
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.48.4103/CNV2ClinicalAnalysis_nozzle_onlysig_focal.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.48.4103/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/400644/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-All_Metastatic/3180574/SKCM-All_Metastatic.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=SKCM-All_Metastatic", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"                     "-oT=SKCM-All_Metastatic"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=180, in cluster file=244, common to both=173
[1]  51 173
[1] "Amp Peak  1(1p12) mutation analysis"
[1] 3
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         51                         122 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         51                         122 
[1] "Amp Peak  2(1q21.3) mutation analysis"
[1] 3
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           90                            83 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           90                            83 
[1] "Amp Peak  3(1q44) mutation analysis"
[1] 3
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         92                          81 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         92                          81 
[1] "Amp Peak  4(3p13) mutation analysis"
[1] 3
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         42                         131 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         42                         131 
[1] "Amp Peak  5(4q12) mutation analysis"
[1] 3
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                         32                         141 
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                         32                         141 
[1] "Amp Peak  6(5p15.33) mutation analysis"
[1] 3
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            48                            125 
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            48                            125 
[1] "Amp Peak  7(5q35.3) mutation analysis"
[1] 3
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                           22                           151 
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                           22                           151 
[1] "Amp Peak  8(6p25.1) mutation analysis"
[1] 3
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                          101                            72 
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                          101                            72 
[1] "Amp Peak  9(6q12) mutation analysis"
[1] 3
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                         37                         136 
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                         37                         136 
[1] "Amp Peak 10(7p22.3) mutation analysis"
[1] 3
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                           96                            77 
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                           96                            77 
[1] "Amp Peak 11(7q34) mutation analysis"
[1] 3
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                         99                          74 
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                         99                          74 
[1] "Amp Peak 12(8q11.21) mutation analysis"
[1] 3
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                            70                            103 
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                            70                            103 
[1] "Amp Peak 13(8q24.21) mutation analysis"
[1] 3
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                            82                             91 
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                            82                             91 
[1] "Amp Peak 14(9p24.1) mutation analysis"
[1] 3
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                           13                           160 
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                           13                           160 
[1] "Amp Peak 15(11q13.3) mutation analysis"
[1] 3
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            29                            144 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            29                            144 
[1] "Amp Peak 16(11q13.4) mutation analysis"
[1] 3
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                            28                            145 
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                            28                            145 
[1] "Amp Peak 17(12q14.1) mutation analysis"
[1] 3
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                            30                            143 
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                            30                            143 
[1] "Amp Peak 18(12q15) mutation analysis"
[1] 3
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          24                          149 
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          24                          149 
[1] "Amp Peak 19(15q24.3) mutation analysis"
[1] 3
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                            58                            115 
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                            58                            115 
[1] "Amp Peak 20(17q25.3) mutation analysis"
[1] 3
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                            66                            107 
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                            66                            107 
[1] "Amp Peak 21(19p13.2) mutation analysis"
[1] 3
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            34                            139 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            34                            139 
[1] "Amp Peak 22(20q13.2) mutation analysis"
[1] 3
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                            90                             83 
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                            90                             83 
[1] "Amp Peak 23(22q13.2) mutation analysis"
[1] 3
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                            79                             94 
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                            79                             94 
[1] "Amp Peak 24(Xq28) mutation analysis"
[1] 3
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                         30                         143 
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                         30                         143 
[1] "Del Peak  1(1p36.31) mutation analysis"
[1] 3
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            46                            127 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            46                            127 
[1] "Del Peak  2(1p22.1) mutation analysis"
[1] 3
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           46                           127 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           46                           127 
[1] "Del Peak  3(2q37.3) mutation analysis"
[1] 3
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           44                           129 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           44                           129 
[1] "Del Peak  4(3q23) mutation analysis"
[1] 3
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                         24                         149 
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                         24                         149 
[1] "Del Peak  5(4q22.1) mutation analysis"
[1] 3
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                           35                           138 
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                           35                           138 
[1] "Del Peak  6(4q34.3) mutation analysis"
[1] 3
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           44                           129 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           44                           129 
[1] "Del Peak  7(5q11.2) mutation analysis"
[1] 3
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                           54                           119 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                           54                           119 
[1] "Del Peak  8(5q31.3) mutation analysis"
[1] 3
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                           69                           104 
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                           69                           104 
[1] "Del Peak  9(6q26) mutation analysis"
[1] 3
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                        104                          69 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                        104                          69 
[1] "Del Peak 10(8p23.3) mutation analysis"
[1] 3
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                           42                           131 
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                           42                           131 
[1] "Del Peak 11(9p23) mutation analysis"
[1] 3
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                        121                          52 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                        121                          52 
[1] "Del Peak 12(9p21.3) mutation analysis"
[1] 3
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                          137                            36 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                          137                            36 
[1] "Del Peak 13(10p15.3) mutation analysis"
[1] 3
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                            92                             81 
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                            92                             81 
[1] "Del Peak 14(10q23.31) mutation analysis"
[1] 3
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                            107                              66 
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                            107                              66 
[1] "Del Peak 15(10q26.3) mutation analysis"
[1] 3
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                           107                             66 
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                           107                             66 
[1] "Del Peak 16(11q23.3) mutation analysis"
[1] 3
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                           101                             72 
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                           101                             72 
[1] "Del Peak 17(12p13.31) mutation analysis"
[1] 3
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                             23                             150 
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                             23                             150 
[1] "Del Peak 18(12q23.3) mutation analysis"
[1] 3
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                            38                            135 
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                            38                            135 
[1] "Del Peak 19(12q24.33) mutation analysis"
[1] 3
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                             39                             134 
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                             39                             134 
[1] "Del Peak 20(13q34) mutation analysis"
[1] 3
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                          42                          131 
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                          42                          131 
[1] "Del Peak 21(14q32.2) mutation analysis"
[1] 3
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                            58                            115 
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                            58                            115 
[1] "Del Peak 22(15q13.3) mutation analysis"
[1] 3
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                            40                            133 
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                            40                            133 
[1] "Del Peak 23(15q15.3) mutation analysis"
[1] 3
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                            39                            134 
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                            39                            134 
[1] "Del Peak 24(16p13.3) mutation analysis"
[1] 3
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                            32                            141 
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                            32                            141 
[1] "Del Peak 25(16q12.1) mutation analysis"
[1] 3
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                            58                            115 
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                            58                            115 
[1] "Del Peak 26(16q24.3) mutation analysis"
[1] 3
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                            62                            111 
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                            62                            111 
[1] "Del Peak 27(19p13.3) mutation analysis"
[1] 3
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                            53                            120 
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                            53                            120 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "DAYSTOSUBMITTEDSPECIMENDX"             
 [5] "VITALSTATUS"                           
 [6] "DCCUPLOADDATE"                         
 [7] "PRIMARYSITEOFDESEASE"                  
 [8] "GENDER"                                
 [9] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[10] "RADIATIONTHERAPY"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "DISTANT.METASTASIS"                    
[13] "LYMPH.NODE.METASTASIS"                 
[14] "TUMOR.STAGECODE"                       
[15] "NEOPLASM.DISEASESTAGE"                 
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 173 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
          NA           NA           NA         3004           NA           NA 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK 
          NA           NA           NA           NA          939           NA 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
          NA         1390           NA           NA           NA          164 
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 
          NA           NA           NA           NA          122           87 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
        1484           NA         1555           NA         1192           NA 
TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB 
          NA         1354         1116           NA           NA          680 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
          NA          589           NA          534          451           NA 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
          NA           NA           NA           NA           NA         1097 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
         156           NA           NA         1155           NA         1175 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
         134           NA          825           NA          366          247 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
         269          304          197           NA           NA           NA 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC 
         769          727           NA          272           NA           NA 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
          NA           NA           NA           NA           NA           NA 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A19O TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
          NA         1303           NA         2386          200           52 
TCGA-FR-A3YN TCGA-FR-A3YO TCGA-FR-A44A TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1YY 
         181           NA         2195           NA           NA           NA 
TCGA-FS-A1Z0 TCGA-FS-A1Z3 TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZA TCGA-FS-A1ZB 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZC TCGA-FS-A1ZD TCGA-FS-A1ZE TCGA-FS-A1ZF TCGA-FS-A1ZG TCGA-FS-A1ZH 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZJ TCGA-FS-A1ZK TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZQ TCGA-FS-A1ZR 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZS TCGA-FS-A1ZT TCGA-FS-A1ZU TCGA-FS-A1ZW TCGA-FS-A1ZY TCGA-FS-A1ZZ 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 
        1637           NA          328          195            6           31 
TCGA-FW-A3TU TCGA-FW-A3TV TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
           4           NA           NA          756           NA         2577 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
          NA           NA           NA           NA          447 
Variable 1:'AGE':	nDistinctValues=64,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=49,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=45,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOSUBMITTEDSPECIMENDX':	nDistinctValues=86,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 6:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=27,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'LYMPH.NODE.METASTASIS':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGECODE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                     "PRIMARY.SITE.OF.DISEASE"
[3] "GENDER"                  "DISTANT.METASTASIS"     
[5] "LYMPH.NODE.METASTASIS"   "TUMOR.STAGECODE"        
[7] "NEOPLASM.DISEASESTAGE"  
[1] "TUMOR.?STAGE" "6"           
[1] "stage2"
vv
 T0  T1 T1A T1B  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B TIS  TX 
  6   4  14   3  18  16   6   4  22  13   5   7  27   1  12 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 173 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=64, binary=FALSE, numeric=TRUE
PRIMARY.SITE.OF.DISEASE, nv=4, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=10, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE

Clustering(1) Variable = Amp Peak  1(1p12) mutation analysis
D1V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  1(1P12) MUTATED   11 19
  AMP PEAK  1(1P12) WILD-TYPE 33 31
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         30                          64 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         19                          31 
$`AMP PEAK  1(1P12) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       16.47        10.26        11.41         9.30         4.01         2.86 
TCGA-DA-A3F3 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C 
        7.00         1.12        12.20         4.27        36.07        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29V TCGA-EE-A29X 
       11.15        38.63         1.08        27.12         2.43         8.09 
TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
        3.52        12.99         6.58         1.71         5.95        72.16 
TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
        3.22         0.20        31.33        10.09        16.21        12.16 

$`AMP PEAK  1(1P12) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       21.14        30.87         6.35        15.25        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
       24.00         5.39        48.79        35.80        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 
       39.19        13.68         9.99        44.52        36.69        25.15 
TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
        4.93        22.36         6.64        19.36        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
       11.57         6.31         1.35         5.13         8.81         7.96 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        4.41         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        6.48        11.31        25.28        23.90         9.67         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1ZR 
       11.11         4.18        28.64        42.84        78.44         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 
       53.82        10.78         6.41         1.02         0.13        15.35 
TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       24.85        84.72        15.39        14.70 

  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                       0.20                        0.13 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                      72.16                       98.76 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                      9.695                      14.190 
[1] "0.2 - 72.2 (9.7)"  "0.1 - 98.8 (14.2)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
[1] "hr=" "1.9"
D1V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  1(1P12) MUTATED                    6             1
  AMP PEAK  1(1P12) WILD-TYPE                 19             0
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  1(1P12) MUTATED                                                                                         12
  AMP PEAK  1(1P12) WILD-TYPE                                                                                       23
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK  1(1P12) MUTATED                    32
  AMP PEAK  1(1P12) WILD-TYPE                  80
D1V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  1(1P12) MUTATED
  DISTANT METASTASIS                                                                                               6
  PRIMARY TUMOR                                                                                                    1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        12
  REGIONAL LYMPH NODE                                                                                             32
                                                                                          clus
vv                                                                                         AMP PEAK  1(1P12) WILD-TYPE
  DISTANT METASTASIS                                                                                                19
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          23
  REGIONAL LYMPH NODE                                                                                               80
D1V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  1(1P12) MUTATED     18   33
  AMP PEAK  1(1P12) WILD-TYPE   49   73
        clus
vv       AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE
  FEMALE                        18                          49
  MALE                          33                          73
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK  1(1P12) MUTATED    42   1   1   0   1
  AMP PEAK  1(1P12) WILD-TYPE 108   1   1   2   1
D1V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  1(1P12) MUTATED   27  0   5   5  0   1   1   2  4  0
  AMP PEAK  1(1P12) WILD-TYPE 68  2   2  11  1   3  10   3 12  2
D1V6, multiclass
D1V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  1(1P12) MUTATED             1       4        3        5        7
  AMP PEAK  1(1P12) WILD-TYPE           3      13        7        9       12
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  1(1P12) MUTATED           1         2         2         1
  AMP PEAK  1(1P12) WILD-TYPE         7         8         6         8
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  1(1P12) MUTATED            5          4          7        3
  AMP PEAK  1(1P12) WILD-TYPE          1         14         16        3
D1V8, multiclass

Clustering(2) Variable = Amp Peak  2(1q21.3) mutation analysis
D2V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  2(1Q21.3) MUTATED   23 25
  AMP PEAK  2(1Q21.3) WILD-TYPE 21 25
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           48                            46 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           25                            25 
$`AMP PEAK  2(1Q21.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1I0 
       13.32         9.30         5.39         4.01         2.86        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1IA TCGA-DA-A1IC 
       39.19         9.99        44.52        36.69         4.93         6.64 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 
        7.00        17.56         6.31         1.12         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
        4.27        36.07         8.81        11.15        38.63         1.08 
TCGA-EE-A29M TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 
       27.12         8.84         9.99         6.48        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
        8.94         3.52        11.11         1.71         5.95        72.16 
TCGA-FS-A4F0 TCGA-FW-A3I3 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       53.82         0.20        10.09        16.21        12.16        14.70 

$`AMP PEAK  2(1Q21.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A2JK 
       32.55        70.16        22.55        10.26        30.87         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       15.25        45.70        24.00        48.79        35.80        51.12 
TCGA-DA-A1I2 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        25.15        22.36        19.36        14.83        11.57 
TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P 
        5.13         7.96        37.97         4.41         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19J 
        8.12         2.43         8.09        11.31         9.67         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FS-A1ZR 
       12.99        28.64        42.84        78.44         6.58         8.81 
TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 
        3.22        10.78         6.41         1.02         0.13        15.35 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 
       24.85        31.33        84.72        15.39 

  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                         0.20                          0.13 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                        98.76                         84.72 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                       10.060                        14.255 
[1] "0.2 - 98.8 (10.1)" "0.1 - 84.7 (14.3)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
[1] "hr=" "1.2"
D2V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  2(1Q21.3) MUTATED                   16             1
  AMP PEAK  2(1Q21.3) WILD-TYPE                  9             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  2(1Q21.3) MUTATED                                                                                         20
  AMP PEAK  2(1Q21.3) WILD-TYPE                                                                                       15
                               vv
clus                            REGIONAL LYMPH NODE
  AMP PEAK  2(1Q21.3) MUTATED                    53
  AMP PEAK  2(1Q21.3) WILD-TYPE                  59
D2V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  2(1Q21.3) MUTATED
  DISTANT METASTASIS                                                                                                16
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          20
  REGIONAL LYMPH NODE                                                                                               53
                                                                                          clus
vv                                                                                         AMP PEAK  2(1Q21.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   9
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            15
  REGIONAL LYMPH NODE                                                                                                 59
D2V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED     35   55
  AMP PEAK  2(1Q21.3) WILD-TYPE   32   51
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  FEMALE                          35                            32
  MALE                            55                            51
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK  2(1Q21.3) MUTATED   77  1   2   1   2
  AMP PEAK  2(1Q21.3) WILD-TYPE 73  1   0   1   0
D2V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  2(1Q21.3) MUTATED   50  0   3  10  0   3   3   4  9  2
  AMP PEAK  2(1Q21.3) WILD-TYPE 45  2   4   6  1   1   8   1  7  0
D2V6, multiclass
D2V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  2(1Q21.3) MUTATED             2       7        6        9        9
  AMP PEAK  2(1Q21.3) WILD-TYPE           2      10        4        5       10
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  2(1Q21.3) MUTATED           4         5         4         3
  AMP PEAK  2(1Q21.3) WILD-TYPE         4         5         4         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  2(1Q21.3) MUTATED            4         10         12        5
  AMP PEAK  2(1Q21.3) WILD-TYPE          2          8         11        1
D2V8, multiclass

