA-E2-A15S TCGA-E2-A1L7 TCGA-E2-A1LL TCGA-E2-A573 TCGA-E9-A1N6 TCGA-E9-A1NA 
       14.07        27.42        43.04        22.26        13.48        36.56 
TCGA-E9-A1NF TCGA-E9-A1NI TCGA-E9-A1QZ TCGA-E9-A1R3 TCGA-E9-A1R7 TCGA-E9-A1RB 
       20.05         9.86        11.90         2.10        21.21        20.81 
TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A226 TCGA-E9-A22A TCGA-E9-A22G TCGA-E9-A243 
       21.27        34.59        34.13        39.09        23.51        17.06 
TCGA-E9-A244 TCGA-E9-A3HO TCGA-E9-A3QA TCGA-E9-A5UO TCGA-EW-A1OW TCGA-EW-A1OX 
        0.69        26.07         0.62         0.23        22.82        29.95 
TCGA-EW-A1OY TCGA-EW-A1OZ TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PF TCGA-EW-A2FR 
       29.85        40.41        18.90         6.15        14.43        55.00 
TCGA-EW-A2FS TCGA-EW-A3U0 TCGA-GM-A2DB TCGA-GM-A2DF TCGA-GM-A2DH TCGA-LL-A5YL 
       52.73        17.49        53.13        42.71        42.28         5.56 
TCGA-LL-A6FR TCGA-LL-A7T0 TCGA-OL-A5D7 TCGA-OL-A5RY TCGA-OL-A5S0 
        3.88         3.22        46.55        14.10         9.80 

$`DEL PEAK 37(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       125.59        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 
       14.63        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 
       14.07        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         9.01         8.81         8.91        12.00         6.74 
TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0D9 
        3.42        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 
       33.01        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         9.96         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        19.99 
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 
       33.99        40.01        19.07        16.01        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        13.02        31.00 
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         9.40         1.12         1.81         1.68 
TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62X TCGA-AC-A62Y TCGA-AC-A6IV 
        1.55         1.32         1.55         1.12         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AC-A8OP TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 
        0.69         0.43         1.74         0.33         0.33         0.33 
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-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
        6.51         0.16         0.33         6.44         4.64         7.96 
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-A0FX TCGA-AN-A0FY 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-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A0J4 
       47.84        81.63        68.75        47.87        59.05        17.65 
TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA 
       24.16        37.48        20.32        22.36        53.03        21.53 
TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ 
       50.70        50.86        21.37        26.24        38.53        62.04 
TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A12A TCGA-AO-A12B 
       71.80        99.25        93.70        94.59        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-A04J TCGA-AQ-A1H2 TCGA-AQ-A1H3 
       82.62        70.39         0.53        26.93        15.62        13.22 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR 
        2.56        21.86         9.99        82.88        49.32         5.26 
TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TZ 
       37.41        56.88        29.75        24.30        64.83        76.14 
TCGA-AR-A0U1 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AM 
       70.16        75.55        61.84        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        40.83 
TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A1AY TCGA-AR-A24K 
       46.32        42.58        35.24        36.26        20.22        50.89 
TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24T 
       65.46        68.19        65.69         0.85        66.05        53.26 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 
       53.36        54.18        50.96        48.16        51.75        56.15 
TCGA-AR-A254 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL 
       39.85        34.82        93.83       128.65        20.25         7.36 
TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
       40.04        17.10        20.81        16.96        20.38        54.74 
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-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-A0RE TCGA-B6-A0RG 
      126.12        84.59       110.14       110.93       211.56        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-A0RP TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0WS 
      102.77       140.48       100.70        89.46       131.21        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 
      188.68        79.63        17.98       129.57       129.70        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-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ 
       82.88        55.00        24.53        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-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS 
       21.70        44.05        61.68        35.67        27.19        53.95 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C1 TCGA-BH-A0C3 
       45.57        49.94        11.67        49.05        44.02        48.13 
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-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-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-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-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-A18G TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M 
       42.35        44.81         2.01        20.12        26.66        72.56 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18U TCGA-BH-A1EN 
       37.74        30.28        55.63        37.55        51.39        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-A1F8 TCGA-BH-A1FB TCGA-BH-A1FD 
       25.81        31.53        89.16        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-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A208 
       72.07       144.59         6.90         0.72        38.60        57.83 
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-A12O TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X 
       11.93        11.77        12.66        12.66        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-A1HG TCGA-C8-A1HI TCGA-C8-A1HJ TCGA-C8-A1HK TCGA-C8-A1HM 
       12.33        11.34        11.34         0.16        12.03         2.30 
TCGA-C8-A1HN TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A274 
        3.25         0.30         0.23         8.28         9.67         0.03 
TCGA-C8-A275 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-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1J9 TCGA-D8-A1JA 
       14.17        13.48        21.14        14.17        17.49        16.50 
TCGA-D8-A1JB TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JL 
       18.71        18.15        18.90        12.03        14.01        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X5 
       19.40        20.38        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-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-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-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27I 
        3.81        14.24        17.42        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-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-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-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 
       34.26        32.02        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-A15A TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G 
       23.34        22.82        17.29        20.71        21.63        18.21 
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-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
       19.56        17.06        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-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-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A56Z 
      102.61         8.75        16.93         5.52        15.72         7.20 
TCGA-E2-A570 TCGA-E2-A574 TCGA-E9-A1N4 TCGA-E9-A1N5 TCGA-E9-A1N8 TCGA-E9-A1N9 
       18.05        19.89        19.20        36.82        12.00        13.12 
TCGA-E9-A1NC TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NG TCGA-E9-A1R0 TCGA-E9-A1R2 
       39.55        12.59        35.77        21.57        14.30         0.62 
TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD 
        6.12         1.38         2.76        32.09        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RI TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       34.65         6.58        35.64         0.79        12.53        13.32 
TCGA-E9-A22B TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A245 TCGA-E9-A247 TCGA-E9-A248 
       22.75        12.89        24.10         0.85        27.22         1.94 
TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT TCGA-E9-A3Q9 
        0.95        12.56         0.72        17.75         0.76        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A6HE TCGA-EW-A1IW 
       15.72         0.23         0.39         0.26        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-A1P0 TCGA-EW-A1P1 TCGA-EW-A1P3 
       15.68        28.77        25.94        41.13        39.78        52.96 
TCGA-EW-A1P4 TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P7 TCGA-EW-A1P8 TCGA-EW-A1PB 
       29.82        23.11        18.48        30.08         7.86        19.99 
TCGA-EW-A1PD TCGA-EW-A1PE TCGA-EW-A1PG TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A2FW 
       13.94        10.52        34.55        19.96        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-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        32.28 
TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW 
       69.30        53.95        57.63        13.55        18.12        11.84 
TCGA-JL-A3YX TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 
       11.57         8.28         6.67         4.60         0.66         2.99 
TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YM TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP 
        3.58         6.90         4.70         3.65         3.19         3.25 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7SZ TCGA-LL-A8F5 
        2.63         4.14         4.50         4.50         5.59         6.21 
TCGA-LQ-A4E4 TCGA-MS-A51U TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA 
       15.91         2.79         2.10        12.66         7.53        44.61 
TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RZ TCGA-OL-A66H 
       27.65        24.10        26.20        16.87        10.29        14.76 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66N TCGA-OL-A66O 
       23.70        54.51        33.90        31.07        18.21         7.23 
TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
        4.44         6.81         5.29 

  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                         186.48                          234.28 
  DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE 
                          22.82                           21.04 
[1] "0.0 - 186.5 (22.8)" "0.0 - 234.3 (21.0)"
[1] "hr=" "1.1"
D65V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 37(19Q13.32) MUTATED        14       12        1        0        70
  DEL PEAK 37(19Q13.32) WILD-TYPE      66       65        8        9       265
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 37(19Q13.32) MUTATED          40         1         36          3
  DEL PEAK 37(19Q13.32) WILD-TYPE       184         1        102         24
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 37(19Q13.32) MUTATED           10        4         0       2
  DEL PEAK 37(19Q13.32) WILD-TYPE         49       13         1      14
D65V3, multiclass
            clus
vv           DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  STAGE I                               14                              66
  STAGE IA                              12                              65
  STAGE IB                               1                               8
  STAGE II                               0                               9
  STAGE IIA                             70                             265
  STAGE IIB                             40                             184
  STAGE III                              1                               1
  STAGE IIIA                            36                             102
  STAGE IIIB                             3                              24
  STAGE IIIC                            10                              49
  STAGE IV                               4                              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 37(19Q13.32) MUTATED    45 123  22   4
  DEL PEAK 37(19Q13.32) WILD-TYPE 213 458  95  32
D65V4, multiclass
    clus
vv   DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  T1                            45                             213
  T2                           123                             458
  T3                            22                              95
  T4                             4                              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 37(19Q13.32) MUTATED    89  62  32  11
  DEL PEAK 37(19Q13.32) WILD-TYPE 379 268  79  59
D65V5, multiclass
    clus
vv   DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  N0                            89                             379
  N1                            62                             268
  N2                            32                              79
  N3                            11                              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 37(19Q13.32) MUTATED          1 162   4  27
  DEL PEAK 37(19Q13.32) WILD-TYPE        1 683  13 104
D65V6, multiclass
          clus
vv         DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  CM0 (I+)                             1                               1
  M0                                 162                             683
  M1                                   4                              13
  MX                                  27                             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"
D65V7, binary
                                 cls
clus                                0   1
  DEL PEAK 37(19Q13.32) MUTATED   192   2
  DEL PEAK 37(19Q13.32) WILD-TYPE 792   9
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 37(19Q13.32) MUTATED    192    2
  DEL PEAK 37(19Q13.32) WILD-TYPE  792    9
        clus
vv       DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  FEMALE                           192                             792
  MALE                               2                               9
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 37(19Q13.32) MUTATED                            0
  DEL PEAK 37(19Q13.32) WILD-TYPE                          1
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 37(19Q13.32) MUTATED                             171
  DEL PEAK 37(19Q13.32) WILD-TYPE                           564
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 37(19Q13.32) MUTATED                                6