Clustering(3) Variable = Amp Peak  3(1q44) mutation analysis
D3V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  3(1Q44) MUTATED   26 24
  AMP PEAK  3(1Q44) WILD-TYPE 18 26
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         50                          44 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         24                          26 
$`AMP PEAK  3(1Q44) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY 
       13.32         9.30         5.39         4.01         2.86        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1IA 
       10.03        39.19         9.99        44.52        36.69         4.93 
TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 
        6.64         7.00        17.56         6.31         1.12         1.35 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
        4.27        36.07         8.81        11.15        38.63         1.08 
TCGA-EE-A29M TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 
       27.12        12.03         8.84         6.48        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
        8.94         3.52        11.11         6.58         1.71         5.95 
TCGA-FR-A44A TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-GN-A266 TCGA-GN-A267 
       72.16        53.82         6.41         0.20        10.09        16.21 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

$`AMP PEAK  3(1Q44) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A2JK 
       32.55        70.16        22.55        10.26        30.87         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 
       15.25        45.70        24.00        48.79        35.80        13.68 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 
       25.15        22.36        19.36        14.83        11.57        12.20 
TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29Q 
        5.13         7.96        37.97         4.41         9.47         8.12 
TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19J 
        9.99         2.43         8.09        11.31         9.67         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1ZR TCGA-FS-A4F2 
       12.99        28.64        42.84        78.44         8.81         3.22 
TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       10.78         1.02         0.13        15.35        24.85        31.33 
TCGA-GN-A265 TCGA-GN-A268 
       84.72        15.39 

  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                       0.20                        0.13 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                      98.76                       84.72 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                     10.060                      14.255 
[1] "0.2 - 98.8 (10.1)" "0.1 - 84.7 (14.3)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
[1] "hr=" "1"  
D3V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  3(1Q44) MUTATED                   15             1
  AMP PEAK  3(1Q44) WILD-TYPE                 10             0
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  3(1Q44) MUTATED                                                                                         22
  AMP PEAK  3(1Q44) WILD-TYPE                                                                                       13
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK  3(1Q44) MUTATED                    54
  AMP PEAK  3(1Q44) WILD-TYPE                  58
D3V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  3(1Q44) MUTATED
  DISTANT METASTASIS                                                                                              15
  PRIMARY TUMOR                                                                                                    1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        22
  REGIONAL LYMPH NODE                                                                                             54
                                                                                          clus
vv                                                                                         AMP PEAK  3(1Q44) WILD-TYPE
  DISTANT METASTASIS                                                                                                10
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               58
D3V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED     38   54
  AMP PEAK  3(1Q44) WILD-TYPE   29   52
        clus
vv       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  FEMALE                        38                          29
  MALE                          54                          52
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK  3(1Q44) MUTATED   79  1   2   1   2
  AMP PEAK  3(1Q44) WILD-TYPE 71  1   0   1   0
D3V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  3(1Q44) MUTATED   51  0   4  10  0   3   3   3 10  2
  AMP PEAK  3(1Q44) WILD-TYPE 44  2   3   6  1   1   8   2  6  0
D3V6, multiclass
D3V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  3(1Q44) MUTATED             2       8        6        8       11
  AMP PEAK  3(1Q44) WILD-TYPE           2       9        4        6        8
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  3(1Q44) MUTATED           2         5         5         3
  AMP PEAK  3(1Q44) WILD-TYPE         6         5         3         6
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  3(1Q44) MUTATED            5          9         13        5
  AMP PEAK  3(1Q44) WILD-TYPE          1          9         10        1
D3V8, multiclass

Clustering(4) Variable = Amp Peak  4(3p13) mutation analysis
D4V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  4(3P13) MUTATED   16 13
  AMP PEAK  4(3P13) WILD-TYPE 28 37
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         29                          65 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         13                          37 
$`AMP PEAK  4(3P13) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CE 
       22.55         8.38        11.41        30.87        45.70        13.32 
TCGA-D3-A3MV TCGA-DA-A1HW TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1IA TCGA-DA-A3F5 
        5.39        35.80         9.99        44.52         4.93        17.56 
TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
       14.83        36.07         5.13         4.41         1.08        27.12 
TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19M TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A 
        8.84         6.48        28.64         6.58         1.71        72.16 
TCGA-FS-A4F2 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
        3.22        31.33        84.72        10.09        15.39 

$`AMP PEAK  4(3P13) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
       21.14         6.35        15.25        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
        2.86        48.79        51.12        10.03        39.19        13.68 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       36.69        25.15        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
       11.57         6.31         1.12         1.35        12.20         4.27 
TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N 
        8.81         7.96        37.97        11.15        38.63         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
       12.03         8.12         9.99         2.43         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
       25.28        23.90         9.67         8.94         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FS-A1ZR 
        4.18        12.99        42.84        78.44         5.95         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU 
       53.82        10.78         6.41         0.20         1.02         0.13 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       15.35        24.85        16.21        12.16        14.70 

  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                       1.08                        0.13 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                      84.72                       98.76 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                      13.32                       11.31 
[1] "1.1 - 84.7 (13.3)" "0.1 - 98.8 (11.3)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
[1] "hr=" "1.4"
D4V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  4(3P13) MUTATED                    8             1
  AMP PEAK  4(3P13) WILD-TYPE                 17             0
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  4(3P13) MUTATED                                                                                         10
  AMP PEAK  4(3P13) WILD-TYPE                                                                                       25
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK  4(3P13) MUTATED                    23
  AMP PEAK  4(3P13) WILD-TYPE                  89
D4V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  4(3P13) MUTATED
  DISTANT METASTASIS                                                                                               8
  PRIMARY TUMOR                                                                                                    1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        10
  REGIONAL LYMPH NODE                                                                                             23
                                                                                          clus
vv                                                                                         AMP PEAK  4(3P13) WILD-TYPE
  DISTANT METASTASIS                                                                                                17
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          25
  REGIONAL LYMPH NODE                                                                                               89
D4V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  4(3P13) MUTATED     20   22
  AMP PEAK  4(3P13) WILD-TYPE   47   84
        clus
vv       AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE
  FEMALE                        20                          47
  MALE                          22                          84
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK  4(3P13) MUTATED    37   0   1   0   1
  AMP PEAK  4(3P13) WILD-TYPE 113   2   1   2   1
D4V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  4(3P13) MUTATED   24  0   2   5  0   2   2   1  2  1
  AMP PEAK  4(3P13) WILD-TYPE 71  2   5  11  1   2   9   4 14  1
D4V6, multiclass
D4V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  4(3P13) MUTATED             1       4        6        3        4
  AMP PEAK  4(3P13) WILD-TYPE           3      13        4       11       15
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  4(3P13) MUTATED           1         1         2         1
  AMP PEAK  4(3P13) WILD-TYPE         7         9         6         8
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  4(3P13) MUTATED            1          8          4        2
  AMP PEAK  4(3P13) WILD-TYPE          5         10         19        4
D4V8, multiclass

Clustering(5) Variable = Amp Peak  5(4q12) mutation analysis
D5V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  5(4Q12) MUTATED   11  8
  AMP PEAK  5(4Q12) WILD-TYPE 33 42
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                         19                          75 
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                          8                          42 
$`AMP PEAK  5(4Q12) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       28.08        15.25        13.32         2.86        48.79        35.80 
TCGA-DA-A1I1 TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A20F TCGA-EE-A29D 
       39.19        22.36        17.56         1.12         5.13        11.15 
TCGA-EE-A29P TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-GN-A264 TCGA-GN-A268 
       12.03         6.58         1.71         5.95        31.33        15.39 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK  5(4Q12) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CC 
        8.38        21.14        11.41        30.87         6.35        45.70 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 
       24.00         9.30         5.39         4.01        51.12        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA 
       13.68         9.99        44.52        36.69        25.15         4.93 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
        6.64        19.36         7.00        14.83        11.57         6.31 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A 
        1.35        12.20         4.27        36.07         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N 
       37.97        38.63         4.41         1.08        27.12         9.47 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X 
        8.12         8.84         9.99         6.48         2.43         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
       11.31        25.28        23.90         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC 
       72.16         8.81        53.82         3.22        10.78         6.41 
TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
        0.20         1.02         0.13        15.35        24.85        84.72 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
       10.09        16.21        12.16 

  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                       1.12                        0.13 
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                      48.79                       98.76 
  AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE 
                      14.70                       11.11 
[1] "1.1 - 48.8 (14.7)" "0.1 - 98.8 (11.1)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK  5(4Q12) MUTATED" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  5(4Q12) MUTATED"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  5(4Q12) WILD-TYPE" "AMP PEAK  5(4Q12) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  5(4Q12) WILD-TYPE"   "AMP PEAK  5(4Q12) MUTATED" 
[1] "hr=" "1.4"
D5V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  5(4Q12) MUTATED                    2             0
  AMP PEAK  5(4Q12) WILD-TYPE                 23             1
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  5(4Q12) MUTATED                                                                                          6
  AMP PEAK  5(4Q12) WILD-TYPE                                                                                       29
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK  5(4Q12) MUTATED                    24
  AMP PEAK  5(4Q12) WILD-TYPE                  88
D5V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  5(4Q12) MUTATED
  DISTANT METASTASIS                                                                                               2
  PRIMARY TUMOR                                                                                                    0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                         6
  REGIONAL LYMPH NODE                                                                                             24
                                                                                          clus
vv                                                                                         AMP PEAK  5(4Q12) WILD-TYPE
  DISTANT METASTASIS                                                                                                23
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          29
  REGIONAL LYMPH NODE                                                                                               88
D5V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  5(4Q12) MUTATED     14   18
  AMP PEAK  5(4Q12) WILD-TYPE   53   88
        clus
vv       AMP PEAK  5(4Q12) MUTATED AMP PEAK  5(4Q12) WILD-TYPE
  FEMALE                        14                          53
  MALE                          18                          88
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK  5(4Q12) MUTATED    26   0   1   1   0
  AMP PEAK  5(4Q12) WILD-TYPE 124   2   1   1   2
D5V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  5(4Q12) MUTATED   16  0   3   4  0   0   2   1  3  0
  AMP PEAK  5(4Q12) WILD-TYPE 79  2   4  12  1   4   9   4 13  2
D5V6, multiclass
D5V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  5(4Q12) MUTATED             0       4        1        2        4
  AMP PEAK  5(4Q12) WILD-TYPE           4      13        9       12       15
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  5(4Q12) MUTATED           0         1         3         2
  AMP PEAK  5(4Q12) WILD-TYPE         8         9         5         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  5(4Q12) MUTATED            2          4          4        2
  AMP PEAK  5(4Q12) WILD-TYPE          4         14         19        4
D5V8, multiclass

Clustering(6) Variable = Amp Peak  6(5p15.33) mutation analysis
D6V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  6(5P15.33) MUTATED   16 12
  AMP PEAK  6(5P15.33) WILD-TYPE 28 38
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            28                             66 
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                            12                             38 
$`AMP PEAK  6(5P15.33) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF 
       22.55        30.87         6.35        15.25        45.70        24.00 
TCGA-DA-A1HV TCGA-DA-A1I2 TCGA-DA-A1I5 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 
       48.79        13.68        44.52         7.00        17.56         1.12 
TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29M TCGA-EE-A29T 
       36.07         8.81        11.15        38.63        27.12         6.48 
TCGA-EE-A2A0 TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A44A TCGA-FW-A3I3 
       11.31        28.64        42.84         1.71        72.16         0.20 
TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A26D 
        0.13        31.33        84.72        14.70 

$`AMP PEAK  6(5P15.33) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV 
        8.38        21.14        11.41        13.32         9.30         5.39 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        4.01         2.86        35.80        51.12        10.03        39.19 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC 
        9.99        36.69        25.15         4.93        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A183 
       19.36        14.83        11.57         6.31         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L 
        4.27         5.13         7.96        37.97         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V 
        9.47        12.03         8.12         8.84         9.99         2.43 
TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.09        25.28        23.90         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN 
       11.11         4.18        12.99        78.44         6.58         5.95 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
        8.81        53.82         3.22        10.78         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       15.35        24.85        10.09        16.21        15.39        12.16 

  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                          0.13                           1.02 
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE 
                        20.055                         10.175 
[1] "0.1 - 84.7 (20.1)" "1.0 - 98.8 (10.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  6(5P15.33) MUTATED"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK  6(5P15.33) MUTATED" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK  6(5P15.33) WILD-TYPE" "AMP PEAK  6(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK  6(5P15.33) WILD-TYPE"   "AMP PEAK  6(5P15.33) MUTATED" 
[1] "hr=" "1.9"
D6V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  6(5P15.33) MUTATED                    9             1
  AMP PEAK  6(5P15.33) WILD-TYPE                 16             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  6(5P15.33) MUTATED                                                                                          6
  AMP PEAK  6(5P15.33) WILD-TYPE                                                                                       29
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK  6(5P15.33) MUTATED                    32
  AMP PEAK  6(5P15.33) WILD-TYPE                  80
D6V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  6(5P15.33) MUTATED
  DISTANT METASTASIS                                                                                                  9
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            6
  REGIONAL LYMPH NODE                                                                                                32
                                                                                          clus
vv                                                                                         AMP PEAK  6(5P15.33) WILD-TYPE
  DISTANT METASTASIS                                                                                                   16
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             29
  REGIONAL LYMPH NODE                                                                                                  80
D6V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(5P15.33) MUTATED     19   29
  AMP PEAK  6(5P15.33) WILD-TYPE   48   77
        clus
vv       AMP PEAK  6(5P15.33) MUTATED AMP PEAK  6(5P15.33) WILD-TYPE
  FEMALE                           19                             48
  MALE                             29                             77
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK  6(5P15.33) MUTATED    35   1   1   1   1
  AMP PEAK  6(5P15.33) WILD-TYPE 115   1   1   1   1
D6V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  6(5P15.33) MUTATED   26  0   0   3  0   2   5   0  3  1
  AMP PEAK  6(5P15.33) WILD-TYPE 69  2   7  13  1   2   6   5 13  1
D6V6, multiclass
D6V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  6(5P15.33) MUTATED             1       4        2        3        7
  AMP PEAK  6(5P15.33) WILD-TYPE           3      13        8       11       12
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  6(5P15.33) MUTATED           1         1         4         0
  AMP PEAK  6(5P15.33) WILD-TYPE         7         9         4         9
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  6(5P15.33) MUTATED            0          5          6        3
  AMP PEAK  6(5P15.33) WILD-TYPE          6         13         17        3
D6V8, multiclass

Clustering(7) Variable = Amp Peak  7(5q35.3) mutation analysis
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(5Q35.3) MUTATED    8  5
  AMP PEAK  7(5Q35.3) WILD-TYPE 36 45
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                           13                            81 
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                            5                            45 
$`AMP PEAK  7(5Q35.3) MUTATED`
TCGA-D3-A2JF TCGA-D3-A3CF TCGA-DA-A1IA TCGA-EE-A182 TCGA-EE-A20H TCGA-EE-A29H 
       30.87        24.00         4.93         1.35         8.81         4.41 
TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19F TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FW-A3I3 
        8.84         6.48        11.11         6.58         1.71         0.20 
TCGA-FW-A3TU 
        0.13 