  DEL PEAK 37(19Q13.32) WILD-TYPE                            160
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 37(19Q13.32) MUTATED                     3
  DEL PEAK 37(19Q13.32) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 37(19Q13.32) MUTATED                                  5
  DEL PEAK 37(19Q13.32) WILD-TYPE                               24
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 37(19Q13.32) MUTATED                    3              5
  DEL PEAK 37(19Q13.32) WILD-TYPE                 11             39
D65V8, multiclass
                                  clus
vv                                 DEL PEAK 37(19Q13.32) MUTATED
  INFILTRATING CARCINOMA NOS                                   0
  INFILTRATING DUCTAL CARCINOMA                              171
  INFILTRATING LOBULAR CARCINOMA                               6
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             5
  MUCINOUS CARCINOMA                                           3
  OTHER  SPECIFY                                               5
                                  clus
vv                                 DEL PEAK 37(19Q13.32) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     1
  INFILTRATING DUCTAL CARCINOMA                                564
  INFILTRATING LOBULAR CARCINOMA                               160
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              24
  MUCINOUS CARCINOMA                                            11
  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 37(19Q13.32) MUTATED    70 124
  DEL PEAK 37(19Q13.32) WILD-TYPE 212 589
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 37(19Q13.32) MUTATED     70  124
  DEL PEAK 37(19Q13.32) WILD-TYPE  212  589
     clus
vv    DEL PEAK 37(19Q13.32) MUTATED DEL PEAK 37(19Q13.32) WILD-TYPE
  NO                             70                             212
  YES                           124                             589
[1] 2 2
[1] FALSE
D65V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 37(19Q13.32) MUTATED                                  0    15
  DEL PEAK 37(19Q13.32) WILD-TYPE                                1    41
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 37(19Q13.32) MUTATED                          29   134
  DEL PEAK 37(19Q13.32) WILD-TYPE                       108   574
D65V11, multiclass
                                  clus
vv                                 DEL PEAK 37(19Q13.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       15
  BLACK OR AFRICAN AMERICAN                                   29
  WHITE                                                      134
                                  clus
vv                                 DEL PEAK 37(19Q13.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         41
  BLACK OR AFRICAN AMERICAN                                    108
  WHITE                                                        574
[1] 4 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 37(19Q13.32) MUTATED     5 161
  DEL PEAK 37(19Q13.32) WILD-TYPE  31 635
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 37(19Q13.32) MUTATED      5  161
  DEL PEAK 37(19Q13.32) WILD-TYPE   31  635
                        clus
vv                       DEL PEAK 37(19Q13.32) MUTATED
  HISPANIC OR LATINO                                 5
  NOT HISPANIC OR LATINO                           161
                        clus
vv                       DEL PEAK 37(19Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                  31
  NOT HISPANIC OR LATINO                             635
[1] 2 2
[1] FALSE

Clustering(66) Variable = DEL PEAK 38(20P13) MUTATION ANALYSIS
D66V1, survival
                              sevent
clus2                            0   1
  DEL PEAK 38(20P13) MUTATED   125  23
  DEL PEAK 38(20P13) WILD-TYPE 735  91
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                         148                          826 
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                          23                           91 
$`DEL PEAK 38(20P13) MUTATED`
TCGA-A1-A0SK TCGA-A1-A0SO TCGA-A2-A04T TCGA-A2-A0CM TCGA-A2-A0D0 TCGA-A2-A0ST 
       31.79        28.01        73.84        24.79        21.14        99.19 
TCGA-A2-A0T3 TCGA-A2-A0YE TCGA-A2-A0YH TCGA-A2-A3XU TCGA-A2-A4S3 TCGA-A7-A0CE 
       18.71        18.21        21.67        29.98         3.42        35.31 
TCGA-A7-A13F TCGA-A7-A26E TCGA-A7-A26F TCGA-A7-A26I TCGA-A7-A4SE TCGA-A7-A5ZV 
       12.72        31.36        24.26        21.73        21.17        12.10 
TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06X TCGA-A8-A079 TCGA-A8-A07L TCGA-A8-A07P 
        1.02        17.98        31.00         9.01        17.03        10.98 
TCGA-A8-A082 TCGA-A8-A08F TCGA-A8-A08J TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A09Q 
       18.05        18.05        37.05         9.99        31.00        25.02 
TCGA-A8-A09W TCGA-A8-A0A2 TCGA-A8-A0AB TCGA-AC-A3W5 TCGA-AC-A62V TCGA-AC-A62X 
        0.99        19.04        17.03         1.81         0.07         1.12 
TCGA-AC-A8OP TCGA-AN-A0AT TCGA-AN-A0FY TCGA-AN-A0XW TCGA-AO-A03R TCGA-AO-A0J2 
        1.74         0.33         0.33         5.59        68.75        32.78 
TCGA-AO-A0J6 TCGA-AO-A1KQ TCGA-AO-A1KT TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A54N 
       37.48        61.87        17.79        24.79        26.93         2.56 
TCGA-AR-A0TS TCGA-AR-A0TW TCGA-AR-A0TY TCGA-AR-A0U1 TCGA-AR-A0U3 TCGA-AR-A1AR 
       37.41        24.30        55.86        70.16        76.18        17.23 
TCGA-AR-A1AU TCGA-AR-A1AY TCGA-AR-A24K TCGA-AR-A251 TCGA-AR-A252 TCGA-B6-A0I9 
       46.32        20.22        50.89        45.17        40.64        12.13 
TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0RL TCGA-B6-A0RS TCGA-B6-A0WT TCGA-B6-A0WX 
      176.98        18.77        81.17       100.70       188.68        21.47 
TCGA-B6-A0X1 TCGA-B6-A1KN TCGA-BH-A0AV TCGA-BH-A0B4 TCGA-BH-A0B7 TCGA-BH-A0B9 
      186.48       139.17        38.79        39.16        56.98        51.68 
TCGA-BH-A0BG TCGA-BH-A0BP TCGA-BH-A0BR TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C7 
       24.85        48.69        53.69        49.05        41.75        42.90 
TCGA-BH-A0DH TCGA-BH-A0E1 TCGA-BH-A0EE TCGA-BH-A0HB TCGA-BH-A18R TCGA-BH-A18T 
       38.01        15.68        31.00        26.50        37.55         7.36 
TCGA-BH-A18V TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FM TCGA-BH-A1FN TCGA-BH-A203 
       51.16       114.15        33.17        45.63        72.07        38.60 
TCGA-C8-A12L TCGA-C8-A12M TCGA-C8-A130 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A1HJ 
       11.93        11.77         3.12         0.69         0.62         0.16 
TCGA-C8-A1HN TCGA-C8-A26Z TCGA-D8-A1J9 TCGA-D8-A1JK TCGA-D8-A1JL TCGA-D8-A1X9 
        3.25         8.28        17.49        20.12        20.09        23.90 
TCGA-D8-A1XA TCGA-D8-A1XD TCGA-D8-A1XJ TCGA-D8-A1XK TCGA-D8-A1XQ TCGA-D8-A1XZ 
       27.58        17.16        21.83        14.50        16.41        15.32 
TCGA-D8-A1Y0 TCGA-D8-A1Y3 TCGA-D8-A27F TCGA-D8-A27H TCGA-D8-A27R TCGA-E2-A14R 
       15.52        14.14        16.04        13.05        10.09        38.60 
TCGA-E2-A150 TCGA-E2-A15A TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15S TCGA-E2-A1L7 
       25.41        23.34        20.71        21.63        14.07        27.42 
TCGA-E2-A1LH TCGA-E2-A2P5 TCGA-E2-A573 TCGA-E9-A1N5 TCGA-E9-A1N9 TCGA-E9-A1R6 
      106.75        16.93        22.26        36.82        13.12         2.76 
TCGA-E9-A1R7 TCGA-E9-A1RE TCGA-E9-A1RH TCGA-E9-A22G TCGA-E9-A244 TCGA-E9-A3HO 
       21.21        34.65        34.59        23.51         0.69        26.07 
TCGA-EW-A1OZ TCGA-EW-A1P4 TCGA-EW-A1P8 TCGA-EW-A2FR TCGA-EW-A2FV TCGA-GI-A2C9 
       40.41        29.82         7.86        55.00        25.91       109.87 
TCGA-GM-A2DF TCGA-GM-A2DH TCGA-GM-A3XL TCGA-JL-A3YX TCGA-LL-A5YP TCGA-LL-A8F5 
       42.71        42.28        69.30        11.57         3.25         6.21 
TCGA-MS-A51U TCGA-OL-A5RW TCGA-OL-A5S0 TCGA-OL-A66O 
        2.79        26.20         9.80         7.23 

$`DEL PEAK 38(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       125.59        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        14.63        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        14.07        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         9.01         8.81         8.91        12.00 
TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ TCGA-A7-A0D9 
        6.74        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 
       41.06        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 
       33.01        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         9.96         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        23.08        19.99 
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        19.07        93.04 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       33.99        40.01        19.07        16.01        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        13.02 
TCGA-A8-A09E TCGA-A8-A09I TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R 
       31.00        33.07        29.98        15.02         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         9.40         1.12 
TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV 
        1.68         1.55         1.32         1.55         1.81         1.18 
TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 
        0.69         0.43         0.33         0.33         0.23         0.33 
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-A0FD TCGA-AN-A0FF 
        6.51         0.16         0.33         0.33         6.44         4.64 
TCGA-AN-A0FJ TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT 
        7.96         7.00         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-A0XN 
        0.33         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-AO-A03L TCGA-AO-A03M TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03P 
        5.33        80.28        47.84        66.77        81.63        84.69 
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        17.65        24.16 
TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC 
       20.32        22.36        53.03        21.53        50.70        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        38.53        62.04 
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        93.70        94.59 
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-A1KR TCGA-AO-A1KS 
       41.62        28.37        14.73        82.62        70.39         0.53 
TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AQ-A54O TCGA-AQ-A7U7 
      130.09         5.65        15.62        13.22        21.86         9.99 
TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TX 
       82.88        49.32         5.26        56.88        29.75        64.83 
TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI 
       76.14        65.36        83.87        55.36        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-A1AP TCGA-AR-A1AQ TCGA-AR-A1AS TCGA-AR-A1AV TCGA-AR-A1AW TCGA-AR-A1AX 
       39.98        43.07        40.83        42.58        35.24        36.26 
TCGA-AR-A24H TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P 
      109.58        73.02        65.46        68.19        65.69         0.85 
TCGA-AR-A24Q TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V 
       66.05        57.40        62.07        53.26        53.36        54.18 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A254 TCGA-AR-A255 
       50.96        48.16        51.75        56.15        39.85        34.82 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LK TCGA-AR-A2LL TCGA-AR-A2LM 
       93.83       128.65        20.25        42.87         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN 
       17.10        20.81        16.96        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-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG TCGA-B6-A0IH TCGA-B6-A0IM 
      129.57        50.70        65.72       146.50       112.37       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-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-A0WV 
      140.48        89.46       131.21       157.41        97.48        79.63 
TCGA-B6-A0WW TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X4 TCGA-B6-A0X5 
       17.98       113.79       129.57       129.70        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-B6-A408 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0AW 
       54.28        49.94        82.88        55.00        24.53        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-A0BA TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BJ 
       56.94        37.22        32.02        18.21        25.71        21.70 
TCGA-BH-A0BL TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BT 
       44.05        61.68        35.67        27.19        53.95        45.57 
TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0DD TCGA-BH-A0DE 
       49.94        11.67        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-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-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
        4.41        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-A0HA TCGA-BH-A0HI 
       35.51        24.56        23.08        41.00        52.96        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-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-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-A18S TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET 
       66.05        51.39        69.93        91.99       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-A1FE 
       31.53        89.16        97.48        24.66       120.62        74.73 
TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FL TCGA-BH-A1FR TCGA-BH-A1FU 
      122.89        36.92        63.35        55.00       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        6.90         0.72        83.31        57.83       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-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-A131 TCGA-C8-A132 TCGA-C8-A137 TCGA-C8-A138 TCGA-C8-A1HE 
       12.66         1.78         1.45         3.85         3.75        12.33 
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-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-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-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J8 TCGA-D8-A1JA TCGA-D8-A1JB 
       13.48        21.14        19.20        14.17        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-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-A1X5 TCGA-D8-A1X6 TCGA-D8-A1X7 TCGA-D8-A1X8 
       13.32        14.70        18.58        17.79        16.73        25.74 
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-A1XY TCGA-D8-A1Y1 TCGA-D8-A1Y2 TCGA-D8-A27E TCGA-D8-A27G 
       12.66        16.54         3.81        14.24        17.42        13.45 
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-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-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-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-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-A159 TCGA-E2-A15C TCGA-E2-A15D 
       21.04        23.87        14.79        25.05        22.82        17.29 
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-A15M TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A15R TCGA-E2-A15T TCGA-E2-A1AZ 
        7.73        13.02        19.56        17.06        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-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-A574 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1N8 