$`AMP PEAK  7(5Q35.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       10.26         8.38        21.14        11.41         6.35        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       45.70        13.32         9.30         5.39         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.79        35.80        51.12        10.03        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
        9.99        44.52        36.69        25.15        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       19.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29A 
        1.12        12.20         4.27        36.07         5.13         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N 
       37.97        11.15        38.63         1.08        27.12         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
       12.03         8.12         9.99         2.43         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19J 
       25.28        23.90         9.67         8.94         3.52         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FR-A44A 
       12.99        28.64        42.84        78.44         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
        8.81        53.82         3.22        10.78         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
       15.35        24.85        31.33        84.72        10.09        16.21 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                         0.13                          1.02 
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                        30.87                         98.76 
  AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE 
                         6.48                         12.99 
[1] "0.1 - 30.9 (6.5)"  "1.0 - 98.8 (13.0)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(5Q35.3) WILD-TYPE"   "AMP PEAK  7(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  7(5Q35.3) MUTATED" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK  7(5Q35.3) WILD-TYPE" "AMP PEAK  7(5Q35.3) WILD-TYPE" 
[1] "hr=" "1.7"
D7V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  7(5Q35.3) MUTATED                    7             0
  AMP PEAK  7(5Q35.3) WILD-TYPE                 18             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  7(5Q35.3) MUTATED                                                                                          3
  AMP PEAK  7(5Q35.3) WILD-TYPE                                                                                       32
                               vv
clus                            REGIONAL LYMPH NODE
  AMP PEAK  7(5Q35.3) MUTATED                    12
  AMP PEAK  7(5Q35.3) WILD-TYPE                 100
D7V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  7(5Q35.3) MUTATED
  DISTANT METASTASIS                                                                                                 7
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           3
  REGIONAL LYMPH NODE                                                                                               12
                                                                                          clus
vv                                                                                         AMP PEAK  7(5Q35.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  18
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            32
  REGIONAL LYMPH NODE                                                                                                100
D7V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(5Q35.3) MUTATED     11   11
  AMP PEAK  7(5Q35.3) WILD-TYPE   56   95
        clus
vv       AMP PEAK  7(5Q35.3) MUTATED AMP PEAK  7(5Q35.3) WILD-TYPE
  FEMALE                          11                            56
  MALE                            11                            95
                               vv
clus                             M0  M1 M1A M1B M1C
  AMP PEAK  7(5Q35.3) MUTATED    18   1   1   1   0
  AMP PEAK  7(5Q35.3) WILD-TYPE 132   1   1   1   2
D7V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  7(5Q35.3) MUTATED   13  0   1   3  0   1   0   0  2  1
  AMP PEAK  7(5Q35.3) WILD-TYPE 82  2   6  13  1   3  11   5 14  1
D7V6, multiclass
D7V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  7(5Q35.3) MUTATED             0       3        3        1        2
  AMP PEAK  7(5Q35.3) WILD-TYPE           4      14        7       13       17
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  7(5Q35.3) MUTATED           1         0         0         0
  AMP PEAK  7(5Q35.3) WILD-TYPE         7        10         8         9
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  7(5Q35.3) MUTATED            1          1          3        2
  AMP PEAK  7(5Q35.3) WILD-TYPE          5         17         20        4
D7V8, multiclass

Clustering(8) Variable = Amp Peak  8(6p25.1) mutation analysis
D8V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  8(6P25.1) MUTATED   16 33
  AMP PEAK  8(6P25.1) WILD-TYPE 28 17
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                           49                            45 
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                           33                            17 
$`AMP PEAK  8(6P25.1) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF 
       16.47        98.76        22.55         8.38        21.14        30.87 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1I0 
       15.25        45.70        13.32         5.39        48.79        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IA TCGA-DA-A1IC TCGA-DA-A3F3 
       39.19        13.68         9.99         4.93         6.64         7.00 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20H TCGA-EE-A29A 
        6.31         1.12        12.20         4.27         8.81         7.96 
TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V 
       11.15         1.08        12.03         8.84         9.99         2.43 
TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N 
        9.67         3.52        11.11         4.18        28.64        42.84 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FW-A3I3 
        6.58         1.71         8.81         3.22        10.78         0.20 
TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
        0.13        31.33        10.09        16.21        15.39        12.16 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK  8(6P25.1) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A2JK 
       32.55        70.16        28.08        10.26        11.41         6.35 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         9.30         4.01         2.86        35.80        51.12 
TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F5 
       44.52        36.69        25.15        22.36        19.36        17.56 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
       14.83        11.57         1.35        36.07         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T 
       38.63         4.41        27.12         9.47         8.12         6.48 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19L 
        8.09        11.31        25.28        23.90         8.94        12.99 
TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 
       78.44         5.95        72.16        53.82         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       15.35        24.85        84.72 

  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                         0.13                          1.02 
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                        98.76                         84.72 
  AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE 
                        10.03                         17.56 
[1] "0.1 - 98.8 (10.0)" "1.0 - 84.7 (17.6)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  8(6P25.1) WILD-TYPE" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "AMP PEAK  8(6P25.1) MUTATED" "AMP PEAK  8(6P25.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK  8(6P25.1) WILD-TYPE"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK  8(6P25.1) MUTATED"   "AMP PEAK  8(6P25.1) MUTATED" 
[1] "hr=" "2.7"
D8V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  8(6P25.1) MUTATED                   18             0
  AMP PEAK  8(6P25.1) WILD-TYPE                  7             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  8(6P25.1) MUTATED                                                                                         22
  AMP PEAK  8(6P25.1) WILD-TYPE                                                                                       13
                               vv
clus                            REGIONAL LYMPH NODE
  AMP PEAK  8(6P25.1) MUTATED                    61
  AMP PEAK  8(6P25.1) WILD-TYPE                  51
D8V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  8(6P25.1) MUTATED
  DISTANT METASTASIS                                                                                                18
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          22
  REGIONAL LYMPH NODE                                                                                               61
                                                                                          clus
vv                                                                                         AMP PEAK  8(6P25.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                   7
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            13
  REGIONAL LYMPH NODE                                                                                                 51
D8V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(6P25.1) MUTATED     40   61
  AMP PEAK  8(6P25.1) WILD-TYPE   27   45
        clus
vv       AMP PEAK  8(6P25.1) MUTATED AMP PEAK  8(6P25.1) WILD-TYPE
  FEMALE                          40                            27
  MALE                            61                            45
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK  8(6P25.1) MUTATED   85  2   2   1   1
  AMP PEAK  8(6P25.1) WILD-TYPE 65  0   0   1   1
D8V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  8(6P25.1) MUTATED   55  0   7   8  0   4   5   4  9  0
  AMP PEAK  8(6P25.1) WILD-TYPE 40  2   0   8  1   0   6   1  7  2
D8V6, multiclass
D8V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  8(6P25.1) MUTATED             1      11        6        8       10
  AMP PEAK  8(6P25.1) WILD-TYPE           3       6        4        6        9
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  8(6P25.1) MUTATED           4         6         6         3
  AMP PEAK  8(6P25.1) WILD-TYPE         4         4         2         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  8(6P25.1) MUTATED            6         11         12        4
  AMP PEAK  8(6P25.1) WILD-TYPE          0          7         11        2
D8V8, multiclass

Clustering(9) Variable = Amp Peak  9(6q12) mutation analysis
D9V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  9(6Q12) MUTATED    9 10
  AMP PEAK  9(6Q12) WILD-TYPE 35 40
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                         19                          75 
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                         10                          40 
$`AMP PEAK  9(6Q12) MUTATED`
TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A3CC TCGA-DA-A1HV 
       98.76         8.38        21.14        30.87        45.70        48.79 
TCGA-DA-A1I1 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B TCGA-ER-A19D TCGA-ER-A19M 
       39.19         1.12        12.20        36.07         3.52        28.64 
TCGA-ER-A19N TCGA-ER-A3ET TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
       42.84         6.58         0.13        31.33        10.09        16.21 
TCGA-GN-A268 
       15.39 

$`AMP PEAK  9(6Q12) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        70.16        28.08        22.55        10.26 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       11.41         6.35        15.25        13.32        24.00         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        5.39         4.01         2.86        35.80        51.12        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA 
       13.68         9.99        44.52        36.69        25.15         4.93 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       22.36         6.64        19.36         7.00        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H 
       11.57         6.31         1.35         4.27         5.13         8.81 
TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        7.96        37.97        11.15        38.63         4.41         1.08 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
       27.12         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        6.48         2.43         8.09        11.31        25.28        23.90 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 
        9.67         8.94        11.11         4.18        12.99        78.44 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 
        1.71         5.95        72.16         8.81        53.82         3.22 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       10.78         6.41         0.20         1.02        15.35        24.85 
TCGA-GN-A265 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        12.16        14.70 

  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                       0.13                        0.20 
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                      98.76                       84.72 
  AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE 
                      21.14                       11.11 
[1] "0.1 - 98.8 (21.1)" "0.2 - 84.7 (11.1)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "AMP PEAK  9(6Q12) MUTATED" "AMP PEAK  9(6Q12) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK  9(6Q12) WILD-TYPE"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK  9(6Q12) MUTATED"   "AMP PEAK  9(6Q12) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK  9(6Q12) WILD-TYPE" "AMP PEAK  9(6Q12) WILD-TYPE" 
[1] "hr=" "1.5"
D9V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK  9(6Q12) MUTATED                    4             0
  AMP PEAK  9(6Q12) WILD-TYPE                 21             1
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK  9(6Q12) MUTATED                                                                                         10
  AMP PEAK  9(6Q12) WILD-TYPE                                                                                       25
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK  9(6Q12) MUTATED                    23
  AMP PEAK  9(6Q12) WILD-TYPE                  89
D9V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK  9(6Q12) MUTATED
  DISTANT METASTASIS                                                                                               4
  PRIMARY TUMOR                                                                                                    0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        10
  REGIONAL LYMPH NODE                                                                                             23
                                                                                          clus
vv                                                                                         AMP PEAK  9(6Q12) WILD-TYPE
  DISTANT METASTASIS                                                                                                21
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          25
  REGIONAL LYMPH NODE                                                                                               89
D9V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  9(6Q12) MUTATED     13   24
  AMP PEAK  9(6Q12) WILD-TYPE   54   82
        clus
vv       AMP PEAK  9(6Q12) MUTATED AMP PEAK  9(6Q12) WILD-TYPE
  FEMALE                        13                          54
  MALE                          24                          82
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK  9(6Q12) MUTATED    31   0   0   0   0
  AMP PEAK  9(6Q12) WILD-TYPE 119   2   2   2   2
D9V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  9(6Q12) MUTATED   21  0   4   1  0   1   1   1  2  0
  AMP PEAK  9(6Q12) WILD-TYPE 74  2   3  15  1   3  10   4 14  2
D9V6, multiclass
D9V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  9(6Q12) MUTATED             0       4        4        5        3
  AMP PEAK  9(6Q12) WILD-TYPE           4      13        6        9       16
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  9(6Q12) MUTATED           2         2         1         0
  AMP PEAK  9(6Q12) WILD-TYPE         6         8         7         9
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  9(6Q12) MUTATED            3          3          2        0
  AMP PEAK  9(6Q12) WILD-TYPE          3         15         21        6
D9V8, multiclass

Clustering(10) Variable = Amp Peak 10(7p22.3) mutation analysis
D10V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 10(7P22.3) MUTATED   18 31
  AMP PEAK 10(7P22.3) WILD-TYPE 26 19
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                           49                            45 
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                           31                            19 
$`AMP PEAK 10(7P22.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        32.55        70.16        22.55        21.14        11.41 
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       45.70         9.30         2.86        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 
       10.03        13.68         9.99        44.52        36.69        25.15 
TCGA-DA-A1IA TCGA-DA-A1IC TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A20H TCGA-EE-A29A 
        4.93         6.64         6.31         1.12         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       37.97        11.15        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-ER-A19J 
       12.03         8.12         6.48        11.31         8.94         4.18 
TCGA-ER-A19M TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F2 
       28.64         1.71         5.95        72.16         8.81         3.22 
TCGA-FW-A3I3 TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
        0.20        31.33        10.09        16.21        15.39        12.16 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK 10(7P22.3) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2JF TCGA-D3-A2JK 
       98.76        28.08        10.26         8.38        30.87         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1I1 
       15.25        13.32        24.00         5.39         4.01        39.19 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       22.36        19.36         7.00        17.56        14.83        11.57 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29M 
        1.35        12.20         4.27        36.07         5.13        27.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         2.43         8.09        25.28        23.90 
TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 
        9.67         3.52        11.11        12.99        42.84        78.44 
TCGA-ER-A3ET TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU 
        6.58        53.82        10.78         6.41         1.02         0.13 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       15.35        24.85        84.72 

  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                         0.20                          0.13 
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                        72.16                         98.76 
  AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE 
                        11.31                         12.20 
[1] "0.2 - 72.2 (11.3)" "0.1 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 10(7P22.3) MUTATED" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 10(7P22.3) WILD-TYPE" "AMP PEAK 10(7P22.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 10(7P22.3) WILD-TYPE"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "AMP PEAK 10(7P22.3) MUTATED"   "AMP PEAK 10(7P22.3) MUTATED" 
[1] "hr=" "1.5"
D10V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 10(7P22.3) MUTATED                   14             0
  AMP PEAK 10(7P22.3) WILD-TYPE                 11             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 10(7P22.3) MUTATED                                                                                         21
  AMP PEAK 10(7P22.3) WILD-TYPE                                                                                       14
                               vv
clus                            REGIONAL LYMPH NODE
  AMP PEAK 10(7P22.3) MUTATED                    61
  AMP PEAK 10(7P22.3) WILD-TYPE                  51
D10V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 10(7P22.3) MUTATED
  DISTANT METASTASIS                                                                                                14
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          21
  REGIONAL LYMPH NODE                                                                                               61
                                                                                          clus
vv                                                                                         AMP PEAK 10(7P22.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  11
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            14
  REGIONAL LYMPH NODE                                                                                                 51
D10V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(7P22.3) MUTATED     34   62
  AMP PEAK 10(7P22.3) WILD-TYPE   33   44
        clus
vv       AMP PEAK 10(7P22.3) MUTATED AMP PEAK 10(7P22.3) WILD-TYPE
  FEMALE                          34                            33
  MALE                            62                            44
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK 10(7P22.3) MUTATED   80  2   2   1   2
  AMP PEAK 10(7P22.3) WILD-TYPE 70  0   0   1   0
D10V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 10(7P22.3) MUTATED   53  0   5  10  0   2   4   4  8  2
  AMP PEAK 10(7P22.3) WILD-TYPE 42  2   2   6  1   2   7   1  8  0
D10V6, multiclass
D10V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 10(7P22.3) MUTATED             4      10        6        4       10
  AMP PEAK 10(7P22.3) WILD-TYPE           0       7        4       10        9
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 10(7P22.3) MUTATED           4         5         6         3
  AMP PEAK 10(7P22.3) WILD-TYPE         4         5         2         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 10(7P22.3) MUTATED            5         11         10        5
  AMP PEAK 10(7P22.3) WILD-TYPE          1          7         13        1
D10V8, multiclass

Clustering(11) Variable = Amp Peak 11(7q34) mutation analysis
D11V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 11(7Q34) MUTATED   24 32
  AMP PEAK 11(7Q34) WILD-TYPE 20 18
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                         56                          38 
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                         32                          18 
$`AMP PEAK 11(7Q34) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        32.55        70.16        22.55        21.14        11.41 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HV 
       45.70        13.32         9.30         5.39         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 
       35.80        51.12        10.03        13.68         9.99        44.52 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IC TCGA-DA-A3F5 TCGA-DA-A3F8 
       36.69        25.15         4.93         6.64        17.56        14.83 
TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A 
        1.12         1.35        12.20        36.07         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N 
       37.97        38.63         4.41         1.08        27.12         9.47 
TCGA-EE-A29P TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19M 
       12.03         6.48        11.31         8.94         4.18        28.64 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F2 
        6.58         1.71         5.95        72.16         8.81         3.22 
TCGA-FW-A3I3 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
        0.20        31.33        84.72        10.09        16.21        15.39 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

$`AMP PEAK 11(7Q34) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2JF TCGA-D3-A2JK 
       98.76        28.08        10.26         8.38        30.87         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1I1 TCGA-DA-A1IB TCGA-DA-A3F2 
       15.25        24.00         4.01        39.19        22.36        19.36 
TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29D 
        7.00        11.57         6.31         4.27         5.13        11.15 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A1 
        8.12         8.84         9.99         2.43         8.09        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19N 
       23.90         9.67         3.52        11.11        12.99        42.84 
TCGA-ER-A1A1 TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU 
       78.44        53.82        10.78         6.41         1.02         0.13 
TCGA-GN-A261 TCGA-GN-A262 
       15.35        24.85 