        7.20        18.05        19.89        19.20        13.48        12.00 
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-A1RA TCGA-E9-A1RB TCGA-E9-A1RC TCGA-E9-A1RD TCGA-E9-A1RF 
        1.38        32.09        20.81        40.24         0.66         6.58 
TCGA-E9-A1RG TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A229 
       21.27        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-A245 
       39.09        22.75        12.89        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        12.56         0.72        17.75 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK 
        0.76        18.41         0.62        15.72         0.23         0.39 
TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IW TCGA-EW-A1IX TCGA-EW-A1IY 
        0.26         0.23        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-A1OY TCGA-EW-A1P0 TCGA-EW-A1P1 
       25.94        22.82        29.95        29.85        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-A1PH 
        6.15        13.94        10.52        14.43        34.55        19.96 
TCGA-EW-A2FS TCGA-EW-A2FW TCGA-EW-A3E8 TCGA-EW-A3U0 TCGA-EW-A423 TCGA-EW-A424 
       52.73        22.09        21.27        17.49        10.16        10.59 
TCGA-GI-A2C8 TCGA-GM-A2D9 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DC TCGA-GM-A2DD 
        7.40        59.57       194.27        53.13        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        32.28        53.95        57.63        13.55 
TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U TCGA-LD-A7W6 TCGA-LL-A440 
       18.12        11.84         8.28         6.67         4.60         0.66 
TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YN 
        2.99         3.58         6.90         5.56         4.70         3.65 
TCGA-LL-A5YO TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 
        3.19         2.63         3.88         4.14         4.50         4.50 
TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OK-A5Q2 TCGA-OL-A5D6 TCGA-OL-A5D7 
        5.59         3.22        15.91         2.10        12.66        46.55 
TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RV TCGA-OL-A5RX TCGA-OL-A5RY 
        7.53        44.61        27.65        24.10        16.87        14.10 
TCGA-OL-A5RZ TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L 
       10.29        14.76        23.70        54.51        33.90        31.07 
TCGA-OL-A66N TCGA-OL-A66P TCGA-S3-A6ZG TCGA-W8-A86G 
       18.21         4.44         6.81         5.29 

  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                        0.07                         0.03 
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                      188.68                       234.28 
  DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE 
                      23.425                       21.025 
[1] "0.1 - 188.7 (23.4)" "0.0 - 234.3 (21.0)"
[1] "hr=" "1.5"
D66V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 38(20P13) MUTATED        10        9        2        0        57
  DEL PEAK 38(20P13) WILD-TYPE      70       68        7        9       278
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 38(20P13) MUTATED          31         0         24          6
  DEL PEAK 38(20P13) WILD-TYPE       193         2        114         21
                              vv
clus                           STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 38(20P13) MUTATED            7        5         0       0
  DEL PEAK 38(20P13) WILD-TYPE         52       12         1      16
D66V3, multiclass
            clus
vv           DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  STAGE I                            10                           70
  STAGE IA                            9                           68
  STAGE IB                            2                            7
  STAGE II                            0                            9
  STAGE IIA                          57                          278
  STAGE IIB                          31                          193
  STAGE III                           0                            2
  STAGE IIIA                         24                          114
  STAGE IIIB                          6                           21
  STAGE IIIC                          7                           52
  STAGE IV                            5                           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 38(20P13) MUTATED    33  96  16   6
  DEL PEAK 38(20P13) WILD-TYPE 225 485 101  30
D66V4, multiclass
    clus
vv   DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  T1                         33                          225
  T2                         96                          485
  T3                         16                          101
  T4                          6                           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
  DEL PEAK 38(20P13) MUTATED    73  47  19  11
  DEL PEAK 38(20P13) WILD-TYPE 395 283  92  59
D66V5, multiclass
    clus
vv   DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  N0                         73                          395
  N1                         47                          283
  N2                         19                           92
  N3                         11                           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 38(20P13) MUTATED          0 129   5  17
  DEL PEAK 38(20P13) WILD-TYPE        2 716  12 114
D66V6, multiclass
          clus
vv         DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  CM0 (I+)                          0                            2
  M0                              129                          716
  M1                                5                           12
  MX                               17                          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"
D66V7, binary
                              cls
clus                             0   1
  DEL PEAK 38(20P13) MUTATED   148   3
  DEL PEAK 38(20P13) WILD-TYPE 836   8
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 38(20P13) MUTATED    148    3
  DEL PEAK 38(20P13) WILD-TYPE  836    8
        clus
vv       DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  FEMALE                        148                          836
  MALE                            3                            8
[1] 2 2
[1] FALSE
                              vv
clus                           INFILTRATING CARCINOMA NOS
  DEL PEAK 38(20P13) MUTATED                            1
  DEL PEAK 38(20P13) WILD-TYPE                          0
                              vv
clus                           INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 38(20P13) MUTATED                             132
  DEL PEAK 38(20P13) WILD-TYPE                           603
                              vv
clus                           INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 38(20P13) MUTATED                                9
  DEL PEAK 38(20P13) WILD-TYPE                            157
                              vv
clus                           MEDULLARY CARCINOMA
  DEL PEAK 38(20P13) MUTATED                     2
  DEL PEAK 38(20P13) WILD-TYPE                   3
                              vv
clus                           MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 38(20P13) MUTATED                                  2
  DEL PEAK 38(20P13) WILD-TYPE                               27
                              vv
clus                           MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 38(20P13) MUTATED                    0              5
  DEL PEAK 38(20P13) WILD-TYPE                 14             39
D66V8, multiclass
                                  clus
vv                                 DEL PEAK 38(20P13) MUTATED
  INFILTRATING CARCINOMA NOS                                1
  INFILTRATING DUCTAL CARCINOMA                           132
  INFILTRATING LOBULAR CARCINOMA                            9
  MEDULLARY CARCINOMA                                       2
  MIXED HISTOLOGY (PLEASE SPECIFY)                          2
  MUCINOUS CARCINOMA                                        0
  OTHER  SPECIFY                                            5
                                  clus
vv                                 DEL PEAK 38(20P13) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             603
  INFILTRATING LOBULAR CARCINOMA                            157
  MEDULLARY CARCINOMA                                         3
  MIXED HISTOLOGY (PLEASE SPECIFY)                           27
  MUCINOUS CARCINOMA                                         14
  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"
D66V9, binary
                              cls
clus                             0   1
  DEL PEAK 38(20P13) MUTATED    51 100
  DEL PEAK 38(20P13) WILD-TYPE 231 613
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 38(20P13) MUTATED     51  100
  DEL PEAK 38(20P13) WILD-TYPE  231  613
     clus
vv    DEL PEAK 38(20P13) MUTATED DEL PEAK 38(20P13) WILD-TYPE
  NO                          51                          231
  YES                        100                          613
[1] 2 2
[1] FALSE
D66V10, continuous
                              vv
clus                           AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 38(20P13) MUTATED                                  0    10
  DEL PEAK 38(20P13) WILD-TYPE                                1    46
                              vv
clus                           BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 38(20P13) MUTATED                          28    97
  DEL PEAK 38(20P13) WILD-TYPE                       109   611
D66V11, multiclass
                                  clus
vv                                 DEL PEAK 38(20P13) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                          0
  ASIAN                                                    10
  BLACK OR AFRICAN AMERICAN                                28
  WHITE                                                    97
                                  clus
vv                                 DEL PEAK 38(20P13) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                            1
  ASIAN                                                      46
  BLACK OR AFRICAN AMERICAN                                 109
  WHITE                                                     611
[1] 4 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 38(20P13) MUTATED     4 119
  DEL PEAK 38(20P13) WILD-TYPE  32 677
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 38(20P13) MUTATED      4  119
  DEL PEAK 38(20P13) WILD-TYPE   32  677
                        clus
vv                       DEL PEAK 38(20P13) MUTATED
  HISPANIC OR LATINO                              4
  NOT HISPANIC OR LATINO                        119
                        clus
vv                       DEL PEAK 38(20P13) WILD-TYPE
  HISPANIC OR LATINO                               32
  NOT HISPANIC OR LATINO                          677
[1] 2 2
[1] FALSE

Clustering(67) Variable = DEL PEAK 39(21Q11.2) MUTATION ANALYSIS
D67V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 39(21Q11.2) MUTATED   169  24
  DEL PEAK 39(21Q11.2) WILD-TYPE 691  90
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                           193                            781 
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                            24                             90 
$`DEL PEAK 39(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        18.05 
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 
       19.07         9.99        12.00        33.07         8.98        19.04 
TCGA-A8-A0A4 TCGA-A8-A0A9 TCGA-AC-A8OP TCGA-AN-A049 TCGA-AN-A04A TCGA-AN-A04C 
       13.02        13.02         1.74         0.62         2.96         1.78 
TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ TCGA-AN-A0FV 
        0.16         0.33         6.44         4.64         7.96         0.33 
TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AO-A03M TCGA-AO-A03P 
        0.33         0.33         0.33         0.33        47.84        84.69 
TCGA-AO-A03R TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JE 
       68.75        21.40        20.32        50.70        72.00        76.77 
TCGA-AO-A124 TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TS 
      102.58       130.09         5.65        21.86         9.99        37.41 
TCGA-AR-A0TT TCGA-AR-A0TV TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U1 TCGA-AR-A0U2 
       56.88        29.75        55.86        76.14        70.16        83.87 
TCGA-AR-A1AH TCGA-AR-A1AP TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A24M TCGA-AR-A24S 
       75.55        39.98        46.32        35.24        65.46        62.07 
TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A2LK 
       53.36        54.18        50.96        56.15        40.64        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-LL-A5YM TCGA-LL-A7SZ TCGA-OL-A5RZ TCGA-OL-A66N 
       57.63        11.57         4.70         5.59        10.29        18.21 
TCGA-S3-A6ZG 
        6.81 

$`DEL PEAK 39(21Q11.2) 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-A04U 
       18.21       104.81        18.02        41.95        82.16        22.06 
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       125.59        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-A0D1 TCGA-A2-A0D2 
       75.25         5.19        63.45        56.81        34.55        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-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET TCGA-A2-A0EV TCGA-A2-A0EW 
       79.76        74.40        37.05        35.05        31.82        29.75 
TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY 
       24.72        24.16        99.19        44.88        50.43        44.28 
TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 
       17.52        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-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        14.63 
TCGA-A2-A0YM TCGA-A2-A1FX TCGA-A2-A1FZ TCGA-A2-A1G0 TCGA-A2-A1G4 TCGA-A2-A1G6 
       31.73        36.79        22.45        20.25        19.56        16.47 
TCGA-A2-A259 TCGA-A2-A25A TCGA-A2-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F 
       52.47       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        14.07 
TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY TCGA-A2-A3XZ TCGA-A2-A4RW TCGA-A2-A4RX 
       49.48        38.40        34.98        31.99         7.30         9.01 
TCGA-A2-A4RY TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD 
        8.81         8.91        12.00         6.74         3.42        38.30 
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-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-A4SA 
       10.29        11.28        13.41        14.70        11.97        14.93 
TCGA-A7-A4SB TCGA-A7-A4SE TCGA-A7-A4SF TCGA-A7-A56D TCGA-A7-A5ZV TCGA-A7-A5ZW 
       13.74        21.17        17.92        14.73        12.10        10.72 
TCGA-A7-A5ZX TCGA-A7-A6VV TCGA-A7-A6VW TCGA-A7-A6VY TCGA-A8-A06O TCGA-A8-A06Q 
       11.05        10.29         9.37         8.75        13.02         1.02 
TCGA-A8-A06T TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
       41.06        31.00        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 
       33.01        19.99        18.97        18.97        14.01        12.00 
TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W 
       17.03         9.99        10.98         7.99         9.96         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-A08B TCGA-A8-A08C TCGA-A8-A08L TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A08Z 
       23.08        19.99         9.99        93.04        33.99        40.01 
TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 
       19.07        16.01        17.95        41.98        12.00         9.99 
TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N 
        1.02        13.02        31.00        29.98        15.02         1.02 
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-A0A6 TCGA-A8-A0A7 TCGA-A8-A0AB TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E 
       21.04         0.99        17.03        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-A3OD TCGA-AC-A3QP 
        0.92         2.27         0.99         0.69        14.83         9.40 
TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ TCGA-AC-A5XS 
        1.12         1.81         1.68         1.55         1.32         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-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A04D TCGA-AN-A0AJ 
        0.33         0.33         0.23         0.33         1.71         8.02 
TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FK TCGA-AN-A0FL 
        7.36         6.51         0.33         0.33         7.00         7.59 
TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0XL 
        7.17         6.28         6.02         0.36         0.33         0.33 
TCGA-AN-A0XN 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-AN-A0XW TCGA-AO-A03L TCGA-AO-A03N TCGA-AO-A03O TCGA-AO-A03T TCGA-AO-A03U 
        5.59        80.28        66.77        81.63        47.87        59.05 
TCGA-AO-A03V TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J8 
       29.13        32.78        17.65        24.16        37.48        22.36 
TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JC TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI 
       53.03        21.53        50.86        21.37        26.24        38.53 
TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 
       62.04        55.33        71.80        99.25        93.70        94.59 
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-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-A1H2 TCGA-AQ-A1H3 
        0.53        17.79        24.79        26.93        15.62        13.22 
TCGA-AQ-A54N TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TW TCGA-AR-A0TX 
        2.56        82.88        49.32         5.26        24.30        64.83 
TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AI TCGA-AR-A1AJ TCGA-AR-A1AK 
       65.36        76.18        55.36        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 
       40.83        42.58        36.26        20.22       109.58        50.89 
TCGA-AR-A24L TCGA-AR-A24N TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24Q TCGA-AR-A24R 
       73.02        68.19        65.69         0.85        66.05        57.40 
TCGA-AR-A24T TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A255 
       53.26        48.16        51.75        45.17        39.85        34.82 
TCGA-AR-A256 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN 
       93.83       128.65        20.25         7.36        40.04        17.10 
TCGA-AR-A2LO TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QP 
       20.81        16.96        20.38        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-A0IH TCGA-B6-A0IJ TCGA-B6-A0IM TCGA-B6-A0IN 
       50.70       146.50       112.37       176.98       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-A0RQ TCGA-B6-A0RT 
       81.17        78.02       172.96       162.05       140.48        89.46 
TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT TCGA-B6-A0WX TCGA-B6-A0WZ 
      131.21       157.41        97.48       188.68        21.47       129.57 
TCGA-B6-A0X0 TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A1KF TCGA-B6-A1KI 
      129.70       186.48        28.27        68.94       101.52        73.51 
TCGA-B6-A401 TCGA-B6-A402 TCGA-B6-A40B TCGA-B6-A40C TCGA-BH-A0AV TCGA-BH-A0AW 
       85.35        54.28        82.88        55.00        38.79        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-A0B5 TCGA-BH-A0B6 TCGA-BH-A0B7 TCGA-BH-A0BA TCGA-BH-A0BC TCGA-BH-A0BD 
       48.36        56.94        56.98        37.22        32.02        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-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-A0C0 TCGA-BH-A0C1 TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DG 
       41.75        44.02        48.13        42.90        45.83        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-A0DZ TCGA-BH-A0E0 
        2.56        38.47        45.17        47.41        16.27         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-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-A0HW TCGA-BH-A0RX 
        5.85         2.50        13.61        36.85        51.32         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-A18K TCGA-BH-A18M TCGA-BH-A18N TCGA-BH-A18P 
        7.23        20.12        90.84        72.56        37.74        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-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-A1F5 TCGA-BH-A1F6 TCGA-BH-A1F8 
       49.58        17.69        25.81        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-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 
       63.35        55.00        72.07       144.59        72.07         6.90 
TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A209 TCGA-BH-A28O 
        0.72        38.60        83.31        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-A12P TCGA-C8-A12V TCGA-C8-A12X TCGA-C8-A131 
       11.77        11.77        11.77        12.66        12.66         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A1HE TCGA-C8-A1HG TCGA-C8-A1HI 
        1.45         0.69         0.62        12.33        11.34        11.34 
TCGA-C8-A1HJ TCGA-C8-A1HL TCGA-C8-A1HM TCGA-C8-A26V TCGA-C8-A26X TCGA-C8-A26Y 
        0.16        10.42         2.30         0.30         0.36         0.43 
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-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.23        11.90        20.88        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A143 TCGA-D8-A146 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA 
       13.97        14.17        21.14        19.20        17.49        16.50 
TCGA-D8-A1JE TCGA-D8-A1JG TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JJ TCGA-D8-A1JK 
       18.90        12.03        14.01        18.97        20.09        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-A1X7 TCGA-D8-A1X8 TCGA-D8-A1X9 TCGA-D8-A1XC TCGA-D8-A1XD 
       18.58        16.73        25.74        23.90         2.66        17.16 
TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       15.22        14.73        14.50        17.69         7.96        16.41 
TCGA-D8-A1XS TCGA-D8-A1XU TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1Y0 TCGA-D8-A1Y2 
       16.31        12.99        15.16        12.66        15.52        14.24 
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-A27V 
       16.41        13.48         4.80         0.76        10.09        12.53 
TCGA-D8-A3Z5 TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 TCGA-E2-A10A TCGA-E2-A10B 
       14.50        18.51         7.33        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-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14U TCGA-E2-A14V TCGA-E2-A14W 
       38.60        33.17        33.30        43.33        34.26        32.02 
TCGA-E2-A14X TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A154 TCGA-E2-A155 
       31.96        17.03        25.41        23.24        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15C TCGA-E2-A15D TCGA-E2-A15F 
       23.87        14.79        25.05        22.82        17.29        21.63 
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-A1AZ TCGA-E2-A1B0 
       19.56        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-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-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
        3.88        22.19        11.08        54.18        27.42        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-A2P5 TCGA-E2-A2P6 TCGA-E2-A3DX TCGA-E2-A570 TCGA-E2-A573 
        8.75        16.93         5.52        15.72        18.05        22.26 
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        12.56        17.75         0.76        26.07        18.41 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE TCGA-EW-A1IX 
       15.72         0.23         0.39         0.23        15.39        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-A1OZ TCGA-EW-A1P0 TCGA-EW-A1P1 
       25.94        22.82        29.95        40.41        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-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-A2FV TCGA-EW-A2FW TCGA-EW-A3E8 
       34.55        19.96        55.00        25.91        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-A2DF TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DK TCGA-GM-A2DM 
       43.04        42.71        42.28        61.91        62.33        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        32.28        69.30 
TCGA-GM-A3XN TCGA-GM-A5PV TCGA-GM-A5PX TCGA-JL-A3YW TCGA-LD-A66U TCGA-LD-A74U 
       53.95        13.55        18.12        11.84         8.28         6.67 
TCGA-LD-A7W6 TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YL 
        4.60         0.66         2.99         3.58         6.90         5.56 
TCGA-LL-A5YN TCGA-LL-A5YO TCGA-LL-A5YP TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A73Y 
        3.65         3.19         3.25         2.63         3.88         4.14 
TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-MS-A51U 
        4.50         4.50         3.22         6.21        15.91         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         7.53        44.61        27.65 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RX TCGA-OL-A5RY TCGA-OL-A5S0 TCGA-OL-A66H 
       24.10        26.20        16.87        14.10         9.80        14.76 
TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66K TCGA-OL-A66L TCGA-OL-A66O TCGA-OL-A66P 
       23.70        54.51        33.90        31.07         7.23         4.44 
TCGA-W8-A86G 
        5.29 

  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                        189.01                         234.28 
  DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE 
                         20.98                          21.63 
[1] "0.1 - 189.0 (21.0)" "0.0 - 234.3 (21.6)"
[1] "hr=" "1.2"
D67V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 39(21Q11.2) MUTATED        11       11        1        1        64
  DEL PEAK 39(21Q11.2) WILD-TYPE      69       66        8        8       271
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 39(21Q11.2) MUTATED          44         1         36         11
  DEL PEAK 39(21Q11.2) WILD-TYPE       180         1        102         16
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 39(21Q11.2) MUTATED            7        5         1       3
  DEL PEAK 39(21Q11.2) WILD-TYPE         52       12         0      13
D67V3, multiclass
            clus
vv           DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  STAGE I                              11                             69
  STAGE IA                             11                             66
  STAGE IB                              1                              8
  STAGE II                              1                              8
  STAGE IIA                            64                            271
  STAGE IIB                            44                            180
  STAGE III                             1                              1
  STAGE IIIA                           36                            102
  STAGE IIIB                           11                             16
  STAGE IIIC                            7                             52
  STAGE IV                              5                             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 39(21Q11.2) MUTATED    39 125  20  11
  DEL PEAK 39(21Q11.2) WILD-TYPE 219 456  97  25
D67V4, multiclass
    clus
vv   DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  T1                           39                            219
  T2                          125                            456
  T3                           20                             97
  T4                           11                             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 39(21Q11.2) MUTATED    82  66  34  11
  DEL PEAK 39(21Q11.2) WILD-TYPE 386 264  77  59
D67V5, multiclass
    clus
vv   DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  N0                           82                            386
  N1                           66                            264
  N2                           34                             77
  N3                           11                             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 39(21Q11.2) MUTATED          0 169   5  22
  DEL PEAK 39(21Q11.2) WILD-TYPE        2 676  12 109
D67V6, multiclass
          clus
vv         DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  CM0 (I+)                            0                              2
  M0                                169                            676
  M1                                  5                             12
  MX                                 22                            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"
D67V7, binary
                                cls
clus                               0   1
  DEL PEAK 39(21Q11.2) MUTATED   195   1
  DEL PEAK 39(21Q11.2) WILD-TYPE 789  10
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 39(21Q11.2) MUTATED    195    1
  DEL PEAK 39(21Q11.2) WILD-TYPE  789   10
        clus
vv       DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  FEMALE                          195                            789
  MALE                              1                             10
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 39(21Q11.2) MUTATED                            0
  DEL PEAK 39(21Q11.2) WILD-TYPE                          1
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 39(21Q11.2) MUTATED                             164
  DEL PEAK 39(21Q11.2) WILD-TYPE                           571
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 39(21Q11.2) MUTATED                               16
  DEL PEAK 39(21Q11.2) WILD-TYPE                            150
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 39(21Q11.2) MUTATED                     1
  DEL PEAK 39(21Q11.2) WILD-TYPE                   4
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 39(21Q11.2) MUTATED                                  8
  DEL PEAK 39(21Q11.2) WILD-TYPE                               21
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 39(21Q11.2) MUTATED                    1              6
  DEL PEAK 39(21Q11.2) WILD-TYPE                 13             38
D67V8, multiclass
                                  clus
vv                                 DEL PEAK 39(21Q11.2) MUTATED
  INFILTRATING CARCINOMA NOS                                  0
  INFILTRATING DUCTAL CARCINOMA                             164
  INFILTRATING LOBULAR CARCINOMA                             16
  MEDULLARY CARCINOMA                                         1
  MIXED HISTOLOGY (PLEASE SPECIFY)                            8