  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                       0.20                        0.13 
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                      84.72                       98.76 
  AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE 
                     12.180                      10.945 
[1] "0.2 - 84.7 (12.2)" "0.1 - 98.8 (10.9)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "AMP PEAK 11(7Q34) MUTATED" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 11(7Q34) WILD-TYPE" "AMP PEAK 11(7Q34) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"AMP PEAK 11(7Q34) WILD-TYPE"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "AMP PEAK 11(7Q34) MUTATED"   "AMP PEAK 11(7Q34) MUTATED" 
[1] "hr=" "1.1"
D11V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 11(7Q34) MUTATED                   13             1
  AMP PEAK 11(7Q34) WILD-TYPE                 12             0
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 11(7Q34) MUTATED                                                                                         23
  AMP PEAK 11(7Q34) WILD-TYPE                                                                                       12
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK 11(7Q34) MUTATED                    62
  AMP PEAK 11(7Q34) WILD-TYPE                  50
D11V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 11(7Q34) MUTATED
  DISTANT METASTASIS                                                                                              13
  PRIMARY TUMOR                                                                                                    1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        23
  REGIONAL LYMPH NODE                                                                                             62
                                                                                          clus
vv                                                                                         AMP PEAK 11(7Q34) WILD-TYPE
  DISTANT METASTASIS                                                                                                12
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          12
  REGIONAL LYMPH NODE                                                                                               50
D11V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 11(7Q34) MUTATED     41   58
  AMP PEAK 11(7Q34) WILD-TYPE   26   48
        clus
vv       AMP PEAK 11(7Q34) MUTATED AMP PEAK 11(7Q34) WILD-TYPE
  FEMALE                        41                          26
  MALE                          58                          48
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK 11(7Q34) MUTATED   84  2   2   1   2
  AMP PEAK 11(7Q34) WILD-TYPE 66  0   0   1   0
D11V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 11(7Q34) MUTATED   49  1   6  11  0   4   6   4  9  2
  AMP PEAK 11(7Q34) WILD-TYPE 46  1   1   5  1   0   5   1  7  0
D11V6, multiclass
D11V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 11(7Q34) MUTATED             4       7        6        4       12
  AMP PEAK 11(7Q34) WILD-TYPE           0      10        4       10        7
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 11(7Q34) MUTATED           4         2         6         5
  AMP PEAK 11(7Q34) WILD-TYPE         4         8         2         4
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 11(7Q34) MUTATED            6         13         12        5
  AMP PEAK 11(7Q34) WILD-TYPE          0          5         11        1
D11V8, multiclass

Clustering(12) Variable = Amp Peak 12(8q11.21) mutation analysis
D12V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 12(8Q11.21) MUTATED   17 20
  AMP PEAK 12(8Q11.21) WILD-TYPE 27 30
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                            37                             57 
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                            20                             30 
$`AMP PEAK 12(8Q11.21) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3C6 TCGA-D3-A3CC 
       16.47        70.16        10.26        30.87        15.25        45.70 
TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 
       13.32         5.39        35.80        51.12        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A29C 
        9.99        17.56         6.31         1.12        36.07        37.97 
TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A5 TCGA-ER-A19J 
       38.63         8.84         6.48         2.43         9.67         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1ZR 
       12.99        28.64        42.84         6.58        72.16         8.81 
TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
        3.22         0.20        31.33        84.72        16.21        12.16 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK 12(8Q11.21) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 
       32.55        98.76        28.08        22.55         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       11.41         6.35        24.00         9.30         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA 
       48.79        10.03        44.52        36.69        25.15         4.93 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       22.36         6.64        19.36         7.00        14.83        11.57 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
        1.35        12.20         4.27         5.13         8.81         7.96 
TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P 
       11.15         4.41         1.08        27.12         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.12         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN 
        8.94         3.52        11.11        78.44         1.71         5.95 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 
       53.82        10.78         6.41         1.02         0.13        15.35 
TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A268 
       24.85        10.09        15.39 

  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                          0.20                           0.13 
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE 
                         14.70                          10.78 
[1] "0.2 - 84.7 (14.7)" "0.1 - 98.8 (10.8)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 12(8Q11.21) WILD-TYPE" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 12(8Q11.21) WILD-TYPE"   "AMP PEAK 12(8Q11.21) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 12(8Q11.21) MUTATED" "AMP PEAK 12(8Q11.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 12(8Q11.21) MUTATED"   "AMP PEAK 12(8Q11.21) MUTATED" 
[1] "hr=" "1.3"
D12V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 12(8Q11.21) MUTATED                   11             0
  AMP PEAK 12(8Q11.21) WILD-TYPE                 14             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 12(8Q11.21) MUTATED                                                                                         18
  AMP PEAK 12(8Q11.21) WILD-TYPE                                                                                       17
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 12(8Q11.21) MUTATED                    41
  AMP PEAK 12(8Q11.21) WILD-TYPE                  71
D12V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 12(8Q11.21) MUTATED
  DISTANT METASTASIS                                                                                                 11
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           18
  REGIONAL LYMPH NODE                                                                                                41
                                                                                          clus
vv                                                                                         AMP PEAK 12(8Q11.21) WILD-TYPE
  DISTANT METASTASIS                                                                                                   14
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             17
  REGIONAL LYMPH NODE                                                                                                  71
D12V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 12(8Q11.21) MUTATED     26   44
  AMP PEAK 12(8Q11.21) WILD-TYPE   41   62
        clus
vv       AMP PEAK 12(8Q11.21) MUTATED AMP PEAK 12(8Q11.21) WILD-TYPE
  FEMALE                           26                             41
  MALE                             44                             62
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 12(8Q11.21) MUTATED   60  2   0   0   0
  AMP PEAK 12(8Q11.21) WILD-TYPE 90  0   2   2   2
D12V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 12(8Q11.21) MUTATED   39  1   4   8  0   1   3   1  5  1
  AMP PEAK 12(8Q11.21) WILD-TYPE 56  1   3   8  1   3   8   4 11  1
D12V6, multiclass
D12V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 12(8Q11.21) MUTATED             2       7        3        4       10
  AMP PEAK 12(8Q11.21) WILD-TYPE           2      10        7       10        9
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 12(8Q11.21) MUTATED           3         4         5         6
  AMP PEAK 12(8Q11.21) WILD-TYPE         5         6         3         3
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 12(8Q11.21) MUTATED            3          5          8        2
  AMP PEAK 12(8Q11.21) WILD-TYPE          3         13         15        4
D12V8, multiclass

Clustering(13) Variable = Amp Peak 13(8q24.21) mutation analysis
D13V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 13(8Q24.21) MUTATED   18 24
  AMP PEAK 13(8Q24.21) WILD-TYPE 26 26
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                            42                             52 
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                            24                             26 
$`AMP PEAK 13(8Q24.21) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3C6 
       16.47        70.16        22.55        10.26        30.87        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HW TCGA-DA-A1HY 
       45.70        13.32         9.30         5.39        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F3 TCGA-DA-A3F5 
       10.03        39.19        13.68         9.99         7.00        17.56 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
        6.31         1.12        36.07        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A5 
        1.08         8.84         9.99         6.48         2.43         9.67 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-FR-A44A 
        4.18        12.99        28.64        42.84         6.58        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
        8.81         3.22         0.20        16.21        12.16        14.70 

$`AMP PEAK 13(8Q24.21) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I5 
        6.35        24.00         4.01         2.86        48.79        44.52 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       36.69        25.15         4.93        22.36         6.64        19.36 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       14.83        11.57         1.35        12.20         4.27         5.13 
TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P 
        8.81         7.96        11.15        27.12         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        8.12         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A4F0 
        3.52        11.11        78.44         1.71         5.95        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 
       10.78         6.41         1.02         0.13        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       31.33        84.72        10.09        15.39 

  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                          0.20                           0.13 
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                         72.16                          98.76 
  AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE 
                        12.575                         11.360 
[1] "0.2 - 72.2 (12.6)" "0.1 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 13(8Q24.21) WILD-TYPE"   "AMP PEAK 13(8Q24.21) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 13(8Q24.21) WILD-TYPE" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 13(8Q24.21) MUTATED" "AMP PEAK 13(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 13(8Q24.21) MUTATED"   "AMP PEAK 13(8Q24.21) MUTATED" 
[1] "hr=" "1.1"
D13V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 13(8Q24.21) MUTATED                   12             0
  AMP PEAK 13(8Q24.21) WILD-TYPE                 13             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 13(8Q24.21) MUTATED                                                                                         20
  AMP PEAK 13(8Q24.21) WILD-TYPE                                                                                       15
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 13(8Q24.21) MUTATED                    50
  AMP PEAK 13(8Q24.21) WILD-TYPE                  62
D13V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 13(8Q24.21) MUTATED
  DISTANT METASTASIS                                                                                                 12
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           20
  REGIONAL LYMPH NODE                                                                                                50
                                                                                          clus
vv                                                                                         AMP PEAK 13(8Q24.21) WILD-TYPE
  DISTANT METASTASIS                                                                                                   13
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             15
  REGIONAL LYMPH NODE                                                                                                  62
D13V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(8Q24.21) MUTATED     30   52
  AMP PEAK 13(8Q24.21) WILD-TYPE   37   54
        clus
vv       AMP PEAK 13(8Q24.21) MUTATED AMP PEAK 13(8Q24.21) WILD-TYPE
  FEMALE                           30                             37
  MALE                             52                             54
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 13(8Q24.21) MUTATED   73  2   1   0   0
  AMP PEAK 13(8Q24.21) WILD-TYPE 77  0   1   2   2
D13V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 13(8Q24.21) MUTATED   46  1   4   9  0   3   4   2  7  1
  AMP PEAK 13(8Q24.21) WILD-TYPE 49  1   3   7  1   1   7   3  9  1
D13V6, multiclass
D13V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 13(8Q24.21) MUTATED             2       8        4        6       11
  AMP PEAK 13(8Q24.21) WILD-TYPE           2       9        6        8        8
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 13(8Q24.21) MUTATED           5         4         5         7
  AMP PEAK 13(8Q24.21) WILD-TYPE         3         6         3         2
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 13(8Q24.21) MUTATED            3          8         10        2
  AMP PEAK 13(8Q24.21) WILD-TYPE          3         10         13        4
D13V8, multiclass

Clustering(14) Variable = Amp Peak 14(9p24.1) mutation analysis
D14V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 14(9P24.1) MUTATED    4  4
  AMP PEAK 14(9P24.1) WILD-TYPE 40 46
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                            8                            86 
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                            4                            46 
$`AMP PEAK 14(9P24.1) MUTATED`
TCGA-D3-A1Q9 TCGA-DA-A1I5 TCGA-DA-A3F3 TCGA-EE-A29A TCGA-ER-A19M TCGA-ER-A3ET 
       22.55        44.52         7.00         7.96        28.64         6.58 
TCGA-FW-A3I3 TCGA-GN-A262 
        0.20        24.85 

$`AMP PEAK 14(9P24.1) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 
        8.38        21.14        11.41        30.87         6.35        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 
       45.70        13.32        24.00         9.30         5.39         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        2.86        48.79        35.80        51.12        10.03        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB 
       13.68         9.99        36.69        25.15         4.93        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
        6.64        19.36        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        1.12         1.35        12.20         4.27        36.07         5.13 
TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        8.81        37.97        11.15        38.63         4.41         1.08 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
       27.12         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        6.48         2.43         8.09        11.31        25.28        23.90 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
        9.67         8.94         3.52        11.11         4.18        12.99 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       42.84        78.44         1.71         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU 
       53.82         3.22        10.78         6.41         1.02         0.13 
TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       15.35        31.33        84.72        10.09        16.21        15.39 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                         0.20                          0.13 
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                        44.52                         98.76 
  AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE 
                       15.255                        11.490 
[1] "0.2 - 44.5 (15.3)" "0.1 - 98.8 (11.5)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 14(9P24.1) WILD-TYPE"   "AMP PEAK 14(9P24.1) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "AMP PEAK 14(9P24.1) MUTATED" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"AMP PEAK 14(9P24.1) WILD-TYPE" "AMP PEAK 14(9P24.1) WILD-TYPE" 
[1] "hr=" "1"  
D14V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 14(9P24.1) MUTATED                    5             0
  AMP PEAK 14(9P24.1) WILD-TYPE                 20             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 14(9P24.1) MUTATED                                                                                          3
  AMP PEAK 14(9P24.1) WILD-TYPE                                                                                       32
                               vv
clus                            REGIONAL LYMPH NODE
  AMP PEAK 14(9P24.1) MUTATED                     5
  AMP PEAK 14(9P24.1) WILD-TYPE                 107
D14V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 14(9P24.1) MUTATED
  DISTANT METASTASIS                                                                                                 5
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           3
  REGIONAL LYMPH NODE                                                                                                5
                                                                                          clus
vv                                                                                         AMP PEAK 14(9P24.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                  20
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            32
  REGIONAL LYMPH NODE                                                                                                107
D14V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 14(9P24.1) MUTATED      6    7
  AMP PEAK 14(9P24.1) WILD-TYPE   61   99
        clus
vv       AMP PEAK 14(9P24.1) MUTATED AMP PEAK 14(9P24.1) WILD-TYPE
  FEMALE                           6                            61
  MALE                             7                            99
                               vv
clus                             M0  M1 M1A M1B M1C
  AMP PEAK 14(9P24.1) MUTATED    10   1   0   0   1
  AMP PEAK 14(9P24.1) WILD-TYPE 140   1   2   2   1
D14V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 14(9P24.1) MUTATED    8  0   2   0  0   1   1   0  0  0
  AMP PEAK 14(9P24.1) WILD-TYPE 87  2   5  16  1   3  10   5 16  2
D14V6, multiclass
D14V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 14(9P24.1) MUTATED             0       2        2        1        1
  AMP PEAK 14(9P24.1) WILD-TYPE           4      15        8       13       18
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 14(9P24.1) MUTATED           0         0         0         0
  AMP PEAK 14(9P24.1) WILD-TYPE         8        10         8         9
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 14(9P24.1) MUTATED            2          2          0        2
  AMP PEAK 14(9P24.1) WILD-TYPE          4         16         23        4
D14V8, multiclass

Clustering(15) Variable = Amp Peak 15(11q13.3) mutation analysis
D15V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 15(11Q13.3) MUTATED    6  9
  AMP PEAK 15(11Q13.3) WILD-TYPE 38 41
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            15                             79 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                             9                             41 
$`AMP PEAK 15(11Q13.3) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 
       22.55        10.26        30.87        13.32        24.00         2.86 
TCGA-DA-A3F3 TCGA-EE-A20F TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-FS-A4F2 
        7.00         5.13        28.64        42.84         6.58         3.22 
TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26D 
       10.09        15.39        14.70 

$`AMP PEAK 15(11Q13.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        28.08         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3MO 
       21.14        11.41         6.35        15.25        45.70         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        5.39         4.01        48.79        35.80        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 
       39.19        13.68         9.99        44.52        36.69        25.15 
TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
        4.93        22.36         6.64        19.36        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
       11.57         6.31         1.12         1.35        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       36.07         8.81         7.96        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
        4.41         1.08        27.12         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
        8.84         9.99         6.48         2.43         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
       25.28        23.90         9.67         8.94         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
        4.18        12.99        78.44         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 
        8.81        53.82        10.78         6.41         0.20         1.02 
TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
        0.13        15.35        24.85        31.33        84.72        16.21 
TCGA-GN-A26A 
       12.16 

  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                          2.86                           0.13 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                         42.84                          98.76 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                         13.32                          11.41 
[1] "2.9 - 42.8 (13.3)" "0.1 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
[1] "hr=" "1.2"
D15V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 15(11Q13.3) MUTATED                    6             0
  AMP PEAK 15(11Q13.3) WILD-TYPE                 19             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 15(11Q13.3) MUTATED                                                                                          4
  AMP PEAK 15(11Q13.3) WILD-TYPE                                                                                       31
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 15(11Q13.3) MUTATED                    19
  AMP PEAK 15(11Q13.3) WILD-TYPE                  93
D15V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 15(11Q13.3) MUTATED
  DISTANT METASTASIS                                                                                                  6
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            4
  REGIONAL LYMPH NODE                                                                                                19
                                                                                          clus
vv                                                                                         AMP PEAK 15(11Q13.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   19
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             31
  REGIONAL LYMPH NODE                                                                                                  93
D15V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(11Q13.3) MUTATED      8   21
  AMP PEAK 15(11Q13.3) WILD-TYPE   59   85
        clus
vv       AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE
  FEMALE                            8                             59
  MALE                             21                             85
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 15(11Q13.3) MUTATED    26   0   0   0   0
  AMP PEAK 15(11Q13.3) WILD-TYPE 124   2   2   2   2
D15V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 15(11Q13.3) MUTATED   18  0   3   3  0   1   1   0  1  0
  AMP PEAK 15(11Q13.3) WILD-TYPE 77  2   4  13  1   3  10   5 15  2
D15V6, multiclass
D15V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 15(11Q13.3) MUTATED             1       4        1        2        5
  AMP PEAK 15(11Q13.3) WILD-TYPE           3      13        9       12       14
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 15(11Q13.3) MUTATED           1         2         2         2
  AMP PEAK 15(11Q13.3) WILD-TYPE         7         8         6         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 15(11Q13.3) MUTATED            2          4          1        0
  AMP PEAK 15(11Q13.3) WILD-TYPE          4         14         22        6
D15V8, multiclass