  MUCINOUS CARCINOMA                                          1
  OTHER  SPECIFY                                              6
                                  clus
vv                                 DEL PEAK 39(21Q11.2) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    1
  INFILTRATING DUCTAL CARCINOMA                               571
  INFILTRATING LOBULAR CARCINOMA                              150
  MEDULLARY CARCINOMA                                           4
  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"
D67V9, binary
                                cls
clus                               0   1
  DEL PEAK 39(21Q11.2) MUTATED    61 135
  DEL PEAK 39(21Q11.2) WILD-TYPE 221 578
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 39(21Q11.2) MUTATED     61  135
  DEL PEAK 39(21Q11.2) WILD-TYPE  221  578
     clus
vv    DEL PEAK 39(21Q11.2) MUTATED DEL PEAK 39(21Q11.2) WILD-TYPE
  NO                            61                            221
  YES                          135                            578
[1] 2 2
[1] FALSE
D67V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 39(21Q11.2) MUTATED                                  0    14
  DEL PEAK 39(21Q11.2) WILD-TYPE                                1    42
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 39(21Q11.2) MUTATED                          26   134
  DEL PEAK 39(21Q11.2) WILD-TYPE                       111   574
D67V11, multiclass
                                  clus
vv                                 DEL PEAK 39(21Q11.2) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      14
  BLACK OR AFRICAN AMERICAN                                  26
  WHITE                                                     134
                                  clus
vv                                 DEL PEAK 39(21Q11.2) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        42
  BLACK OR AFRICAN AMERICAN                                   111
  WHITE                                                       574
[1] 4 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 39(21Q11.2) MUTATED     4 160
  DEL PEAK 39(21Q11.2) WILD-TYPE  32 636
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 39(21Q11.2) MUTATED      4  160
  DEL PEAK 39(21Q11.2) WILD-TYPE   32  636
                        clus
vv                       DEL PEAK 39(21Q11.2) MUTATED
  HISPANIC OR LATINO                                4
  NOT HISPANIC OR LATINO                          160
                        clus
vv                       DEL PEAK 39(21Q11.2) WILD-TYPE
  HISPANIC OR LATINO                                 32
  NOT HISPANIC OR LATINO                            636
[1] 2 2
[1] FALSE

Clustering(68) Variable = DEL PEAK 40(22Q11.1) MUTATION ANALYSIS
D68V1, survival
                                sevent
clus2                              0   1
  DEL PEAK 40(22Q11.1) MUTATED   371  49
  DEL PEAK 40(22Q11.1) WILD-TYPE 489  65
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                           420                            554 
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                            49                             65 
$`DEL PEAK 40(22Q11.1) MUTATED`
TCGA-A1-A0SD TCGA-A1-A0SG TCGA-A1-A0SJ TCGA-A1-A0SN TCGA-A1-A0SO TCGA-A2-A04N 
       14.37        14.27        13.68        39.32        28.01       104.81 
TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04Y TCGA-A2-A0CM 
       18.02        41.95        22.06        63.12        36.13        24.79 
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-A0D0 TCGA-A2-A0D4 TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ 
       64.04        21.14        25.22        89.36        80.28        79.76 
TCGA-A2-A0ET TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0SU TCGA-A2-A0SV 
       35.05        34.29        31.82        29.75        54.64        27.12 
TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0T4 TCGA-A2-A0T6 TCGA-A2-A0T7 TCGA-A2-A0YD 
       44.88        50.43        20.52        18.90        20.75        25.28 
TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG TCGA-A2-A0YT TCGA-A2-A1FW TCGA-A2-A25A 
       18.21        15.42        21.90        23.77        17.36       107.70 
TCGA-A2-A25B TCGA-A2-A3XS TCGA-A2-A3XT TCGA-A2-A3XZ TCGA-A2-A3Y0 TCGA-A2-A4RY 
       16.31        33.93        83.01        31.99        38.37         8.81 
TCGA-A2-A4S1 TCGA-A2-A4S3 TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
       12.00         3.42        35.31        34.29        35.47        30.61 
TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13H TCGA-A7-A26E 
       35.67        33.11        31.73        10.72        29.56        31.36 
TCGA-A7-A26I TCGA-A7-A26J TCGA-A7-A3J1 TCGA-A7-A426 TCGA-A7-A4SA TCGA-A7-A4SD 
       21.73        20.61        11.28        11.97        14.93        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-A6VY TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T TCGA-A8-A06U 
        8.75        13.02         1.02        17.98        41.06        29.03 
TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A076 TCGA-A8-A07E TCGA-A8-A07F 
       31.00        26.01         1.02        53.98        19.99        18.97 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07R TCGA-A8-A07W TCGA-A8-A084 TCGA-A8-A08G 
       14.01        12.00         8.98         9.99        15.06        19.96 
TCGA-A8-A08I TCGA-A8-A08J TCGA-A8-A08O TCGA-A8-A08S TCGA-A8-A08Z TCGA-A8-A09B 
       12.00        37.05        31.00        19.07        40.01        12.00 
TCGA-A8-A09C TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
        1.02         1.02        25.02         8.98        19.04         0.99 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-AC-A23G 
       13.02        21.04         0.99        13.02        17.03        10.85 
TCGA-AC-A2BK TCGA-AC-A2BM TCGA-AC-A2FF TCGA-AC-A2FM TCGA-AC-A3BB TCGA-AC-A3HN 
       38.53        38.20        55.43        26.04         0.99         0.69 
TCGA-AC-A5XS TCGA-AC-A62Y TCGA-AC-A6IV TCGA-AC-A8OP TCGA-AN-A049 TCGA-AN-A0AJ 
        1.55         1.81         1.18         1.74         0.62         8.02 
TCGA-AN-A0AK TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FY 
        7.36         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-AO-A03L 
        0.33        12.33         0.33         0.33         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J6 TCGA-AO-A0J7 
       66.77        84.69        32.78        21.40        37.48        20.32 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JG 
       22.36        53.03        21.53        50.70        72.00        26.24 
TCGA-AO-A12A TCGA-AO-A12E TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AQ-A04H 
       90.58        57.30        82.62        61.87         0.53        24.79 
TCGA-AQ-A54N TCGA-AQ-A54O TCGA-AQ-A7U7 TCGA-AR-A0TR TCGA-AR-A0TT TCGA-AR-A0TW 
        2.56        21.86         9.99         5.26        56.88        24.30 
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        76.18 
TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AJ TCGA-AR-A1AM TCGA-AR-A1AN TCGA-AR-A1AP 
       55.36        75.55        52.77        62.56        43.73        39.98 
TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AV TCGA-AR-A1AY TCGA-AR-A24H TCGA-AR-A24K 
       43.07        17.23        42.58        20.22       109.58        50.89 
TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S TCGA-AR-A24U TCGA-AR-A24X 
       65.69         0.85        57.40        62.07        53.36        48.16 
TCGA-AR-A250 TCGA-AR-A252 TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LO 
       56.15        40.64        34.82        93.83        42.87        20.81 
TCGA-AR-A5QP TCGA-B6-A0I9 TCGA-B6-A0IG TCGA-B6-A0IJ TCGA-B6-A0IN TCGA-B6-A0IO 
       20.45        12.13       146.50       176.98        84.59       110.14 
TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RL TCGA-B6-A0RN TCGA-B6-A0RP 
      140.88       211.56        68.45        81.17       172.96       102.77 
TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0X1 TCGA-B6-A1KN TCGA-B6-A408 TCGA-B6-A40B 
       21.47       113.79       186.48       139.17        49.94        82.88 
TCGA-B6-A40C TCGA-BH-A0AU TCGA-BH-A0B0 TCGA-BH-A0B3 TCGA-BH-A0B5 TCGA-BH-A0B6 
       55.00        24.53        46.95        39.55        48.36        56.94 
TCGA-BH-A0B7 TCGA-BH-A0B9 TCGA-BH-A0BA TCGA-BH-A0BF TCGA-BH-A0BJ TCGA-BH-A0BL 
       56.98        51.68        37.22        25.71        21.70        44.05 
TCGA-BH-A0BR TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BZ TCGA-BH-A0C3 TCGA-BH-A0C7 
       53.69        45.57        49.94        49.05        48.13        42.90 
TCGA-BH-A0DH TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DQ TCGA-BH-A0E0 TCGA-BH-A0E6 
       38.01        13.91        48.23         3.22         4.41         9.63 
TCGA-BH-A0EB TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA 
       24.49        30.35        10.78        23.08        41.00        52.96 
TCGA-BH-A0HB TCGA-BH-A0HQ TCGA-BH-A0HU TCGA-BH-A0HX TCGA-BH-A0W3 TCGA-BH-A0W5 
       26.50        36.85        12.89        27.25        23.93        42.35 
TCGA-BH-A0W7 TCGA-BH-A18F TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18L TCGA-BH-A18M 
       44.81         8.81         7.23        20.12        26.66        72.56 
TCGA-BH-A18T TCGA-BH-A18V TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU TCGA-BH-A1EX 
        7.36        51.16       113.82        82.85        42.28        49.58 
TCGA-BH-A1EY TCGA-BH-A1F5 TCGA-BH-A1F8 TCGA-BH-A1FC TCGA-BH-A1FD TCGA-BH-A1FL 
       17.69        89.16        24.66       114.15        33.17        55.00 
TCGA-BH-A1FM TCGA-BH-A209 TCGA-BH-A42T TCGA-C8-A12M TCGA-C8-A12U TCGA-C8-A131 
       45.63       130.16         0.99        11.77        12.66         1.78 
TCGA-C8-A132 TCGA-C8-A134 TCGA-C8-A138 TCGA-C8-A1HI TCGA-C8-A1HK TCGA-C8-A1HL 
        1.45         0.69         3.75        11.34        12.03        10.42 
TCGA-C8-A1HM TCGA-C8-A1HN TCGA-C8-A274 TCGA-C8-A27A TCGA-D8-A13Y TCGA-D8-A13Z 
        2.30         3.25         0.03        12.20        11.90        20.88 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A1J8 TCGA-D8-A1JG TCGA-D8-A1JJ 
       14.17        13.48        21.14        14.17        12.03        20.09 
TCGA-D8-A1JM TCGA-D8-A1JN TCGA-D8-A1JP TCGA-D8-A1X5 TCGA-D8-A1X9 TCGA-D8-A1XA 
       19.40        20.38        21.01        18.58        23.90        27.58 
TCGA-D8-A1XB TCGA-D8-A1XD TCGA-D8-A1XK TCGA-D8-A1XM TCGA-D8-A1XO TCGA-D8-A1XQ 
       18.15        17.16        14.50        17.69         7.96        16.41 
TCGA-D8-A1XR TCGA-D8-A1XT TCGA-D8-A1XU TCGA-D8-A1Y0 TCGA-D8-A1Y1 TCGA-D8-A1Y2 
       15.85         6.35        12.99        15.52         3.81        14.24 
TCGA-D8-A1Y3 TCGA-D8-A27I TCGA-D8-A27L TCGA-D8-A27N TCGA-D8-A27T TCGA-D8-A3Z5 
       14.14        14.43        16.41         4.80        13.08        14.50 
TCGA-E2-A105 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10C TCGA-E2-A10F TCGA-E2-A14N 
       43.00        46.59        40.41        40.11        28.87        47.15 
TCGA-E2-A14O TCGA-E2-A14Q TCGA-E2-A14R TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14Z 
       44.68        38.24        38.60        33.30        34.26        17.03 
TCGA-E2-A150 TCGA-E2-A153 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C TCGA-E2-A15F 
       25.41        23.24        25.05        23.34        22.82        21.63 
TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I TCGA-E2-A15O TCGA-E2-A15P TCGA-E2-A1AZ 
       18.21        12.92        17.42        13.02        19.56        60.53 
TCGA-E2-A1B1 TCGA-E2-A1B5 TCGA-E2-A1BD TCGA-E2-A1IF TCGA-E2-A1IH TCGA-E2-A1II 
       53.03        32.35        17.10        37.41        33.73        33.70 
TCGA-E2-A1IJ TCGA-E2-A1IL TCGA-E2-A1IN TCGA-E2-A1IO TCGA-E2-A1L8 TCGA-E2-A1LE 
       28.44         3.88        22.19        20.98        39.62        28.90 
TCGA-E2-A1LK TCGA-E2-A2P5 TCGA-E2-A56Z TCGA-E2-A573 TCGA-E2-A574 TCGA-E9-A1N5 
        8.75        16.93         7.20        22.26        19.89        36.82 
TCGA-E9-A1N8 TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NF TCGA-E9-A1NG 
       12.00        13.12        36.56        12.59        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1R3 TCGA-E9-A1R6 TCGA-E9-A1RA TCGA-E9-A1RC TCGA-E9-A1RD 
        9.86         2.10         2.76        32.09        40.24         0.66 
TCGA-E9-A1RE TCGA-E9-A1RF TCGA-E9-A1RG TCGA-E9-A1RH TCGA-E9-A229 TCGA-E9-A22A 
       34.65         6.58        21.27        34.59        13.32        39.09 
TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A 
       12.89        24.10        27.22         1.94         0.95        12.56 
TCGA-E9-A3HO TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5UO TCGA-E9-A6HE 
       26.07        15.72         0.23         0.39         0.23        15.39 
TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1P3 
       39.72        18.90        13.25        28.77        22.82        52.96 
TCGA-EW-A1P5 TCGA-EW-A1P6 TCGA-EW-A1P8 TCGA-EW-A1PA TCGA-EW-A1PC TCGA-EW-A1PF 
       23.11        18.48         7.86        18.90         6.15        14.43 
TCGA-EW-A1PH TCGA-EW-A2FV TCGA-EW-A423 TCGA-EW-A424 TCGA-GM-A2DA TCGA-GM-A2DB 
       19.96        25.91        10.16        10.59       194.27        53.13 
TCGA-GM-A2DD TCGA-GM-A2DK TCGA-GM-A2DL TCGA-GM-A3NY TCGA-GM-A3XN TCGA-GM-A4E0 
       43.04        62.33        90.84        38.20        53.95        57.63 
TCGA-JL-A3YW TCGA-JL-A3YX TCGA-LD-A66U TCGA-LL-A442 TCGA-LL-A5YN TCGA-LL-A5YO 
       11.84        11.57         8.28         3.58         3.65         3.19 
TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LL-A8F5 TCGA-LQ-A4E4 TCGA-OL-A5D7 
        3.88         5.59         3.22         6.21        15.91        46.55 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A66K TCGA-OL-A66L TCGA-S3-A6ZG 
       24.10        26.20        10.29        33.90        31.07         6.81 

$`DEL PEAK 40(22Q11.1) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SK 
        8.52        43.43        48.10        47.24        20.88        31.79 
TCGA-A1-A0SM TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04R TCGA-A2-A04T TCGA-A2-A04W 
        7.96        19.20        18.21        82.16        73.84        64.04 
TCGA-A2-A04X TCGA-A2-A0CK TCGA-A2-A0CL TCGA-A2-A0CO TCGA-A2-A0CT TCGA-A2-A0CX 
       55.43       125.59        64.57       112.08        75.25        56.81 
TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0ER 
       34.55        33.76        28.77       101.72       107.61        74.40 
TCGA-A2-A0ES TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SY TCGA-A2-A0T0 
       37.05        24.72        24.16        99.19        44.28        17.52 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T5 TCGA-A2-A0YC TCGA-A2-A0YH 
       17.13         8.38        18.71        17.46        32.55        21.67 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV 
       14.50        18.61        19.33        14.63        31.73        23.47 
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-A25C TCGA-A2-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC 
       52.47        17.19        18.15        91.92        10.59        20.88 
TCGA-A2-A3KD TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A3XY 
       39.65        29.98        14.07        49.48        38.40        34.98 
TCGA-A2-A4RW TCGA-A2-A4RX TCGA-A2-A4S0 TCGA-A2-A4S2 TCGA-A7-A0CD TCGA-A7-A0D9 
        7.30         9.01         8.91         6.74        38.30        37.45 
TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A26F TCGA-A7-A26G TCGA-A7-A26H TCGA-A7-A2KD 
       12.72        23.61        24.26        23.74        23.80        22.32 
TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF TCGA-A7-A425 TCGA-A7-A4SB 
       11.34        10.59        10.29        13.41        14.70        13.74 
TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A075 TCGA-A8-A079 
       10.72        11.05        10.42        13.02        17.03         9.01 
TCGA-A8-A07B TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07S 
       33.01        18.97        17.03         9.99        10.98         7.99 
TCGA-A8-A07U TCGA-A8-A07Z TCGA-A8-A082 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A 
        9.96        28.04        18.05        36.95        13.02         0.99 
TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08L TCGA-A8-A08P TCGA-A8-A08R 
       23.08        19.99        18.05         9.99        31.00         0.99 
TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 TCGA-A8-A095 
       93.04        33.99        19.07        16.01        17.95        41.98 
TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09I 
       12.00         9.99         9.99        13.02        31.00        33.07 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0A2 
       29.98        15.02        15.02        14.01        12.00        19.04 
TCGA-A8-A0AD TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2FB 
       38.04         0.95         2.37         2.66         1.48        40.57 
TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QH TCGA-AC-A2QI TCGA-AC-A2QJ 
       36.99        38.79        50.70         1.02         0.92         2.27 
TCGA-AC-A3OD TCGA-AC-A3QP TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI 
       14.83         9.40         1.12         1.81         1.68         1.55 
TCGA-AC-A3YJ TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AC-A6IX TCGA-AN-A03X 
        1.32         0.07         1.12         0.69         0.43         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-A0AL TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FJ 
        6.51         0.16         0.33         0.33         0.33         7.96 
TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV TCGA-AN-A0FX 
        7.59         7.17         6.28         6.02         0.33         0.33 
TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.33         0.30         0.33         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       47.84        81.63        68.75        47.87        59.05        29.13 
TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0JC TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JI 
       17.65        24.16        50.86        76.77        21.37        38.53 
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        93.70 
TCGA-AO-A128 TCGA-AO-A129 TCGA-AO-A12B TCGA-AO-A12D TCGA-AO-A12F TCGA-AO-A12G 
       94.59        96.10        77.56        64.04        48.36        41.62 
TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04J TCGA-AQ-A04L 
       28.37        14.73        70.39        17.79        26.93       130.09 
TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TP TCGA-AR-A0TQ TCGA-AR-A0TS 
        5.65        15.62        13.22        82.88        49.32        37.41 
TCGA-AR-A0TV TCGA-AR-A0U1 TCGA-AR-A1AI TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AO 
       29.75        70.16        61.84        51.25        48.82        43.56 
TCGA-AR-A1AS TCGA-AR-A1AU TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M 
       40.83        46.32        35.24        36.26        73.02        65.46 
TCGA-AR-A24N TCGA-AR-A24Q TCGA-AR-A24T TCGA-AR-A24V TCGA-AR-A24W TCGA-AR-A24Z 
       68.19        66.05        53.26        54.18        50.96        51.75 
TCGA-AR-A251 TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH TCGA-AR-A2LL TCGA-AR-A2LM 
       45.17        39.85       128.65        20.25         7.36        40.04 
TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM TCGA-AR-A5QN TCGA-AR-A5QQ 
       17.10        16.96        20.38        54.74        16.04        10.59 
TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC 
       77.62       143.38       149.59       220.90       129.57        50.70 
TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IP TCGA-B6-A0RH 
       65.72       112.37        18.77       126.12       110.93       189.01 
TCGA-B6-A0RI TCGA-B6-A0RM TCGA-B6-A0RO TCGA-B6-A0RQ TCGA-B6-A0RS TCGA-B6-A0RT 
      234.28        78.02       162.05       140.48       100.70        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-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-A1KF TCGA-B6-A1KI TCGA-B6-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AV 
      101.52        73.51       170.17        85.35        54.28        38.79 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0B4 TCGA-BH-A0BC 
       20.45        25.55        28.50        40.83        39.16        32.02 
TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ 
       18.21        24.85        61.68        35.67        48.69        27.19 
TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C0 TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE 
       53.95        11.67        41.75        44.02        45.83        31.17 
TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DS TCGA-BH-A0DT 
       23.44        22.13        17.26        15.65         2.56        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-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-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP 
       35.51        24.56        20.38         5.85         2.50        13.61 
TCGA-BH-A0HW TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W4 TCGA-BH-A0WA TCGA-BH-A18G 
       51.32        50.79         5.59        24.95        23.05         2.01 
TCGA-BH-A18K TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S 
       90.84        37.74        30.28        55.63        37.55        66.05 
TCGA-BH-A18U TCGA-BH-A1EN TCGA-BH-A1EO TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F0 
       51.39        69.93        91.99        12.00        55.69        25.81 
TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FB TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH 
       31.53        97.48       120.62        74.73       122.89        36.92 
TCGA-BH-A1FJ TCGA-BH-A1FN TCGA-BH-A1FR TCGA-BH-A1FU TCGA-BH-A201 TCGA-BH-A202 
       63.35        72.07       144.59        72.07         6.90         0.72 
TCGA-BH-A203 TCGA-BH-A204 TCGA-BH-A208 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
       38.60        83.31        57.83        10.65         6.44        20.12 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
      109.28         8.94        11.93        11.77        12.66        11.77 
TCGA-C8-A12Q TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A130 TCGA-C8-A135 
        0.07        12.66        12.66        12.66         3.12         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-A26Y TCGA-C8-A26Z TCGA-C8-A273 TCGA-C8-A275 
        0.23         0.36         0.43         8.28         9.67         0.03 
TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 TCGA-D8-A141 
        0.03         0.99         0.03         0.23        13.25        20.58 
TCGA-D8-A142 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JB TCGA-D8-A1JC 
       13.97        19.20        17.49        16.50        18.71        15.78 
TCGA-D8-A1JD TCGA-D8-A1JE TCGA-D8-A1JF TCGA-D8-A1JH TCGA-D8-A1JI TCGA-D8-A1JK 
       18.15        18.90        12.03        14.01        18.97        20.12 
TCGA-D8-A1JL TCGA-D8-A1JS TCGA-D8-A1JT TCGA-D8-A1JU TCGA-D8-A1X6 TCGA-D8-A1X7 
       20.09        12.20        13.32        14.70        17.79        16.73 
TCGA-D8-A1X8 TCGA-D8-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XL 
       25.74         2.66        15.22        14.73        21.83        19.92 
TCGA-D8-A1XS TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A27E 
       16.31        15.16        12.66        16.54        15.32        17.42 
TCGA-D8-A27F TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27M TCGA-D8-A27P 
       16.04        13.45        13.05         9.44        13.48         0.76 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A107 
       10.09        12.53        12.26        18.51         7.33        34.42 
TCGA-E2-A108 TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A14P TCGA-E2-A14S TCGA-E2-A14U 
       27.52        37.51        28.44        40.96        33.17        43.33 
TCGA-E2-A14W TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A152 TCGA-E2-A154 TCGA-E2-A155 
       32.02        31.96        28.60        27.12        19.43        21.04 
TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15J TCGA-E2-A15K 
       23.87        14.79        17.29        20.71        19.40         9.04 
TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1B0 
       20.58         7.73        17.06        14.07        14.99        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-A1LI TCGA-E2-A1LL TCGA-E2-A2P6 TCGA-E2-A3DX 
       18.87       106.75       102.61        43.04         5.52        15.72 
TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1NE TCGA-E9-A1QZ 
       18.05        19.20        13.48        39.55        35.77        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R2 TCGA-E9-A1R4 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB 
       14.30         0.62         6.12         1.38        21.21        20.81 
TCGA-E9-A1RI TCGA-E9-A226 TCGA-E9-A227 TCGA-E9-A228 TCGA-E9-A22B TCGA-E9-A22G 
       35.64        34.13         0.79        12.53        22.75        23.51 
TCGA-E9-A243 TCGA-E9-A244 TCGA-E9-A245 TCGA-E9-A295 TCGA-E9-A2JS TCGA-E9-A2JT 
       17.06         0.69         0.85         0.72        17.75         0.76 
TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-E9-A5FL TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ 
       18.41         0.62         0.26        12.20         8.48        18.21 
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-A1P4 TCGA-EW-A1P7 TCGA-EW-A1PB TCGA-EW-A1PD 
       41.13        39.78        29.82        30.08        19.99        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-GI-A2C8 TCGA-GI-A2C9 TCGA-GM-A2D9 TCGA-GM-A2DC TCGA-GM-A2DF 
       17.49         7.40       109.87        59.57        53.52        42.71 
TCGA-GM-A2DH TCGA-GM-A2DI TCGA-GM-A2DM TCGA-GM-A2DN TCGA-GM-A2DO TCGA-GM-A3NW 
       42.28        61.91        76.64        77.33        53.36       110.50 
TCGA-GM-A3XG TCGA-GM-A3XL TCGA-GM-A5PV TCGA-GM-A5PX TCGA-LD-A74U TCGA-LD-A7W6 
       32.28        69.30        13.55        18.12         6.67         4.60 
TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A50Y TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP 
        0.66         2.99         6.90         5.56         4.70         3.25 
TCGA-LL-A6FQ TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-MS-A51U TCGA-OK-A5Q2 
        2.63         4.14         4.50         4.50         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY 
       12.66         7.53        44.61        27.65        16.87        14.10 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66N TCGA-OL-A66O 
        9.80        14.76        23.70        54.51        18.21         7.23 
TCGA-OL-A66P TCGA-W8-A86G 
        4.44         5.29 

  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                          0.03                           0.03 
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                        211.56                         234.28 
  DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE 
                        22.820                         20.315 
[1] "0.0 - 211.6 (22.8)" "0.0 - 234.3 (20.3)"
[1] "hr=" "1.1"
D68V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 40(22Q11.1) MUTATED        33       36        1        2       140
  DEL PEAK 40(22Q11.1) WILD-TYPE      47       41        8        7       195
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 40(22Q11.1) MUTATED         100         1         59         10
  DEL PEAK 40(22Q11.1) WILD-TYPE       124         1         79         17
                                vv
clus                             STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 40(22Q11.1) MUTATED           29        9         0       6
  DEL PEAK 40(22Q11.1) WILD-TYPE         30        8         1      10
D68V3, multiclass
            clus
vv           DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  STAGE I                              33                             47
  STAGE IA                             36                             41
  STAGE IB                              1                              8
  STAGE II                              2                              7
  STAGE IIA                           140                            195
  STAGE IIB                           100                            124
  STAGE III                             1                              1
  STAGE IIIA                           59                             79
  STAGE IIIB                           10                             17
  STAGE IIIC                           29                             30
  STAGE IV                              9                              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 40(22Q11.1) MUTATED   109 258  44  14
  DEL PEAK 40(22Q11.1) WILD-TYPE 149 323  73  22
D68V4, multiclass
    clus
vv   DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  T1                          109                            149
  T2                          258                            323
  T3                           44                             73
  T4                           14                             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 40(22Q11.1) MUTATED   200 135  52  35
  DEL PEAK 40(22Q11.1) WILD-TYPE 268 195  59  35
D68V5, multiclass
    clus
vv   DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  N0                          200                            268
  N1                          135                            195
  N2                           52                             59
  N3                           35                             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 40(22Q11.1) MUTATED          1 365   9  51
  DEL PEAK 40(22Q11.1) WILD-TYPE        1 480   8  80
D68V6, multiclass
          clus
vv         DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  CM0 (I+)                            1                              1
  M0                                365                            480
  M1                                  9                              8
  MX                                 51                             80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D68V7, binary
                                cls
clus                               0   1
  DEL PEAK 40(22Q11.1) MUTATED   423   3
  DEL PEAK 40(22Q11.1) WILD-TYPE 561   8
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 40(22Q11.1) MUTATED    423    3
  DEL PEAK 40(22Q11.1) WILD-TYPE  561    8
        clus
vv       DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  FEMALE                          423                            561
  MALE                              3                              8
[1] 2 2
[1] FALSE
                                vv
clus                             INFILTRATING CARCINOMA NOS
  DEL PEAK 40(22Q11.1) MUTATED                            1
  DEL PEAK 40(22Q11.1) WILD-TYPE                          0
                                vv
clus                             INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 40(22Q11.1) MUTATED                             326