Clustering(16) Variable = Amp Peak 16(11q13.4) mutation analysis
D16V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 16(11Q13.4) MUTATED    6  8
  AMP PEAK 16(11Q13.4) WILD-TYPE 38 42
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                            14                             80 
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                             8                             42 
$`AMP PEAK 16(11Q13.4) MUTATED`
TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-ER-A19L 
       10.26        30.87        13.32        24.00         2.86        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FS-A4F2 TCGA-GN-A266 
       28.64        42.84         6.58         1.71         3.22        10.09 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

$`AMP PEAK 16(11Q13.4) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
        8.38        21.14        11.41         6.35        15.25        45.70 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        9.30         5.39         4.01        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       10.03        39.19        13.68         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       25.15         4.93        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 
       17.56        14.83        11.57         6.31         1.12         1.35 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
       12.20         4.27        36.07         5.13         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
       37.97        11.15        38.63         4.41         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
        9.47        12.03         8.12         8.84         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        2.43         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A1A1 TCGA-FR-A3YN 
        8.94         3.52        11.11         4.18        78.44         5.95 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 
       72.16         8.81        53.82        10.78         6.41         0.20 
TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
        1.02         0.13        15.35        24.85        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                          1.71                           0.13 
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                         42.84                          98.76 
  AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE 
                        13.155                         11.360 
[1] "1.7 - 42.8 (13.2)" "0.1 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(11Q13.4) MUTATED"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(11Q13.4) MUTATED" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 16(11Q13.4) WILD-TYPE" "AMP PEAK 16(11Q13.4) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 16(11Q13.4) WILD-TYPE"   "AMP PEAK 16(11Q13.4) MUTATED" 
[1] "hr=" "1.1"
D16V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 16(11Q13.4) MUTATED                    6             0
  AMP PEAK 16(11Q13.4) WILD-TYPE                 19             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 16(11Q13.4) MUTATED                                                                                          4
  AMP PEAK 16(11Q13.4) WILD-TYPE                                                                                       31
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 16(11Q13.4) MUTATED                    18
  AMP PEAK 16(11Q13.4) WILD-TYPE                  94
D16V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 16(11Q13.4) MUTATED
  DISTANT METASTASIS                                                                                                  6
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            4
  REGIONAL LYMPH NODE                                                                                                18
                                                                                          clus
vv                                                                                         AMP PEAK 16(11Q13.4) WILD-TYPE
  DISTANT METASTASIS                                                                                                   19
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             31
  REGIONAL LYMPH NODE                                                                                                  94
D16V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.4) MUTATED      8   20
  AMP PEAK 16(11Q13.4) WILD-TYPE   59   86
        clus
vv       AMP PEAK 16(11Q13.4) MUTATED AMP PEAK 16(11Q13.4) WILD-TYPE
  FEMALE                            8                             59
  MALE                             20                             86
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 16(11Q13.4) MUTATED    23   0   1   0   0
  AMP PEAK 16(11Q13.4) WILD-TYPE 127   2   1   2   2
D16V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 16(11Q13.4) MUTATED   18  0   3   3  0   0   0   0  1  0
  AMP PEAK 16(11Q13.4) WILD-TYPE 77  2   4  13  1   4  11   5 15  2
D16V6, multiclass
D16V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 16(11Q13.4) MUTATED             1       4        1        2        3
  AMP PEAK 16(11Q13.4) WILD-TYPE           3      13        9       12       16
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 16(11Q13.4) MUTATED           1         3         2         2
  AMP PEAK 16(11Q13.4) WILD-TYPE         7         7         6         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 16(11Q13.4) MUTATED            2          2          1        1
  AMP PEAK 16(11Q13.4) WILD-TYPE          4         16         22        5
D16V8, multiclass

Clustering(17) Variable = Amp Peak 17(12q14.1) mutation analysis
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(12Q14.1) MUTATED    8 14
  AMP PEAK 17(12Q14.1) WILD-TYPE 36 36
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                            22                             72 
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                            14                             36 
$`AMP PEAK 17(12Q14.1) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3C6 TCGA-D3-A3CC 
       16.47        70.16        22.55        10.26        15.25        45.70 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A3F5 TCGA-EE-A17Z 
       24.00         5.39        48.79        35.80        17.56         6.31 
TCGA-EE-A29D TCGA-EE-A2A6 TCGA-ER-A19M TCGA-ER-A3ET TCGA-ER-A3PL TCGA-GN-A264 
       11.15         8.94        28.64         6.58         1.71        31.33 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

$`AMP PEAK 17(12Q14.1) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       30.87         6.35        13.32         9.30         4.01         2.86 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 
       51.12        10.03        39.19        13.68         9.99        44.52 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       36.69        25.15         4.93        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 
        7.00        14.83        11.57         1.12         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C 
        4.27        36.07         5.13         8.81         7.96        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P 
       38.63         4.41         1.08        27.12         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X 
        8.12         8.84         9.99         6.48         2.43         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F 
       11.31        25.28        23.90         9.67         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FR-A44A 
        4.18        12.99        42.84        78.44         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 
        8.81        53.82         3.22        10.78         6.41         0.20 
TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 
        1.02         0.13        15.35        24.85        84.72        10.09 

  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                          1.71                           0.13 
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                         70.16                          98.76 
  AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE 
                        15.800                         10.435 
[1] "1.7 - 70.2 (15.8)" "0.1 - 98.8 (10.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(12Q14.1) MUTATED" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 17(12Q14.1) WILD-TYPE"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 17(12Q14.1) WILD-TYPE" "AMP PEAK 17(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 17(12Q14.1) MUTATED"   "AMP PEAK 17(12Q14.1) MUTATED" 
[1] "hr=" "1"  
D17V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 17(12Q14.1) MUTATED                    3             0
  AMP PEAK 17(12Q14.1) WILD-TYPE                 22             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 17(12Q14.1) MUTATED                                                                                          7
  AMP PEAK 17(12Q14.1) WILD-TYPE                                                                                       28
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 17(12Q14.1) MUTATED                    20
  AMP PEAK 17(12Q14.1) WILD-TYPE                  92
D17V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 17(12Q14.1) MUTATED
  DISTANT METASTASIS                                                                                                  3
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            7
  REGIONAL LYMPH NODE                                                                                                20
                                                                                          clus
vv                                                                                         AMP PEAK 17(12Q14.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                   22
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             28
  REGIONAL LYMPH NODE                                                                                                  92
D17V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(12Q14.1) MUTATED     12   18
  AMP PEAK 17(12Q14.1) WILD-TYPE   55   88
        clus
vv       AMP PEAK 17(12Q14.1) MUTATED AMP PEAK 17(12Q14.1) WILD-TYPE
  FEMALE                           12                             55
  MALE                             18                             88
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 17(12Q14.1) MUTATED    27   0   1   0   0
  AMP PEAK 17(12Q14.1) WILD-TYPE 123   2   1   2   2
D17V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 17(12Q14.1) MUTATED   15  0   4   3  0   2   1   1  3  0
  AMP PEAK 17(12Q14.1) WILD-TYPE 80  2   3  13  1   2  10   4 13  2
D17V6, multiclass
D17V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 17(12Q14.1) MUTATED             0       2        1        2        2
  AMP PEAK 17(12Q14.1) WILD-TYPE           4      15        9       12       17
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 17(12Q14.1) MUTATED           0         3         4         2
  AMP PEAK 17(12Q14.1) WILD-TYPE         8         7         4         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 17(12Q14.1) MUTATED            4          4          4        1
  AMP PEAK 17(12Q14.1) WILD-TYPE          2         14         19        5
D17V8, multiclass

Clustering(18) Variable = Amp Peak 18(12q15) mutation analysis
D18V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 18(12Q15) MUTATED    7 10
  AMP PEAK 18(12Q15) WILD-TYPE 37 40
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          17                           77 
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          10                           40 
$`AMP PEAK 18(12Q15) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF 
       16.47        70.16        22.55        15.25        45.70        24.00 
TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A3F5 TCGA-EE-A29D TCGA-EE-A2A6 
        5.39        48.79        35.80        17.56        11.15         8.94 
TCGA-ER-A3ET TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
        6.58        16.21        15.39        12.16        14.70 

$`AMP PEAK 18(12Q15) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
       32.55        98.76        28.08        10.26         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A3Z1 
       11.41        30.87         6.35        13.32         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
        2.86        51.12        10.03        39.19        13.68         9.99 
TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC 
       44.52        36.69        25.15         4.93        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       19.36         7.00        14.83        11.57         6.31         1.12 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H 
        1.35        12.20         4.27        36.07         5.13         8.81 
TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
        7.96        37.97        38.63         4.41         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
        9.47        12.03         8.12         8.84         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        2.43         8.09        11.31        25.28        23.90         9.67 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        3.52        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
       78.44         1.71         5.95        72.16         8.81        53.82 
TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU 
        3.22        10.78         6.41         0.20         1.02         0.13 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
       15.35        24.85        31.33        84.72        10.09 

  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                        5.39                         0.13 
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                       70.16                        98.76 
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                       16.21                        10.26 
[1] "5.4 - 70.2 (16.2)" "0.1 - 98.8 (10.3)"
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A267                   TCGA-GN-A268 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A267                   TCGA-GN-A268 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "AMP PEAK 18(12Q15) MUTATED" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"AMP PEAK 18(12Q15) WILD-TYPE"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"AMP PEAK 18(12Q15) WILD-TYPE" "AMP PEAK 18(12Q15) WILD-TYPE" 
                  TCGA-GN-A267                   TCGA-GN-A268 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
  "AMP PEAK 18(12Q15) MUTATED"   "AMP PEAK 18(12Q15) MUTATED" 
[1] "hr=" "1.2"
D18V2, continuous
                              vv
clus                           DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 18(12Q15) MUTATED                    2             0
  AMP PEAK 18(12Q15) WILD-TYPE                 23             1
                              vv
clus                           REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 18(12Q15) MUTATED                                                                                          6
  AMP PEAK 18(12Q15) WILD-TYPE                                                                                       29
                              vv
clus                           REGIONAL LYMPH NODE
  AMP PEAK 18(12Q15) MUTATED                    16
  AMP PEAK 18(12Q15) WILD-TYPE                  96
D18V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 18(12Q15) MUTATED
  DISTANT METASTASIS                                                                                                2
  PRIMARY TUMOR                                                                                                     0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          6
  REGIONAL LYMPH NODE                                                                                              16
                                                                                          clus
vv                                                                                         AMP PEAK 18(12Q15) WILD-TYPE
  DISTANT METASTASIS                                                                                                 23
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           29
  REGIONAL LYMPH NODE                                                                                                96
D18V4, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 18(12Q15) MUTATED     11   13
  AMP PEAK 18(12Q15) WILD-TYPE   56   93
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  FEMALE                         11                           56
  MALE                           13                           93
                              vv
clus                            M0  M1 M1A M1B M1C
  AMP PEAK 18(12Q15) MUTATED    23   0   0   0   0
  AMP PEAK 18(12Q15) WILD-TYPE 127   2   2   2   2
D18V5, multiclass
                              vv
clus                           N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 18(12Q15) MUTATED   10  0   4   3  0   2   1   1  3  0
  AMP PEAK 18(12Q15) WILD-TYPE 85  2   3  13  1   2  10   4 13  2
D18V6, multiclass
D18V7, continuous
                              vv
clus                           I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 18(12Q15) MUTATED             1       2        1        1        2
  AMP PEAK 18(12Q15) WILD-TYPE           3      15        9       13       17
                              vv
clus                           STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 18(12Q15) MUTATED           0         1         2         2
  AMP PEAK 18(12Q15) WILD-TYPE         8         9         6         7
                              vv
clus                           STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 18(12Q15) MUTATED            4          4          4        0
  AMP PEAK 18(12Q15) WILD-TYPE          2         14         19        6
D18V8, multiclass

Clustering(19) Variable = Amp Peak 19(15q24.3) mutation analysis
D19V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 19(15Q24.3) MUTATED   12 18
  AMP PEAK 19(15Q24.3) WILD-TYPE 32 32
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                            30                             64 
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                            18                             32 
$`AMP PEAK 19(15Q24.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A3CE 
       32.55        22.55        21.14        11.41        30.87        13.32 
TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I7 TCGA-DA-A3F3 TCGA-DA-A3F5 
        5.39        48.79        35.80        36.69         7.00        17.56 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29T 
        1.12        12.20         5.13         8.81        11.15         6.48 
TCGA-EE-A29X TCGA-EE-A2A1 TCGA-ER-A19D TCGA-ER-A19M TCGA-ER-A3ET TCGA-FR-A44A 
        8.09        25.28         3.52        28.64         6.58        72.16 
TCGA-FS-A4F2 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
        3.22         1.02        31.33        84.72        16.21        12.16 

$`AMP PEAK 19(15Q24.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
        6.35        15.25        45.70        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
        2.86        51.12        10.03        39.19        13.68         9.99 
TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       44.52        25.15         4.93        22.36         6.64        19.36 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20B 
       14.83        11.57         6.31         1.35         4.27        36.07 
TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
        7.96        37.97        38.63         4.41         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V 
        9.47        12.03         8.12         8.84         9.99         2.43 
TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        23.90         9.67         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR 
       12.99        42.84        78.44         1.71         5.95         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A261 
       53.82        10.78         6.41         0.20         0.13        15.35 
TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26D 
       24.85        10.09        15.39        14.70 

  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                          1.02                           0.13 
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE 
                        12.760                         10.945 
[1] "1.0 - 84.7 (12.8)" "0.1 - 98.8 (10.9)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 19(15Q24.3) MUTATED"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 19(15Q24.3) WILD-TYPE" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 19(15Q24.3) WILD-TYPE"   "AMP PEAK 19(15Q24.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 19(15Q24.3) MUTATED" "AMP PEAK 19(15Q24.3) WILD-TYPE" 
[1] "hr=" "1.1"
D19V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 19(15Q24.3) MUTATED                    8             0
  AMP PEAK 19(15Q24.3) WILD-TYPE                 17             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 19(15Q24.3) MUTATED                                                                                         10
  AMP PEAK 19(15Q24.3) WILD-TYPE                                                                                       25
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 19(15Q24.3) MUTATED                    40
  AMP PEAK 19(15Q24.3) WILD-TYPE                  72
D19V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 19(15Q24.3) MUTATED
  DISTANT METASTASIS                                                                                                  8
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                40
                                                                                          clus
vv                                                                                         AMP PEAK 19(15Q24.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   17
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  72
D19V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(15Q24.3) MUTATED     22   36
  AMP PEAK 19(15Q24.3) WILD-TYPE   45   70
        clus
vv       AMP PEAK 19(15Q24.3) MUTATED AMP PEAK 19(15Q24.3) WILD-TYPE
  FEMALE                           22                             45
  MALE                             36                             70
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 19(15Q24.3) MUTATED   51  0   0   1   0
  AMP PEAK 19(15Q24.3) WILD-TYPE 99  2   2   1   2
D19V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 19(15Q24.3) MUTATED   32  0   3   6  1   3   3   0  3  1
  AMP PEAK 19(15Q24.3) WILD-TYPE 63  2   4  10  0   1   8   5 13  1
D19V6, multiclass
D19V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 19(15Q24.3) MUTATED             4       6        4        4        9
  AMP PEAK 19(15Q24.3) WILD-TYPE           0      11        6       10       10
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 19(15Q24.3) MUTATED           2         1         2         2
  AMP PEAK 19(15Q24.3) WILD-TYPE         6         9         6         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 19(15Q24.3) MUTATED            4          6          5        0
  AMP PEAK 19(15Q24.3) WILD-TYPE          2         12         18        6
D19V8, multiclass

Clustering(20) Variable = Amp Peak 20(17q25.3) mutation analysis
D20V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 20(17Q25.3) MUTATED   20 18
  AMP PEAK 20(17Q25.3) WILD-TYPE 24 32
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                            38                             56 
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                            18                             32 
$`AMP PEAK 20(17Q25.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CF 
       16.47        22.55        11.41        30.87        45.70        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I7 
        9.30         5.39        48.79        51.12        39.19        36.69 
TCGA-DA-A1IA TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A182 
        4.93         6.64         7.00        17.56         1.12         1.35 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
        4.27         5.13         8.81        11.15         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29V TCGA-EE-A2A6 TCGA-ER-A19F 
        9.47        12.03         8.84         2.43         8.94        11.11 
TCGA-ER-A19N TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FW-A3I3 TCGA-GN-A265 
       42.84         6.58         1.71         5.95         0.20        84.72 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

$`AMP PEAK 20(17Q25.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       21.14         6.35        15.25        13.32         4.01         2.86 
TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 
       35.80        10.03        13.68         9.99        44.52        25.15 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 
       22.36        19.36        14.83        11.57         6.31        12.20 
TCGA-EE-A20B TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29M TCGA-EE-A29Q 
       36.07         7.96        37.97        38.63        27.12         8.12 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.99         6.48         8.09        11.31        25.28        23.90 
TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
        9.67         3.52         4.18        12.99        28.64        78.44 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC 
       72.16         8.81        53.82         3.22        10.78         6.41 
TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
        1.02         0.13        15.35        24.85        31.33        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                          0.20                           0.13 
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE 
                         9.385                         13.155 
[1] "0.2 - 84.7 (9.4)"  "0.1 - 98.8 (13.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 20(17Q25.3) MUTATED"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 20(17Q25.3) WILD-TYPE" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 20(17Q25.3) MUTATED" "AMP PEAK 20(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 20(17Q25.3) WILD-TYPE"   "AMP PEAK 20(17Q25.3) MUTATED" 
[1] "hr=" "1.1"
D20V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 20(17Q25.3) MUTATED                   10             0
  AMP PEAK 20(17Q25.3) WILD-TYPE                 15             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 20(17Q25.3) MUTATED                                                                                         13
  AMP PEAK 20(17Q25.3) WILD-TYPE                                                                                       22
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 20(17Q25.3) MUTATED                    43
  AMP PEAK 20(17Q25.3) WILD-TYPE                  69
D20V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 20(17Q25.3) MUTATED
  DISTANT METASTASIS                                                                                                 10
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           13
  REGIONAL LYMPH NODE                                                                                                43
                                                                                          clus
vv                                                                                         AMP PEAK 20(17Q25.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   15
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             22
  REGIONAL LYMPH NODE                                                                                                  69
D20V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(17Q25.3) MUTATED     21   45
  AMP PEAK 20(17Q25.3) WILD-TYPE   46   61
        clus
vv       AMP PEAK 20(17Q25.3) MUTATED AMP PEAK 20(17Q25.3) WILD-TYPE
  FEMALE                           21                             46
  MALE                             45                             61
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 20(17Q25.3) MUTATED   59  1   1   1   0
  AMP PEAK 20(17Q25.3) WILD-TYPE 91  1   1   1   2
D20V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 20(17Q25.3) MUTATED   36  0   3   7  0   3   3   3  8  0
  AMP PEAK 20(17Q25.3) WILD-TYPE 59  2   4   9  1   1   8   2  8  2
D20V6, multiclass
D20V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 20(17Q25.3) MUTATED             1       6        5        3        8
  AMP PEAK 20(17Q25.3) WILD-TYPE           3      11        5       11       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 20(17Q25.3) MUTATED           1         3         5         3
  AMP PEAK 20(17Q25.3) WILD-TYPE         7         7         3         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 20(17Q25.3) MUTATED            2          8         12        2
  AMP PEAK 20(17Q25.3) WILD-TYPE          4         10         11        4
D20V8, multiclass

Clustering(21) Variable = Amp Peak 21(19p13.2) mutation analysis
D21V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 21(19P13.2) MUTATED   10  9
  AMP PEAK 21(19P13.2) WILD-TYPE 34 41
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                            19                             75 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                             9                             41 
$`AMP PEAK 21(19P13.2) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A2JF TCGA-D3-A3MV TCGA-DA-A1I0 TCGA-DA-A1IC 
       32.55        70.16        30.87         5.39        10.03         6.64 
TCGA-DA-A3F5 TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-ER-A19J 
       17.56        38.63         1.08        12.03         8.84         4.18 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-GN-A266 
        6.58         1.71         5.95         3.22         0.20        10.09 
TCGA-GN-A267 
       16.21 

$`AMP PEAK 21(19P13.2) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        98.76        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       21.14        11.41         6.35        15.25        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       51.12        39.19        13.68         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 
       25.15         4.93        22.36        19.36         7.00        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
       11.57         6.31         1.12         1.35        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D 
       36.07         5.13         8.81         7.96        37.97        11.15 
TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
        4.41        27.12         9.47         8.12         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        2.43         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94         3.52        11.11        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
       78.44        72.16         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
        1.02         0.13        15.35        24.85        31.33        84.72 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                          0.20                           0.13 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                         70.16                          98.76 
  AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE 
                          8.84                          12.20 
[1] "0.2 - 70.2 (8.8)"  "0.1 - 98.8 (12.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 21(19P13.2) MUTATED"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 21(19P13.2) MUTATED"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 21(19P13.2) MUTATED"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"AMP PEAK 21(19P13.2) WILD-TYPE"   "AMP PEAK 21(19P13.2) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 21(19P13.2) MUTATED" "AMP PEAK 21(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"AMP PEAK 21(19P13.2) WILD-TYPE" "AMP PEAK 21(19P13.2) WILD-TYPE" 
[1] "hr=" "1.2"
D21V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 21(19P13.2) MUTATED                    6             0
  AMP PEAK 21(19P13.2) WILD-TYPE                 19             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 21(19P13.2) MUTATED                                                                                          9
  AMP PEAK 21(19P13.2) WILD-TYPE                                                                                       26
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 21(19P13.2) MUTATED                    19
  AMP PEAK 21(19P13.2) WILD-TYPE                  93
D21V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 21(19P13.2) MUTATED
  DISTANT METASTASIS                                                                                                  6
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            9
  REGIONAL LYMPH NODE                                                                                                19
                                                                                          clus
vv                                                                                         AMP PEAK 21(19P13.2) WILD-TYPE
  DISTANT METASTASIS                                                                                                   19
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             26
  REGIONAL LYMPH NODE                                                                                                  93
D21V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(19P13.2) MUTATED     11   23
  AMP PEAK 21(19P13.2) WILD-TYPE   56   83
        clus
vv       AMP PEAK 21(19P13.2) MUTATED AMP PEAK 21(19P13.2) WILD-TYPE
  FEMALE                           11                             56
  MALE                             23                             83
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 21(19P13.2) MUTATED    28   2   2   0   0
  AMP PEAK 21(19P13.2) WILD-TYPE 122   0   0   2   2
D21V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 21(19P13.2) MUTATED   19  0   2   4  0   1   0   2  4  0
  AMP PEAK 21(19P13.2) WILD-TYPE 76  2   5  12  1   3  11   3 12  2
D21V6, multiclass
D21V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 21(19P13.2) MUTATED             2       6        1        1        3
  AMP PEAK 21(19P13.2) WILD-TYPE           2      11        9       13       16
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 21(19P13.2) MUTATED           2         0         2         2
  AMP PEAK 21(19P13.2) WILD-TYPE         6        10         6         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 21(19P13.2) MUTATED            2          3          5        3
  AMP PEAK 21(19P13.2) WILD-TYPE          4         15         18        3
D21V8, multiclass

Clustering(22) Variable = Amp Peak 22(20q13.2) mutation analysis
D22V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 22(20Q13.2) MUTATED   21 24
  AMP PEAK 22(20Q13.2) WILD-TYPE 23 26
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                            45                             49 
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                            24                             26 
$`AMP PEAK 22(20Q13.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A3C6 
       16.47        32.55        22.55        11.41        30.87        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       45.70        13.32         5.39         2.86        48.79        35.80 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A1IA TCGA-DA-A3F5 
       10.03        39.19        13.68        36.69         4.93        17.56 
TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29E 
       12.20        36.07         8.81         7.96        11.15        38.63 
TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A5 
        1.08        12.03         8.84         6.48        25.28         9.67 
TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3PL TCGA-FR-A3YN 
        8.94         4.18        12.99        28.64         1.71         5.95 
TCGA-FR-A44A TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
       72.16         3.22         0.20        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

$`AMP PEAK 22(20Q13.2) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 
       70.16        98.76        28.08        10.26         8.38        21.14 
TCGA-D3-A2JK TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I4 
        6.35        24.00         9.30         4.01        51.12         9.99 
TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       44.52        25.15        22.36         6.64        19.36         7.00 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A185 
       14.83        11.57         6.31         1.12         1.35         4.27 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29Q 
        5.13        37.97         4.41        27.12         9.47         8.12 
TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-ER-A19D 
        9.99         2.43         8.09        11.31        23.90         3.52 
TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FS-A1ZR TCGA-FS-A4F0 
       11.11        42.84        78.44         6.58         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 
       10.78         6.41         1.02         0.13        15.35        24.85 
TCGA-GN-A266 
       10.09 

  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                          0.20                           0.13 
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE 
                         13.32                          10.09 
[1] "0.2 - 84.7 (13.3)" "0.1 - 98.8 (10.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"AMP PEAK 22(20Q13.2) WILD-TYPE" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 22(20Q13.2) WILD-TYPE"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 22(20Q13.2) MUTATED" "AMP PEAK 22(20Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 22(20Q13.2) MUTATED"   "AMP PEAK 22(20Q13.2) MUTATED" 
[1] "hr=" "1.2"
D22V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 22(20Q13.2) MUTATED                   16             0
  AMP PEAK 22(20Q13.2) WILD-TYPE                  9             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 22(20Q13.2) MUTATED                                                                                         17
  AMP PEAK 22(20Q13.2) WILD-TYPE                                                                                       18
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 22(20Q13.2) MUTATED                    57
  AMP PEAK 22(20Q13.2) WILD-TYPE                  55
D22V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 22(20Q13.2) MUTATED
  DISTANT METASTASIS                                                                                                 16
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           17
  REGIONAL LYMPH NODE                                                                                                57
                                                                                          clus
vv                                                                                         AMP PEAK 22(20Q13.2) WILD-TYPE
  DISTANT METASTASIS                                                                                                    9
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             18
  REGIONAL LYMPH NODE                                                                                                  55
D22V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(20Q13.2) MUTATED     32   58
  AMP PEAK 22(20Q13.2) WILD-TYPE   35   48
        clus
vv       AMP PEAK 22(20Q13.2) MUTATED AMP PEAK 22(20Q13.2) WILD-TYPE
  FEMALE                           32                             35
  MALE                             58                             48
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 22(20Q13.2) MUTATED   77  2   2   1   0
  AMP PEAK 22(20Q13.2) WILD-TYPE 73  0   0   1   2
D22V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 22(20Q13.2) MUTATED   50  1   5  10  0   2   4   2  7  2
  AMP PEAK 22(20Q13.2) WILD-TYPE 45  1   2   6  1   2   7   3  9  0
D22V6, multiclass
D22V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 22(20Q13.2) MUTATED             4      12        7        6        8
  AMP PEAK 22(20Q13.2) WILD-TYPE           0       5        3        8       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 22(20Q13.2) MUTATED           2         2         7         4
  AMP PEAK 22(20Q13.2) WILD-TYPE         6         8         1         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 22(20Q13.2) MUTATED            4         10         11        3
  AMP PEAK 22(20Q13.2) WILD-TYPE          2          8         12        3
D22V8, multiclass

Clustering(23) Variable = Amp Peak 23(22q13.2) mutation analysis
D23V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 23(22Q13.2) MUTATED   20 21
  AMP PEAK 23(22Q13.2) WILD-TYPE 24 29
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                            41                             53 
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                            21                             29 
$`AMP PEAK 23(22Q13.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV 
       16.47        22.55        45.70        13.32         9.30         5.39 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        4.01        48.79        35.80        51.12        10.03        39.19 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-EE-A17Z 
       36.69        25.15         4.93        22.36        17.56         6.31 
TCGA-EE-A20H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29X 
        8.81         1.08        27.12         9.47         8.84         8.09 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3ET 
       23.90         9.67         8.94        12.99        28.64         6.58 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A264 
        5.95        72.16         3.22         0.20         0.13        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        16.21        15.39        12.16        14.70 

$`AMP PEAK 23(22Q13.2) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF 
       21.14        11.41        30.87         6.35        15.25        24.00 
TCGA-D9-A3Z3 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1IC TCGA-DA-A3F2 
        2.86        13.68         9.99        44.52         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 
        7.00        14.83        11.57         1.12         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D 
        4.27        36.07         5.13         7.96        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
       38.63         4.41        12.03         8.12         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
        2.43        11.31        25.28         3.52        11.11         4.18 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
       42.84        78.44         1.71         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 
        6.41         1.02        15.35        24.85        10.09 

  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                          0.13                           1.02 
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE 
                         13.32                          11.15 
[1] "0.1 - 84.7 (13.3)" "1.0 - 98.8 (11.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"AMP PEAK 23(22Q13.2) WILD-TYPE" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"AMP PEAK 23(22Q13.2) WILD-TYPE"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
  "AMP PEAK 23(22Q13.2) MUTATED" "AMP PEAK 23(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "AMP PEAK 23(22Q13.2) MUTATED"   "AMP PEAK 23(22Q13.2) MUTATED" 
[1] "hr=" "1.2"
D23V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 23(22Q13.2) MUTATED                   14             1
  AMP PEAK 23(22Q13.2) WILD-TYPE                 11             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 23(22Q13.2) MUTATED                                                                                         16
  AMP PEAK 23(22Q13.2) WILD-TYPE                                                                                       19
                                vv
clus                             REGIONAL LYMPH NODE
  AMP PEAK 23(22Q13.2) MUTATED                    48
  AMP PEAK 23(22Q13.2) WILD-TYPE                  64
D23V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 23(22Q13.2) MUTATED
  DISTANT METASTASIS                                                                                                 14
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           16
  REGIONAL LYMPH NODE                                                                                                48
                                                                                          clus
vv                                                                                         AMP PEAK 23(22Q13.2) WILD-TYPE
  DISTANT METASTASIS                                                                                                   11
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             19
  REGIONAL LYMPH NODE                                                                                                  64
D23V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(22Q13.2) MUTATED     31   48
  AMP PEAK 23(22Q13.2) WILD-TYPE   36   58
        clus
vv       AMP PEAK 23(22Q13.2) MUTATED AMP PEAK 23(22Q13.2) WILD-TYPE
  FEMALE                           31                             36
  MALE                             48                             58
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 23(22Q13.2) MUTATED   66  1   1   1   1
  AMP PEAK 23(22Q13.2) WILD-TYPE 84  1   1   1   1
D23V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 23(22Q13.2) MUTATED   38  0   5   7  0   3   4   4  9  1
  AMP PEAK 23(22Q13.2) WILD-TYPE 57  2   2   9  1   1   7   1  7  1
D23V6, multiclass
D23V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 23(22Q13.2) MUTATED             2       6        4        5        7
  AMP PEAK 23(22Q13.2) WILD-TYPE           2      11        6        9       12
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 23(22Q13.2) MUTATED           3         3         6         4
  AMP PEAK 23(22Q13.2) WILD-TYPE         5         7         2         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 23(22Q13.2) MUTATED            5          9         12        2
  AMP PEAK 23(22Q13.2) WILD-TYPE          1          9         11        4
D23V8, multiclass

Clustering(24) Variable = Amp Peak 24(Xq28) mutation analysis
D24V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 24(XQ28) MUTATED   11  8
  AMP PEAK 24(XQ28) WILD-TYPE 33 42
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                         19                          75 
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                          8                          42 
$`AMP PEAK 24(XQ28) MUTATED`
TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I0 TCGA-DA-A3F3 
       30.87        45.70        13.32         5.39        10.03         7.00 
TCGA-DA-A3F5 TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19M 
       17.56         7.96        11.15         8.84         6.48        28.64 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A4F0 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A268 
        6.58         5.95        53.82        24.85        31.33        15.39 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK 24(XQ28) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       10.26         8.38        21.14        11.41         6.35        15.25 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       51.12        39.19        13.68         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 
       25.15         4.93        22.36         6.64        19.36        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
       11.57         6.31         1.12         1.35        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
       36.07         5.13         8.81        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S 
        1.08        27.12         9.47        12.03         8.12         9.99 
TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        2.43         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
        8.94         3.52        11.11         4.18        12.99        42.84 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 
       78.44         1.71        72.16         8.81         3.22        10.78 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A265 
        6.41         0.20         1.02         0.13        15.35        84.72 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
       10.09        16.21        12.16 