  DEL PEAK 40(22Q11.1) WILD-TYPE                           409
                                vv
clus                             INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 40(22Q11.1) MUTATED                               68
  DEL PEAK 40(22Q11.1) WILD-TYPE                             98
                                vv
clus                             MEDULLARY CARCINOMA
  DEL PEAK 40(22Q11.1) MUTATED                     2
  DEL PEAK 40(22Q11.1) WILD-TYPE                   3
                                vv
clus                             MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 40(22Q11.1) MUTATED                                 16
  DEL PEAK 40(22Q11.1) WILD-TYPE                               13
                                vv
clus                             MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 40(22Q11.1) MUTATED                    2             11
  DEL PEAK 40(22Q11.1) WILD-TYPE                 12             33
D68V8, multiclass
                                  clus
vv                                 DEL PEAK 40(22Q11.1) MUTATED
  INFILTRATING CARCINOMA NOS                                  1
  INFILTRATING DUCTAL CARCINOMA                             326
  INFILTRATING LOBULAR CARCINOMA                             68
  MEDULLARY CARCINOMA                                         2
  MIXED HISTOLOGY (PLEASE SPECIFY)                           16
  MUCINOUS CARCINOMA                                          2
  OTHER  SPECIFY                                             11
                                  clus
vv                                 DEL PEAK 40(22Q11.1) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                    0
  INFILTRATING DUCTAL CARCINOMA                               409
  INFILTRATING LOBULAR CARCINOMA                               98
  MEDULLARY CARCINOMA                                           3
  MIXED HISTOLOGY (PLEASE SPECIFY)                             13
  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"
D68V9, binary
                                cls
clus                               0   1
  DEL PEAK 40(22Q11.1) MUTATED   143 283
  DEL PEAK 40(22Q11.1) WILD-TYPE 139 430
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 40(22Q11.1) MUTATED    143  283
  DEL PEAK 40(22Q11.1) WILD-TYPE  139  430
     clus
vv    DEL PEAK 40(22Q11.1) MUTATED DEL PEAK 40(22Q11.1) WILD-TYPE
  NO                           143                            139
  YES                          283                            430
[1] 2 2
[1] FALSE
D68V10, continuous
                                vv
clus                             AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 40(22Q11.1) MUTATED                                  0    21
  DEL PEAK 40(22Q11.1) WILD-TYPE                                1    35
                                vv
clus                             BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 40(22Q11.1) MUTATED                          64   305
  DEL PEAK 40(22Q11.1) WILD-TYPE                        73   403
D68V11, multiclass
                                  clus
vv                                 DEL PEAK 40(22Q11.1) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                            0
  ASIAN                                                      21
  BLACK OR AFRICAN AMERICAN                                  64
  WHITE                                                     305
                                  clus
vv                                 DEL PEAK 40(22Q11.1) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                              1
  ASIAN                                                        35
  BLACK OR AFRICAN AMERICAN                                    73
  WHITE                                                       403
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D68V12, binary
                                cls
clus                               0   1
  DEL PEAK 40(22Q11.1) MUTATED    16 339
  DEL PEAK 40(22Q11.1) WILD-TYPE  20 457
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 40(22Q11.1) MUTATED     16  339
  DEL PEAK 40(22Q11.1) WILD-TYPE   20  457
                        clus
vv                       DEL PEAK 40(22Q11.1) MUTATED
  HISPANIC OR LATINO                               16
  NOT HISPANIC OR LATINO                          339
                        clus
vv                       DEL PEAK 40(22Q11.1) WILD-TYPE
  HISPANIC OR LATINO                                 20
  NOT HISPANIC OR LATINO                            457
[1] 2 2
[1] FALSE

Clustering(69) Variable = DEL PEAK 41(22Q13.32) MUTATION ANALYSIS
D69V1, survival
                                 sevent
clus2                               0   1
  DEL PEAK 41(22Q13.32) MUTATED   393  51
  DEL PEAK 41(22Q13.32) WILD-TYPE 467  63
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                            444                             530 
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                             51                              63 
$`DEL PEAK 41(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         8.81        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 
       41.06        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        33.01        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        19.07        40.01        12.00         1.02        13.02 
TCGA-A8-A09E TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09R TCGA-A8-A09T TCGA-A8-A09W 
       31.00        15.02         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-A8OP 
        9.40         1.55         1.81         1.18         0.43         1.74 
TCGA-AN-A041 TCGA-AN-A049 TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AT 
        0.23         0.62         8.02         7.36         6.51         0.33 
TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FK TCGA-AN-A0FW TCGA-AN-A0FY TCGA-AN-A0FZ 
        6.44         4.64         7.00         0.36         0.33         0.33 
TCGA-AN-A0XO TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT TCGA-AN-A0XU TCGA-AO-A03L 
       12.33         0.33         0.33         0.33         0.33        80.28 
TCGA-AO-A03N TCGA-AO-A03P TCGA-AO-A0J3 TCGA-AO-A0J7 TCGA-AO-A0J8 TCGA-AO-A0J9 
       66.77        84.69        21.40        20.32        22.36        53.03 
TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JD TCGA-AO-A0JG TCGA-AO-A124 TCGA-AO-A12A 
       21.53        50.70        72.00        26.24       102.58        90.58 
TCGA-AO-A12E TCGA-AO-A1KP TCGA-AO-A1KQ TCGA-AO-A1KS TCGA-AQ-A54N TCGA-AQ-A54O 
       57.30        82.62        61.87         0.53         2.56        21.86 
TCGA-AQ-A7U7 TCGA-AR-A0TP TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TW 
        9.99        82.88         5.26        37.41        56.88        24.30 
TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U3 TCGA-AR-A1AH TCGA-AR-A1AJ 
       55.86        76.14        65.36        76.18        75.55        52.77 
TCGA-AR-A1AM TCGA-AR-A1AP TCGA-AR-A1AQ TCGA-AR-A1AR TCGA-AR-A1AV TCGA-AR-A1AY 
       62.56        39.98        43.07        17.23        42.58        20.22 
TCGA-AR-A24H TCGA-AR-A24K TCGA-AR-A24O TCGA-AR-A24P TCGA-AR-A24R TCGA-AR-A24S 
      109.58        50.89        65.69         0.85        57.40        62.07 
TCGA-AR-A24W TCGA-AR-A24X TCGA-AR-A24Z TCGA-AR-A250 TCGA-AR-A251 TCGA-AR-A252 
       50.96        48.16        51.75        56.15        45.17        40.64 
TCGA-AR-A255 TCGA-AR-A256 TCGA-AR-A2LK TCGA-AR-A2LO TCGA-AR-A5QP TCGA-B6-A0IG 
       34.82        93.83        42.87        20.81        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        82.88        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-E9-A1N5 TCGA-E9-A1N8 
       16.93         7.20        22.26        19.89        36.82        12.00 
TCGA-E9-A1N9 TCGA-E9-A1NA TCGA-E9-A1ND TCGA-E9-A1NE TCGA-E9-A1NF TCGA-E9-A1NG 
       13.12        36.56        12.59        35.77        20.05        21.57 
TCGA-E9-A1NI TCGA-E9-A1R2 TCGA-E9-A1R3 TCGA-E9-A1R4 TCGA-E9-A1R6 TCGA-E9-A1RA 
        9.86         0.62         2.10         6.12         2.76        32.09 
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-A228 TCGA-E9-A229 TCGA-E9-A22A TCGA-E9-A22E TCGA-E9-A22H TCGA-E9-A244 
       12.53        13.32        39.09        12.89        24.10         0.69 
TCGA-E9-A247 TCGA-E9-A248 TCGA-E9-A249 TCGA-E9-A24A TCGA-E9-A2JS TCGA-E9-A3HO 
       27.22         1.94         0.95        12.56        17.75        26.07 
TCGA-E9-A3X8 TCGA-E9-A54Y TCGA-E9-A5FK TCGA-E9-A5FL TCGA-E9-A5UO TCGA-E9-A6HE 
       15.72         0.23         0.39         0.26         0.23        15.39 
TCGA-EW-A1IX TCGA-EW-A1J1 TCGA-EW-A1J2 TCGA-EW-A1J6 TCGA-EW-A1OW TCGA-EW-A1OY 
       39.72        18.90        13.25        28.77        22.82        29.85 
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-A1PH TCGA-EW-A2FS TCGA-EW-A2FV TCGA-EW-A3U0 TCGA-EW-A423 
        6.15        19.96        52.73        25.91        17.49        10.16 
TCGA-GI-A2C8 TCGA-GM-A2DA TCGA-GM-A2DB TCGA-GM-A2DH TCGA-GM-A2DK TCGA-GM-A2DL 
        7.40       194.27        53.13        42.28        62.33        90.84 
TCGA-GM-A3NY TCGA-GM-A3XL TCGA-GM-A3XN TCGA-GM-A4E0 TCGA-JL-A3YW TCGA-JL-A3YX 
       38.20        69.30        53.95        57.63        11.84        11.57 
TCGA-LD-A66U TCGA-LD-A7W6 TCGA-LL-A442 TCGA-LL-A50Y TCGA-LL-A5YN TCGA-LL-A5YO 
        8.28         4.60         3.58         6.90         3.65         3.19 
TCGA-LL-A6FQ TCGA-LL-A6FR TCGA-LL-A7SZ TCGA-LL-A7T0 TCGA-LQ-A4E4 TCGA-OL-A5D7 
        2.63         3.88         5.59         3.22        15.91        46.55 
TCGA-OL-A5RV TCGA-OL-A5RW TCGA-OL-A5RZ TCGA-OL-A66K TCGA-OL-A66L TCGA-S3-A6ZG 
       24.10        26.20        10.29        33.90        31.07         6.81 

$`DEL PEAK 41(22Q13.32) WILD-TYPE`
TCGA-A1-A0SB TCGA-A1-A0SE TCGA-A1-A0SF TCGA-A1-A0SH TCGA-A1-A0SI TCGA-A1-A0SM 
        8.52        43.43        48.10        47.24        20.88         7.96 
TCGA-A1-A0SP TCGA-A1-A0SQ TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04W TCGA-A2-A04X 
       19.20        18.21        73.84        22.06        64.04        55.43 
TCGA-A2-A0CK TCGA-A2-A0CO TCGA-A2-A0CT TCGA-A2-A0CX TCGA-A2-A0D1 TCGA-A2-A0D2 
      125.59       112.08        75.25        56.81        34.55        33.76 
TCGA-A2-A0D3 TCGA-A2-A0EM TCGA-A2-A0EP TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES 
       28.77       101.72       107.61        79.76        74.40        37.05 
TCGA-A2-A0EV TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST TCGA-A2-A0SV TCGA-A2-A0SW 
       31.82        24.72        24.16        99.19        27.12        44.88 
TCGA-A2-A0SY TCGA-A2-A0T0 TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T5 TCGA-A2-A0YC 
       44.28        17.52        17.13         8.38        17.46        32.55 
TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM TCGA-A2-A1FV 
       14.50        18.61        19.33        14.63        31.73        23.47 
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-A25D TCGA-A2-A25E TCGA-A2-A25F TCGA-A2-A3KC TCGA-A2-A3KD 
       52.47        18.15        91.92        10.59        20.88        39.65 
TCGA-A2-A3XT TCGA-A2-A3XU TCGA-A2-A3XV TCGA-A2-A3XW TCGA-A2-A3XX TCGA-A2-A4RX 
       83.01        29.98        14.07        49.48        38.40         9.01 
TCGA-A2-A4S0 TCGA-A2-A4S1 TCGA-A2-A4S2 TCGA-A2-A4S3 TCGA-A7-A0CD TCGA-A7-A0D9 
        8.91        12.00         6.74         3.42        38.30        37.45 
TCGA-A7-A0DA TCGA-A7-A13D TCGA-A7-A13F TCGA-A7-A13G TCGA-A7-A26F TCGA-A7-A26G 
       35.67        31.73        12.72        23.61        24.26        23.74 
TCGA-A7-A26H TCGA-A7-A2KD TCGA-A7-A3IY TCGA-A7-A3IZ TCGA-A7-A3J0 TCGA-A7-A3RF 
       23.80        22.32        11.34        10.59        10.29        13.41 
TCGA-A7-A425 TCGA-A7-A4SA TCGA-A7-A4SE TCGA-A7-A5ZW TCGA-A7-A5ZX TCGA-A7-A6VV 
       14.70        14.93        21.17        10.72        11.05        10.29 
TCGA-A7-A6VX TCGA-A8-A06O TCGA-A8-A079 TCGA-A8-A07G TCGA-A8-A07L TCGA-A8-A07O 
       10.42        13.02         9.01        18.97        17.03         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         9.96        28.04        18.05 
TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08L 
       13.02         0.99        23.08        19.99        18.05         9.99 
TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08T TCGA-A8-A08X TCGA-A8-A091 TCGA-A8-A092 
       31.00         0.99        93.04        33.99        19.07        16.01 
TCGA-A8-A093 TCGA-A8-A095 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A TCGA-A8-A09I 
       17.95        41.98        12.00         9.99         9.99        33.07 
TCGA-A8-A09K TCGA-A8-A09Q TCGA-A8-A09V TCGA-A8-A09X TCGA-A8-A0A1 TCGA-A8-A0AD 
       29.98        25.02        15.02        14.01        12.00        38.04 
TCGA-AC-A23C TCGA-AC-A23E TCGA-AC-A23H TCGA-AC-A2B8 TCGA-AC-A2BK TCGA-AC-A2BM 
        0.95         2.37         2.66         1.48        38.53        38.20 
TCGA-AC-A2FB TCGA-AC-A2FG TCGA-AC-A2FK TCGA-AC-A2FO TCGA-AC-A2QI TCGA-AC-A2QJ 
       40.57        36.99        38.79        50.70         0.92         2.27 
TCGA-AC-A3OD TCGA-AC-A3TN TCGA-AC-A3W5 TCGA-AC-A3W6 TCGA-AC-A3YI TCGA-AC-A3YJ 
       14.83         1.12         1.81         1.68         1.55         1.32 
TCGA-AC-A62V TCGA-AC-A62X TCGA-AC-A6IW TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A046 
        0.07         1.12         0.69         0.33         0.33         0.33 
TCGA-AN-A04A TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AM TCGA-AN-A0AR TCGA-AN-A0AS 
        2.96         1.78         1.71         0.16         0.33         0.33 
TCGA-AN-A0FJ TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
        7.96         7.59         7.17         6.28         6.02         0.33 
TCGA-AN-A0FX TCGA-AN-A0XL TCGA-AN-A0XN TCGA-AN-A0XP TCGA-AN-A0XV TCGA-AN-A0XW 
        0.33         0.33         0.33         0.30         5.33         5.59 
TCGA-AO-A03M TCGA-AO-A03O TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
       47.84        81.63        68.75        47.87        59.05        29.13 
TCGA-AO-A0J2 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0JC TCGA-AO-A0JE 
       32.78        17.65        24.16        37.48        50.86        76.77 
TCGA-AO-A0JF TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL TCGA-AO-A0JM TCGA-AO-A125 
       21.37        38.53        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-A12F 
       93.70        94.59        96.10        77.56        64.04        48.36 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AO-A1KO TCGA-AO-A1KR TCGA-AO-A1KT TCGA-AQ-A04H 
       41.62        28.37        14.73        70.39        17.79        24.79 
TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AQ-A0Y5 TCGA-AQ-A1H2 TCGA-AQ-A1H3 TCGA-AR-A0TQ 
       26.93       130.09         5.65        15.62        13.22        49.32 
TCGA-AR-A0TV TCGA-AR-A0TX TCGA-AR-A0U1 TCGA-AR-A0U2 TCGA-AR-A0U4 TCGA-AR-A1AI 
       29.75        64.83        70.16        83.87        55.36        61.84 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AS TCGA-AR-A1AU 
       51.25        48.82        43.73        43.56        40.83        46.32 
TCGA-AR-A1AW TCGA-AR-A1AX TCGA-AR-A24L TCGA-AR-A24M TCGA-AR-A24N TCGA-AR-A24Q 
       35.24        36.26        73.02        65.46        68.19        66.05 
TCGA-AR-A24T TCGA-AR-A24U TCGA-AR-A24V TCGA-AR-A254 TCGA-AR-A2LE TCGA-AR-A2LH 
       53.26        53.36        54.18        39.85       128.65        20.25 
TCGA-AR-A2LL TCGA-AR-A2LM TCGA-AR-A2LN TCGA-AR-A2LQ TCGA-AR-A2LR TCGA-AR-A5QM 
        7.36        40.04        17.10        16.96        20.38        54.74 
TCGA-AR-A5QN TCGA-AR-A5QQ TCGA-B6-A0I1 TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I9 
       16.04        10.59        77.62       143.38       149.59        12.13 
TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IH TCGA-B6-A0IJ 
      220.90       129.57        50.70        65.72       112.37       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-A0RQ TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS 
       78.02       140.48        89.46       131.21       157.41        97.48 
TCGA-B6-A0WT TCGA-B6-A0WV TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 TCGA-B6-A0X1 
      188.68        79.63       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-A2IU TCGA-B6-A401 TCGA-B6-A402 TCGA-BH-A0AU TCGA-BH-A0AV TCGA-BH-A0AW 
      170.17        85.35        54.28        24.53        38.79        20.45 
TCGA-BH-A0AZ TCGA-BH-A0B2 TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BG TCGA-BH-A0BM 
       28.50        40.83        32.02        18.21        24.85        61.68 
TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BS TCGA-BH-A0BW TCGA-BH-A0C0 
       35.67        48.69        27.19        53.95        11.67        41.75 
TCGA-BH-A0C1 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DI TCGA-BH-A0DK 
       44.02        45.83        31.17        23.44        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-A0E2 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA 
       16.27        15.68        14.30        44.81        46.19        32.65 
TCGA-BH-A0EI TCGA-BH-A0H0 TCGA-BH-A0H3 TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 
       24.43        15.16        37.78        35.51        24.56        23.08 
TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HW TCGA-BH-A0HX 
       20.38         5.85         2.50        13.61        51.32        27.25 
TCGA-BH-A0HY TCGA-BH-A0W4 TCGA-BH-A18G TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q 
       50.79        24.95         2.01        37.74        30.28        55.63 
TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EN TCGA-BH-A1EO 
       37.55        66.05        51.39        51.16        69.93        91.99 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F0 TCGA-BH-A1F2 TCGA-BH-A1F6 TCGA-BH-A1FB 
       12.00        55.69        25.81        31.53        97.48       120.62 
TCGA-BH-A1FE TCGA-BH-A1FG TCGA-BH-A1FH TCGA-BH-A1FJ TCGA-BH-A1FR TCGA-BH-A1FU 
       74.73       122.89        36.92        63.35       144.59        72.07 
TCGA-BH-A201 TCGA-BH-A202 TCGA-BH-A203 TCGA-BH-A28O TCGA-BH-A28Q TCGA-BH-A2L8 
        6.90         0.72        38.60        10.65         6.44        20.12 
TCGA-BH-A42U TCGA-BH-A42V TCGA-C8-A12L TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P 
      109.28         8.94        11.93        11.77        12.66        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-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-A1HJ TCGA-C8-A26V TCGA-C8-A26W TCGA-C8-A26X TCGA-C8-A26Z TCGA-C8-A273 
        0.16         0.30         0.23         0.36         8.28         9.67 
TCGA-C8-A275 TCGA-C8-A278 TCGA-C8-A27B TCGA-C8-A3M7 TCGA-C8-A3M8 TCGA-D8-A140 
        0.03         0.03         0.99         0.03         0.23        13.25 
TCGA-D8-A141 TCGA-D8-A142 TCGA-D8-A147 TCGA-D8-A1J9 TCGA-D8-A1JA TCGA-D8-A1JC 
       20.58        13.97        19.20        17.49        16.50        15.78 
TCGA-D8-A1JE TCGA-D8-A1JF 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-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-A1XC TCGA-D8-A1XF TCGA-D8-A1XG TCGA-D8-A1XJ TCGA-D8-A1XQ TCGA-D8-A1XS 
        2.66        15.22        14.73        21.83        16.41        16.31 
TCGA-D8-A1XV TCGA-D8-A1XW TCGA-D8-A1XY TCGA-D8-A1XZ TCGA-D8-A27E TCGA-D8-A27F 
       15.16        12.66        16.54        15.32        17.42        16.04 
TCGA-D8-A27G TCGA-D8-A27H TCGA-D8-A27K TCGA-D8-A27M TCGA-D8-A27N TCGA-D8-A27P 
       13.45        13.05         9.44        13.48         4.80         0.76 
TCGA-D8-A27R TCGA-D8-A27V TCGA-D8-A27W TCGA-D8-A3Z6 TCGA-D8-A4Z1 TCGA-E2-A108 
       10.09        12.53        12.26        18.51         7.33        27.52 
TCGA-E2-A10B TCGA-E2-A10E TCGA-E2-A14N TCGA-E2-A14P TCGA-E2-A14R TCGA-E2-A14S 
       37.51        28.44        47.15        40.96        38.60        33.17 
TCGA-E2-A14U TCGA-E2-A14X TCGA-E2-A14Y TCGA-E2-A154 TCGA-E2-A155 TCGA-E2-A156 
       43.33        31.96        28.60        19.43        21.04        23.87 
TCGA-E2-A15A TCGA-E2-A15D TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15R 
       23.34        17.29        19.40         9.04        20.58        17.06 
TCGA-E2-A15S TCGA-E2-A1B0 TCGA-E2-A1B4 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1IE 
       14.07        53.62        29.95        28.50        16.47        38.30 
TCGA-E2-A1IG TCGA-E2-A1IK TCGA-E2-A1IU TCGA-E2-A1L6 TCGA-E2-A1L7 TCGA-E2-A1L9 
       32.78        22.65        11.08        54.18        27.42        19.66 
TCGA-E2-A1LA TCGA-E2-A1LB TCGA-E2-A1LG TCGA-E2-A1LH TCGA-E2-A1LL TCGA-E2-A2P6 
       24.59        40.47        18.87       106.75        43.04         5.52 
TCGA-E2-A3DX TCGA-E2-A570 TCGA-E9-A1N4 TCGA-E9-A1N6 TCGA-E9-A1NC TCGA-E9-A1QZ 
       15.72        18.05        19.20        13.48        39.55        11.90 
TCGA-E9-A1R0 TCGA-E9-A1R5 TCGA-E9-A1R7 TCGA-E9-A1RB TCGA-E9-A1RH TCGA-E9-A226 
       14.30         1.38        21.21        20.81        34.59        34.13 
TCGA-E9-A227 TCGA-E9-A22B TCGA-E9-A22G TCGA-E9-A243 TCGA-E9-A245 TCGA-E9-A295 
        0.79        22.75        23.51        17.06         0.85         0.72 
TCGA-E9-A2JT TCGA-E9-A3Q9 TCGA-E9-A3QA TCGA-EW-A1IW TCGA-EW-A1IY TCGA-EW-A1IZ 
        0.76        18.41         0.62        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        32.28        13.55        18.12 
TCGA-LD-A74U TCGA-LL-A440 TCGA-LL-A441 TCGA-LL-A5YL TCGA-LL-A5YM TCGA-LL-A5YP 
        6.67         0.66         2.99         5.56         4.70         3.25 
TCGA-LL-A73Y TCGA-LL-A73Z TCGA-LL-A740 TCGA-LL-A8F5 TCGA-MS-A51U TCGA-OK-A5Q2 
        4.14         4.50         4.50         6.21         2.79         2.10 
TCGA-OL-A5D6 TCGA-OL-A5D8 TCGA-OL-A5DA TCGA-OL-A5RU TCGA-OL-A5RX TCGA-OL-A5RY 
       12.66         7.53        44.61        27.65        16.87        14.10 
TCGA-OL-A5S0 TCGA-OL-A66H TCGA-OL-A66I TCGA-OL-A66J TCGA-OL-A66N TCGA-OL-A66O 
        9.80        14.76        23.70        54.51        18.21         7.23 
TCGA-OL-A66P TCGA-W8-A86G 
        4.44         5.29 

  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                           0.03                            0.03 
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                         211.56                          234.28 
  DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE 
                         21.650                          21.105 
[1] "0.0 - 211.6 (21.6)" "0.0 - 234.3 (21.1)"
[1] "hr=" "1.1"
D69V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 41(22Q13.32) MUTATED        36       34        2        3       146
  DEL PEAK 41(22Q13.32) WILD-TYPE      44       43        7        6       189
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 41(22Q13.32) MUTATED         112         1         61         14
  DEL PEAK 41(22Q13.32) WILD-TYPE       112         1         77         13
                                 vv
clus                              STAGE IIIC STAGE IV STAGE TIS STAGE X
  DEL PEAK 41(22Q13.32) MUTATED           31        5         0       6
  DEL PEAK 41(22Q13.32) WILD-TYPE         28       12         1      10
D69V3, multiclass
            clus
vv           DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  STAGE I                               36                              44
  STAGE IA                              34                              43
  STAGE IB                               2                               7
  STAGE II                               3                               6
  STAGE IIA                            146                             189
  STAGE IIB                            112                             112
  STAGE III                              1                               1
  STAGE IIIA                            61                              77
  STAGE IIIB                            14                              13
  STAGE IIIC                            31                              28
  STAGE IV                               5                              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 41(22Q13.32) MUTATED   110 275  47  18
  DEL PEAK 41(22Q13.32) WILD-TYPE 148 306  70  18
D69V4, multiclass
    clus
vv   DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  T1                           110                             148
  T2                           275                             306
  T3                            47                              70
  T4                            18                              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 41(22Q13.32) MUTATED   212 151  49  37
  DEL PEAK 41(22Q13.32) WILD-TYPE 256 179  62  33
D69V5, multiclass
    clus
vv   DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  N0                           212                             256
  N1                           151                             179
  N2                            49                              62
  N3                            37                              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                              CM0 (I+)  M0  M1  MX
  DEL PEAK 41(22Q13.32) MUTATED          1 389   5  56
  DEL PEAK 41(22Q13.32) WILD-TYPE        1 456  12  75
D69V6, multiclass
          clus
vv         DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  CM0 (I+)                             1                               1
  M0                                 389                             456
  M1                                   5                              12
  MX                                  56                              75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D69V7, binary
                                 cls
clus                                0   1
  DEL PEAK 41(22Q13.32) MUTATED   445   6
  DEL PEAK 41(22Q13.32) WILD-TYPE 539   5
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 41(22Q13.32) MUTATED    445    6
  DEL PEAK 41(22Q13.32) WILD-TYPE  539    5
        clus
vv       DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  FEMALE                           445                             539
  MALE                               6                               5
[1] 2 2
[1] FALSE
                                 vv
clus                              INFILTRATING CARCINOMA NOS
  DEL PEAK 41(22Q13.32) MUTATED                            1
  DEL PEAK 41(22Q13.32) WILD-TYPE                          0
                                 vv
clus                              INFILTRATING DUCTAL CARCINOMA
  DEL PEAK 41(22Q13.32) MUTATED                             339
  DEL PEAK 41(22Q13.32) WILD-TYPE                           396
                                 vv
clus                              INFILTRATING LOBULAR CARCINOMA
  DEL PEAK 41(22Q13.32) MUTATED                               76
  DEL PEAK 41(22Q13.32) WILD-TYPE                             90
                                 vv
clus                              MEDULLARY CARCINOMA
  DEL PEAK 41(22Q13.32) MUTATED                     3
  DEL PEAK 41(22Q13.32) WILD-TYPE                   2
                                 vv
clus                              MIXED HISTOLOGY (PLEASE SPECIFY)
  DEL PEAK 41(22Q13.32) MUTATED                                 17
  DEL PEAK 41(22Q13.32) WILD-TYPE                               12
                                 vv
clus                              MUCINOUS CARCINOMA OTHER  SPECIFY
  DEL PEAK 41(22Q13.32) MUTATED                    1             13
  DEL PEAK 41(22Q13.32) WILD-TYPE                 13             31
D69V8, multiclass
                                  clus
vv                                 DEL PEAK 41(22Q13.32) MUTATED
  INFILTRATING CARCINOMA NOS                                   1
  INFILTRATING DUCTAL CARCINOMA                              339
  INFILTRATING LOBULAR CARCINOMA                              76
  MEDULLARY CARCINOMA                                          3
  MIXED HISTOLOGY (PLEASE SPECIFY)                            17
  MUCINOUS CARCINOMA                                           1
  OTHER  SPECIFY                                              13
                                  clus
vv                                 DEL PEAK 41(22Q13.32) WILD-TYPE
  INFILTRATING CARCINOMA NOS                                     0
  INFILTRATING DUCTAL CARCINOMA                                396
  INFILTRATING LOBULAR CARCINOMA                                90
  MEDULLARY CARCINOMA                                            2
  MIXED HISTOLOGY (PLEASE SPECIFY)                              12
  MUCINOUS CARCINOMA                                            13
  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"
D69V9, binary
                                 cls
clus                                0   1
  DEL PEAK 41(22Q13.32) MUTATED   148 303
  DEL PEAK 41(22Q13.32) WILD-TYPE 134 410
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 41(22Q13.32) MUTATED    148  303
  DEL PEAK 41(22Q13.32) WILD-TYPE  134  410
     clus
vv    DEL PEAK 41(22Q13.32) MUTATED DEL PEAK 41(22Q13.32) WILD-TYPE
  NO                            148                             134
  YES                           303                             410
[1] 2 2
[1] FALSE
D69V10, continuous
                                 vv
clus                              AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  DEL PEAK 41(22Q13.32) MUTATED                                  0    21
  DEL PEAK 41(22Q13.32) WILD-TYPE                                1    35
                                 vv
clus                              BLACK OR AFRICAN AMERICAN WHITE
  DEL PEAK 41(22Q13.32) MUTATED                          62   327
  DEL PEAK 41(22Q13.32) WILD-TYPE                        75   381
D69V11, multiclass
                                  clus
vv                                 DEL PEAK 41(22Q13.32) MUTATED
  AMERICAN INDIAN OR ALASKA NATIVE                             0
  ASIAN                                                       21
  BLACK OR AFRICAN AMERICAN                                   62
  WHITE                                                      327
                                  clus
vv                                 DEL PEAK 41(22Q13.32) WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                               1
  ASIAN                                                         35
  BLACK OR AFRICAN AMERICAN                                     75
  WHITE                                                        381
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D69V12, binary
                                 cls
clus                                0   1
  DEL PEAK 41(22Q13.32) MUTATED    15 359
  DEL PEAK 41(22Q13.32) WILD-TYPE  21 437
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 41(22Q13.32) MUTATED     15  359
  DEL PEAK 41(22Q13.32) WILD-TYPE   21  437
                        clus
vv                       DEL PEAK 41(22Q13.32) MUTATED
  HISPANIC OR LATINO                                15
  NOT HISPANIC OR LATINO                           359
                        clus
vv                       DEL PEAK 41(22Q13.32) WILD-TYPE
  HISPANIC OR LATINO                                  21
  NOT HISPANIC OR LATINO                             437
[1] 2 2
[1] FALSE