  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                       5.39                        0.13 
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                      53.82                       98.76 
  AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE 
                      13.32                       11.41 
[1] "5.4 - 53.8 (13.3)" "0.1 - 98.8 (11.4)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "AMP PEAK 24(XQ28) MUTATED" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "AMP PEAK 24(XQ28) MUTATED"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"AMP PEAK 24(XQ28) WILD-TYPE" "AMP PEAK 24(XQ28) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"AMP PEAK 24(XQ28) WILD-TYPE"   "AMP PEAK 24(XQ28) MUTATED" 
[1] "hr=" "1.4"
D24V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  AMP PEAK 24(XQ28) MUTATED                    6             0
  AMP PEAK 24(XQ28) WILD-TYPE                 19             1
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  AMP PEAK 24(XQ28) MUTATED                                                                                          7
  AMP PEAK 24(XQ28) WILD-TYPE                                                                                       28
                             vv
clus                          REGIONAL LYMPH NODE
  AMP PEAK 24(XQ28) MUTATED                    17
  AMP PEAK 24(XQ28) WILD-TYPE                  95
D24V3, multiclass
                                                                                          clus
vv                                                                                         AMP PEAK 24(XQ28) MUTATED
  DISTANT METASTASIS                                                                                               6
  PRIMARY TUMOR                                                                                                    0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                         7
  REGIONAL LYMPH NODE                                                                                             17
                                                                                          clus
vv                                                                                         AMP PEAK 24(XQ28) WILD-TYPE
  DISTANT METASTASIS                                                                                                19
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          28
  REGIONAL LYMPH NODE                                                                                               95
D24V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 24(XQ28) MUTATED     16   14
  AMP PEAK 24(XQ28) WILD-TYPE   51   92
        clus
vv       AMP PEAK 24(XQ28) MUTATED AMP PEAK 24(XQ28) WILD-TYPE
  FEMALE                        16                          51
  MALE                          14                          92
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK 24(XQ28) MUTATED    26   0   1   0   0
  AMP PEAK 24(XQ28) WILD-TYPE 124   2   1   2   2
D24V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 24(XQ28) MUTATED   15  0   2   3  0   1   3   1  2  1
  AMP PEAK 24(XQ28) WILD-TYPE 80  2   5  13  1   3   8   4 14  1
D24V6, multiclass
D24V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 24(XQ28) MUTATED             0       1        2        2        2
  AMP PEAK 24(XQ28) WILD-TYPE           4      16        8       12       17
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 24(XQ28) MUTATED           2         3         3         2
  AMP PEAK 24(XQ28) WILD-TYPE         6         7         5         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 24(XQ28) MUTATED            2          3          5        0
  AMP PEAK 24(XQ28) WILD-TYPE          4         15         18        6
D24V8, multiclass

Clustering(25) Variable = Del Peak  1(1p36.31) mutation analysis
D25V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.31) MUTATED   12 10
  DEL PEAK  1(1P36.31) WILD-TYPE 32 40
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            22                             72 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            10                             40 
$`DEL PEAK  1(1P36.31) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I0 
       16.47         6.35        15.25        13.32         5.39        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A182 TCGA-EE-A20F 
       13.68        36.69        17.56        14.83         1.35         5.13 
TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29R TCGA-ER-A19D TCGA-ER-A3PL TCGA-FS-A4F0 
        8.81        11.15         8.84         3.52         1.71        53.82 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A26D 
        6.41         0.20         0.13        14.70 

$`DEL PEAK  1(1P36.31) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CF 
        8.38        21.14        11.41        30.87        45.70        24.00 
TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        9.30         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB 
       39.19         9.99        44.52        25.15         4.93        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        6.64        19.36         7.00        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E 
       12.20         4.27        36.07         7.96        37.97        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
        4.41         1.08        27.12         9.47        12.03         8.12 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.99         6.48         2.43         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.90         9.67         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       28.64        42.84        78.44         6.58         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
        8.81         3.22        10.78         1.02        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       31.33        84.72        10.09        16.21        15.39        12.16 

  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                          0.13                           1.02 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                         53.82                          98.76 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                         9.435                         12.095 
[1] "0.1 - 53.8 (9.4)"  "1.0 - 98.8 (12.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
[1] "hr=" "1.2"
D25V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  1(1P36.31) MUTATED                    9             0
  DEL PEAK  1(1P36.31) WILD-TYPE                 16             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  1(1P36.31) MUTATED                                                                                         10
  DEL PEAK  1(1P36.31) WILD-TYPE                                                                                       25
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK  1(1P36.31) MUTATED                    27
  DEL PEAK  1(1P36.31) WILD-TYPE                  85
D25V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  1(1P36.31) MUTATED
  DISTANT METASTASIS                                                                                                  9
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                27
                                                                                          clus
vv                                                                                         DEL PEAK  1(1P36.31) WILD-TYPE
  DISTANT METASTASIS                                                                                                   16
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  85
D25V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED     22   24
  DEL PEAK  1(1P36.31) WILD-TYPE   45   82
        clus
vv       DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  FEMALE                           22                             45
  MALE                             24                             82
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK  1(1P36.31) MUTATED    38   1   2   0   0
  DEL PEAK  1(1P36.31) WILD-TYPE 112   1   0   2   2
D25V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  1(1P36.31) MUTATED   25  0   1   6  0   1   5   0  3  1
  DEL PEAK  1(1P36.31) WILD-TYPE 70  2   6  10  1   3   6   5 13  1
D25V6, multiclass
D25V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  1(1P36.31) MUTATED             1       5        2        3        7
  DEL PEAK  1(1P36.31) WILD-TYPE           3      12        8       11       12
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  1(1P36.31) MUTATED           2         2         1         3
  DEL PEAK  1(1P36.31) WILD-TYPE         6         8         7         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  1(1P36.31) MUTATED            0          4          9        2
  DEL PEAK  1(1P36.31) WILD-TYPE          6         14         14        4
D25V8, multiclass

Clustering(26) Variable = Del Peak  2(1p22.1) mutation analysis
D26V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  2(1P22.1) MUTATED   13 15
  DEL PEAK  2(1P22.1) WILD-TYPE 31 35
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           28                            66 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           15                            35 
$`DEL PEAK  2(1P22.1) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CE 
       28.08        22.55        10.26        11.41        45.70        13.32 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I7 
        9.30         5.39         2.86        10.03        13.68        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A20H 
       25.15         4.93        17.56        14.83        36.07         8.81 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19D TCGA-ER-A19L 
       37.97        11.15         8.84         6.48         3.52        12.99 
TCGA-ER-A19M TCGA-ER-A3PL TCGA-GN-A262 TCGA-GN-A26D 
       28.64         1.71        24.85        14.70 

$`DEL PEAK  2(1P22.1) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 
       16.47        32.55        70.16        98.76         8.38        21.14 
TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1HV 
       30.87         6.35        15.25        24.00         4.01        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1IB 
       35.80        51.12        39.19         9.99        44.52        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        6.64        19.36         7.00        11.57         6.31         1.12 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29E 
        1.35        12.20         4.27         5.13         7.96        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
        4.41         1.08        27.12         9.47        12.03         8.12 
TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.99         2.43         8.09        11.31        25.28        23.90 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 
        9.67         8.94        11.11         4.18        42.84        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 
        6.58         5.95        72.16         8.81        53.82         3.22 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 
       10.78         6.41         0.20         1.02         0.13        15.35 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       31.33        84.72        10.09        16.21        15.39        12.16 

  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                         1.71                          0.13 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                        45.70                         98.76 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                       13.155                        11.210 
[1] "1.7 - 45.7 (13.2)" "0.1 - 98.8 (11.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
[1] "hr=" "1"  
D26V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  2(1P22.1) MUTATED                    4             0
  DEL PEAK  2(1P22.1) WILD-TYPE                 21             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  2(1P22.1) MUTATED                                                                                         13
  DEL PEAK  2(1P22.1) WILD-TYPE                                                                                       22
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  2(1P22.1) MUTATED                    29
  DEL PEAK  2(1P22.1) WILD-TYPE                  83
D26V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  2(1P22.1) MUTATED
  DISTANT METASTASIS                                                                                                 4
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               29
                                                                                          clus
vv                                                                                         DEL PEAK  2(1P22.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                  21
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            22
  REGIONAL LYMPH NODE                                                                                                 83
D26V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED     18   28
  DEL PEAK  2(1P22.1) WILD-TYPE   49   78
        clus
vv       DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  FEMALE                          18                            49
  MALE                            28                            78
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  2(1P22.1) MUTATED    38   0   2   1   0
  DEL PEAK  2(1P22.1) WILD-TYPE 112   2   0   1   2
D26V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  2(1P22.1) MUTATED   21  0   1   8  0   2   4   1  4  1
  DEL PEAK  2(1P22.1) WILD-TYPE 74  2   6   8  1   2   7   4 12  1
D26V6, multiclass
D26V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  2(1P22.1) MUTATED             0       5        1        3        7
  DEL PEAK  2(1P22.1) WILD-TYPE           4      12        9       11       12
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  2(1P22.1) MUTATED           0         2         2         4
  DEL PEAK  2(1P22.1) WILD-TYPE         8         8         6         5
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  2(1P22.1) MUTATED            0          7          8        2
  DEL PEAK  2(1P22.1) WILD-TYPE          6         11         15        4
D26V8, multiclass

Clustering(27) Variable = Del Peak  3(2q37.3) mutation analysis
D27V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q37.3) MUTATED   15 10
  DEL PEAK  3(2Q37.3) WILD-TYPE 29 40
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           25                            69 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           10                            40 
$`DEL PEAK  3(2Q37.3) MUTATED`
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-DA-A1I0 TCGA-DA-A1IA TCGA-EE-A20B 
       11.41         6.35        15.25        10.03         4.93        36.07 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29P 
        5.13         8.81        37.97        11.15        38.63        12.03 
TCGA-EE-A29Q TCGA-EE-A2A6 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A4F0 
        8.12         8.94         6.58         1.71        72.16        53.82 
TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
        0.20         0.13        24.85        31.33        10.09        16.21 
TCGA-GN-A26D 
       14.70 

$`DEL PEAK  3(2Q37.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CE 
       10.26         8.38        21.14        30.87        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
       24.00         9.30         5.39         4.01         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 
       35.80        51.12        39.19        13.68         9.99        44.52 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       36.69        25.15        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 
       17.56        14.83        11.57         6.31         1.12         1.35 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29A TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
       12.20         4.27         7.96         4.41         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X 
        9.47         8.84         9.99         6.48         2.43         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F 
       11.31        25.28        23.90         9.67         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN 
        4.18        12.99        28.64        42.84        78.44         5.95 
TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
        8.81         3.22        10.78         6.41         1.02        15.35 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
       84.72        15.39        12.16 

  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                         0.13                          1.02 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                        11.15                         12.16 
[1] "0.1 - 72.2 (11.2)" "1.0 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
[1] "hr=" "1.4"
D27V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  3(2Q37.3) MUTATED                    8             0
  DEL PEAK  3(2Q37.3) WILD-TYPE                 17             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  3(2Q37.3) MUTATED                                                                                         13
  DEL PEAK  3(2Q37.3) WILD-TYPE                                                                                       22
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  3(2Q37.3) MUTATED                    23
  DEL PEAK  3(2Q37.3) WILD-TYPE                  89
D27V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  3(2Q37.3) MUTATED
  DISTANT METASTASIS                                                                                                 8
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               23
                                                                                          clus
vv                                                                                         DEL PEAK  3(2Q37.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  17
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            22
  REGIONAL LYMPH NODE                                                                                                 89
D27V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED     20   24
  DEL PEAK  3(2Q37.3) WILD-TYPE   47   82
        clus
vv       DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  FEMALE                          20                            47
  MALE                            24                            82
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  3(2Q37.3) MUTATED    33   1   2   1   0
  DEL PEAK  3(2Q37.3) WILD-TYPE 117   1   0   1   2
D27V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  3(2Q37.3) MUTATED   27  0   2   5  0   0   1   1  2  0
  DEL PEAK  3(2Q37.3) WILD-TYPE 68  2   5  11  1   4  10   4 14  2
D27V6, multiclass
D27V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  3(2Q37.3) MUTATED             1       3        2        3        9
  DEL PEAK  3(2Q37.3) WILD-TYPE           3      14        8       11       10
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  3(2Q37.3) MUTATED           1         4         2         1
  DEL PEAK  3(2Q37.3) WILD-TYPE         7         6         6         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  3(2Q37.3) MUTATED            2          2          4        2
  DEL PEAK  3(2Q37.3) WILD-TYPE          4         16         19        4
D27V8, multiclass

Clustering(28) Variable = Del Peak  4(3q23) mutation analysis
D28V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  4(3Q23) MUTATED    8  8
  DEL PEAK  4(3Q23) WILD-TYPE 36 42
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                         16                          78 
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                          8                          42 
$`DEL PEAK  4(3Q23) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-DA-A1I2 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-EE-A29H 
       32.55        98.76        13.68        44.52        36.69         4.41 
TCGA-EE-A29P TCGA-EE-A29X TCGA-ER-A19F TCGA-ER-A19J TCGA-FW-A3I3 TCGA-FW-A3TU 
       12.03         8.09        11.11         4.18         0.20         0.13 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 
       24.85        31.33        16.21        15.39 

$`DEL PEAK  4(3Q23) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       21.14        11.41        30.87         6.35        15.25        45.70 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       13.32        24.00         9.30         5.39         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 
       48.79        35.80        51.12        10.03        39.19         9.99 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       25.15         4.93        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 
       17.56        14.83        11.57         6.31         1.12         1.35 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
       12.20         4.27        36.07         5.13         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N 
       37.97        11.15        38.63         1.08        27.12         9.47 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A0 
        8.12         8.84         9.99         6.48         2.43        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L 
       25.28        23.90         9.67         8.94         3.52        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
       28.64        42.84        78.44         6.58         1.71         5.95 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC 
       72.16         8.81        53.82         3.22        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26A TCGA-GN-A26D 
        1.02        15.35        84.72        10.09        12.16        14.70 

  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                       0.13                        1.02 
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                      98.76                       84.72 
  DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE 
                     14.535                      11.230 
[1] "0.1 - 98.8 (14.5)" "1.0 - 84.7 (11.2)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A182                  TCGA-EE-A183 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  4(3Q23) WILD-TYPE"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  4(3Q23) MUTATED" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  4(3Q23) MUTATED"   "DEL PEAK  4(3Q23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
"DEL PEAK  4(3Q23) WILD-TYPE" "DEL PEAK  4(3Q23) WILD-TYPE" 
[1] "hr=" "1.2"
D28V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  4(3Q23) MUTATED                    3             0
  DEL PEAK  4(3Q23) WILD-TYPE                 22             1
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  4(3Q23) MUTATED                                                                                          5
  DEL PEAK  4(3Q23) WILD-TYPE                                                                                       30
                             vv
clus                          REGIONAL LYMPH NODE
  DEL PEAK  4(3Q23) MUTATED                    16
  DEL PEAK  4(3Q23) WILD-TYPE                  96
D28V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  4(3Q23) MUTATED
  DISTANT METASTASIS                                                                                               3
  PRIMARY TUMOR                                                                                                    0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                         5
  REGIONAL LYMPH NODE                                                                                             16
                                                                                          clus
vv                                                                                         DEL PEAK  4(3Q23) WILD-TYPE
  DISTANT METASTASIS                                                                                                22
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          30
  REGIONAL LYMPH NODE                                                                                               96
D28V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  4(3Q23) MUTATED     12   12
  DEL PEAK  4(3Q23) WILD-TYPE   55   94
        clus
vv       DEL PEAK  4(3Q23) MUTATED DEL PEAK  4(3Q23) WILD-TYPE
  FEMALE                        12                          55
  MALE                          12                          94
                             vv
clus                           M0  M1 M1A M1B M1C
  DEL PEAK  4(3Q23) MUTATED    18   2   0   0   1
  DEL PEAK  4(3Q23) WILD-TYPE 132   0   2   2   1
D28V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  4(3Q23) MUTATED   15  1   1   0  0   0   2   1  1  0
  DEL PEAK  4(3Q23) WILD-TYPE 80  1   6  16  1   4   9   4 15  2
D28V6, multiclass
D28V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  4(3Q23) MUTATED             1       3        2        2        0
  DEL PEAK  4(3Q23) WILD-TYPE           3      14        8       12       19
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  4(3Q23) MUTATED           1         2         1         2
  DEL PEAK  4(3Q23) WILD-TYPE         7         8         7         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  4(3Q23) MUTATED            1          1          1        3
  DEL PEAK  4(3Q23) WILD-TYPE          5         17         22        3
D28V8, multiclass

Clustering(29) Variable = Del Peak  5(4q22.1) mutation analysis
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  5(4Q22.1) MUTATED   11 10
  DEL PEAK  5(4Q22.1) WILD-TYPE 33 40
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                           21                            73 
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                           10                            40 
$`DEL PEAK  5(4Q22.1) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3MV 
       16.47        28.08        22.55        10.26        45.70         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A29C 
        2.86        35.80        17.56        14.83        36.07        37.97 
TCGA-EE-A29M TCGA-EE-A29T TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19L TCGA-FS-A4F2 
       27.12         6.48         9.67         3.52        12.99         3.22 
TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A266 
        0.13        24.85        10.09 

$`DEL PEAK  5(4Q22.1) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        70.16        98.76         8.38        21.14        11.41 
TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       30.87         6.35        15.25        13.32        24.00         9.30 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
        4.01        48.79        51.12        10.03        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB 
        9.99        44.52        36.69        25.15         4.93        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        6.64        19.36         7.00        11.57         6.31         1.12 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
        1.35        12.20         4.27         5.13         8.81         7.96 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
        8.12         8.84         9.99         2.43         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M 
       25.28        23.90         8.94        11.11         4.18        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       42.84        78.44         6.58         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 
        8.81        53.82        10.78         6.41         0.20         1.02 
TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       15.35        31.33        84.72        16.21        15.39        12.16 
TCGA-GN-A26D 
       14.70 

  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                         0.13                          0.20 
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                        45.70                         98.76 
  DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE 
                        14.83                         11.31 
[1] "0.1 - 45.7 (14.8)" "0.2 - 98.8 (11.3)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  5(4Q22.1) MUTATED"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  5(4Q22.1) MUTATED"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  5(4Q22.1) MUTATED"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  5(4Q22.1) MUTATED" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  5(4Q22.1) WILD-TYPE"   "DEL PEAK  5(4Q22.1) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  5(4Q22.1) WILD-TYPE" "DEL PEAK  5(4Q22.1) WILD-TYPE" 
[1] "hr=" "1.2"
D29V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  5(4Q22.1) MUTATED                    4             1
  DEL PEAK  5(4Q22.1) WILD-TYPE                 21             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  5(4Q22.1) MUTATED                                                                                         11
  DEL PEAK  5(4Q22.1) WILD-TYPE                                                                                       24
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  5(4Q22.1) MUTATED                    19
  DEL PEAK  5(4Q22.1) WILD-TYPE                  93
D29V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  5(4Q22.1) MUTATED
  DISTANT METASTASIS                                                                                                 4
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          11
  REGIONAL LYMPH NODE                                                                                               19
                                                                                          clus
vv                                                                                         DEL PEAK  5(4Q22.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                  21
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            24
  REGIONAL LYMPH NODE                                                                                                 93
D29V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(4Q22.1) MUTATED     18   17
  DEL PEAK  5(4Q22.1) WILD-TYPE   49   89
        clus
vv       DEL PEAK  5(4Q22.1) MUTATED DEL PEAK  5(4Q22.1) WILD-TYPE
  FEMALE                          18                            49
  MALE                            17                            89
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  5(4Q22.1) MUTATED    28   0   0   2   0
  DEL PEAK  5(4Q22.1) WILD-TYPE 122   2   2   0   2
D29V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  5(4Q22.1) MUTATED   17  0   0   3  0   3   1   1  4  1
  DEL PEAK  5(4Q22.1) WILD-TYPE 78  2   7  13  1   1  10   4 12  1
D29V6, multiclass
D29V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  5(4Q22.1) MUTATED             0       4        2        4        3
  DEL PEAK  5(4Q22.1) WILD-TYPE           4      13        8       10       16
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  5(4Q22.1) MUTATED           0         1         3         0
  DEL PEAK  5(4Q22.1) WILD-TYPE         8         9         5         9
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  5(4Q22.1) MUTATED            1          6          2        1
  DEL PEAK  5(4Q22.1) WILD-TYPE          5         12         21        5
D29V8, multiclass

Clustering(30) Variable = Del Peak  6(4q34.3) mutation analysis
D30V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(4Q34.3) MUTATED   14 10
  DEL PEAK  6(4Q34.3) WILD-TYPE 30 40
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           24                            70 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                           10                            40 
$`DEL PEAK  6(4Q34.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3MV TCGA-DA-A1HW 
       16.47        28.08        11.41        45.70         5.39        35.80 
TCGA-DA-A1HY TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A20B 
       51.12        36.69        17.56        14.83         1.12        36.07 
TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29M TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A5 
        8.81        37.97        27.12         6.48         8.09         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A3ET TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A266 
        8.94         3.52         6.58         0.20         0.13        10.09 

$`DEL PEAK  6(4Q34.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        30.87         6.35        15.25        13.32        24.00 
TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I1 
        9.30         4.01         2.86        48.79        10.03        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB 
       13.68         9.99        44.52        25.15         4.93        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 
        6.64        19.36         7.00        11.57         6.31         1.35 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27         5.13         7.96        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
        4.41         1.08         9.47        12.03         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F 
        9.99         2.43        11.31        25.28        23.90        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL 
        4.18        12.99        28.64        42.84        78.44         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 
        5.95        72.16         8.81        53.82         3.22        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 
        6.41         1.02        15.35        24.85        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                         0.13                          1.02 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                        51.12                         98.76 
  DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE 
                        10.75                         11.80 
[1] "0.1 - 51.1 (10.8)" "1.0 - 98.8 (11.8)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4Q34.3) MUTATED"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK  6(4Q34.3) MUTATED" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  6(4Q34.3) WILD-TYPE"   "DEL PEAK  6(4Q34.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  6(4Q34.3) WILD-TYPE" "DEL PEAK  6(4Q34.3) WILD-TYPE" 
[1] "hr=" "1.4"
D30V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  6(4Q34.3) MUTATED                    8             1
  DEL PEAK  6(4Q34.3) WILD-TYPE                 17             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  6(4Q34.3) MUTATED                                                                                         12
  DEL PEAK  6(4Q34.3) WILD-TYPE                                                                                       23
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  6(4Q34.3) MUTATED                    23
  DEL PEAK  6(4Q34.3) WILD-TYPE                  89
D30V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  6(4Q34.3) MUTATED
  DISTANT METASTASIS                                                                                                 8
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          12
  REGIONAL LYMPH NODE                                                                                               23
                                                                                          clus
vv                                                                                         DEL PEAK  6(4Q34.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  17
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            23
  REGIONAL LYMPH NODE                                                                                                 89
D30V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4Q34.3) MUTATED     24   20
  DEL PEAK  6(4Q34.3) WILD-TYPE   43   86
        clus
vv       DEL PEAK  6(4Q34.3) MUTATED DEL PEAK  6(4Q34.3) WILD-TYPE
  FEMALE                          24                            43
  MALE                            20                            86
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  6(4Q34.3) MUTATED    38   1   0   2   0
  DEL PEAK  6(4Q34.3) WILD-TYPE 112   1   2   0   2
D30V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  6(4Q34.3) MUTATED   25  0   1   3  0   2   3   1  5  1
  DEL PEAK  6(4Q34.3) WILD-TYPE 70  2   6  13  1   2   8   4 11  1
D30V6, multiclass
D30V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  6(4Q34.3) MUTATED             1       6        4        6        3
  DEL PEAK  6(4Q34.3) WILD-TYPE           3      11        6        8       16
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  6(4Q34.3) MUTATED           0         0         4         0
  DEL PEAK  6(4Q34.3) WILD-TYPE         8        10         4         9
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  6(4Q34.3) MUTATED            2          5          5        2
  DEL PEAK  6(4Q34.3) WILD-TYPE          4         13         18        4
D30V8, multiclass

Clustering(31) Variable = Del Peak  7(5q11.2) mutation analysis
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(5Q11.2) MUTATED   15 16
  DEL PEAK  7(5Q11.2) WILD-TYPE 29 34
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                           31                            63 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                           16                            34 
$`DEL PEAK  7(5Q11.2) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       28.08        22.55        11.41         6.35        15.25        45.70 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I5 
        5.39         4.01        48.79        35.80        10.03        44.52 
TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A20H TCGA-EE-A29C 
       36.69        17.56        11.57         4.27         8.81        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29M TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29V 
       11.15        38.63        27.12        12.03         8.12         2.43 
TCGA-EE-A2A2 TCGA-FR-A44A TCGA-FS-A4F2 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A267 
       23.90        72.16         3.22        24.85        10.09        16.21 
TCGA-GN-A268 
       15.39 

$`DEL PEAK  7(5Q11.2) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z3 
       21.14        30.87        13.32        24.00         9.30         2.86 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IA 
       51.12        39.19        13.68         9.99        25.15         4.93 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17Z 
       22.36         6.64        19.36         7.00        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29A 
        1.12         1.35        12.20        36.07         5.13         7.96 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
        4.41         1.08         9.47         8.84         9.99         6.48 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.09        11.31        25.28         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
        6.58         1.71         5.95         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A264 
        6.41         0.20         1.02         0.13        15.35        31.33 
TCGA-GN-A265 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        12.16        14.70 

  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                         2.43                          0.13 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE 
                        15.39                         10.26 
[1] "2.4 - 72.2 (15.4)" "0.1 - 98.8 (10.3)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  7(5Q11.2) MUTATED" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  7(5Q11.2) WILD-TYPE"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  7(5Q11.2) MUTATED"   "DEL PEAK  7(5Q11.2) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  7(5Q11.2) WILD-TYPE" "DEL PEAK  7(5Q11.2) WILD-TYPE" 
[1] "hr=" "1.3"
D31V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  7(5Q11.2) MUTATED                    9             1
  DEL PEAK  7(5Q11.2) WILD-TYPE                 16             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  7(5Q11.2) MUTATED                                                                                         11
  DEL PEAK  7(5Q11.2) WILD-TYPE                                                                                       24
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  7(5Q11.2) MUTATED                    33
  DEL PEAK  7(5Q11.2) WILD-TYPE                  79
D31V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  7(5Q11.2) MUTATED
  DISTANT METASTASIS                                                                                                 9
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          11
  REGIONAL LYMPH NODE                                                                                               33
                                                                                          clus
vv                                                                                         DEL PEAK  7(5Q11.2) WILD-TYPE
  DISTANT METASTASIS                                                                                                  16
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            24
  REGIONAL LYMPH NODE                                                                                                 79
D31V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(5Q11.2) MUTATED     22   32
  DEL PEAK  7(5Q11.2) WILD-TYPE   45   74
        clus
vv       DEL PEAK  7(5Q11.2) MUTATED DEL PEAK  7(5Q11.2) WILD-TYPE
  FEMALE                          22                            45
  MALE                            32                            74
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  7(5Q11.2) MUTATED    46   0   1   2   1
  DEL PEAK  7(5Q11.2) WILD-TYPE 104   2   1   0   1
D31V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  7(5Q11.2) MUTATED   28  0   3   7  0   2   3   0  6  1
  DEL PEAK  7(5Q11.2) WILD-TYPE 67  2   4   9  1   2   8   5 10  1
D31V6, multiclass
D31V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  7(5Q11.2) MUTATED             2       5        3        3        5
  DEL PEAK  7(5Q11.2) WILD-TYPE           2      12        7       11       14
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  7(5Q11.2) MUTATED           0         5         4         1
  DEL PEAK  7(5Q11.2) WILD-TYPE         8         5         4         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  7(5Q11.2) MUTATED            2          8          8        2
  DEL PEAK  7(5Q11.2) WILD-TYPE          4         10         15        4
D31V8, multiclass

Clustering(32) Variable = Del Peak  8(5q31.3) mutation analysis
D32V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(5Q31.3) MUTATED   18 19
  DEL PEAK  8(5Q31.3) WILD-TYPE 26 31
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                           37                            57 
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                           19                            31 
$`DEL PEAK  8(5Q31.3) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       28.08        22.55        11.41         6.35        15.25        45.70 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         5.39         4.01        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A17X 
       10.03        44.52        36.69        25.15        17.56        11.57 
TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29M 
        6.31         4.27         8.81        37.97        38.63        27.12 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
       12.03         8.12         9.99         2.43         8.09        11.31 
TCGA-EE-A2A2 TCGA-FR-A44A TCGA-FS-A4F0 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A267 
       23.90        72.16        53.82        24.85        10.09        16.21 
TCGA-GN-A268 
       15.39 

$`DEL PEAK  8(5Q31.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1I1 
       21.14        30.87        13.32         9.30         2.86        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       13.68         9.99         4.93        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20B 
        7.00        14.83         1.12         1.35        12.20        36.07 
TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
        5.13         7.96        11.15         4.41         1.08         9.47 
TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.84         6.48        25.28         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 
        6.58         1.71         5.95         8.81         3.22        10.78 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A264 
        6.41         0.20         1.02         0.13        15.35        31.33 
TCGA-GN-A265 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        12.16        14.70 

  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                         2.43                          0.13 
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE 
                        16.21                          9.99 
[1] "2.4 - 72.2 (16.2)" "0.1 - 98.8 (10.0)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
  "DEL PEAK  8(5Q31.3) MUTATED" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A265                    TCGA-GN-A266 
"DEL PEAK  8(5Q31.3) WILD-TYPE"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
  "DEL PEAK  8(5Q31.3) MUTATED"   "DEL PEAK  8(5Q31.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK  8(5Q31.3) WILD-TYPE" "DEL PEAK  8(5Q31.3) WILD-TYPE" 
[1] "hr=" "1.5"
D32V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  8(5Q31.3) MUTATED                    9             1
  DEL PEAK  8(5Q31.3) WILD-TYPE                 16             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  8(5Q31.3) MUTATED                                                                                         14
  DEL PEAK  8(5Q31.3) WILD-TYPE                                                                                       21
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK  8(5Q31.3) MUTATED                    45
  DEL PEAK  8(5Q31.3) WILD-TYPE                  67
D32V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  8(5Q31.3) MUTATED
  DISTANT METASTASIS                                                                                                 9
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          14
  REGIONAL LYMPH NODE                                                                                               45
                                                                                          clus
vv                                                                                         DEL PEAK  8(5Q31.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  16
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            21
  REGIONAL LYMPH NODE                                                                                                 67
D32V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q31.3) MUTATED     28   41
  DEL PEAK  8(5Q31.3) WILD-TYPE   39   65
        clus
vv       DEL PEAK  8(5Q31.3) MUTATED DEL PEAK  8(5Q31.3) WILD-TYPE
  FEMALE                          28                            39
  MALE                            41                            65
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK  8(5Q31.3) MUTATED   61  0   1   2   1
  DEL PEAK  8(5Q31.3) WILD-TYPE 89  2   1   0   1
D32V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  8(5Q31.3) MUTATED   39  0   3   6  0   3   3   1  9  1
  DEL PEAK  8(5Q31.3) WILD-TYPE 56  2   4  10  1   1   8   4  7  1
D32V6, multiclass
D32V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  8(5Q31.3) MUTATED             3       8        4        4        6
  DEL PEAK  8(5Q31.3) WILD-TYPE           1       9        6       10       13
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  8(5Q31.3) MUTATED           3         6         4         2
  DEL PEAK  8(5Q31.3) WILD-TYPE         5         4         4         7
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  8(5Q31.3) MUTATED            3          8         10        2
  DEL PEAK  8(5Q31.3) WILD-TYPE          3         10         13        4
D32V8, multiclass

Clustering(33) Variable = Del Peak  9(6q26) mutation analysis
D33V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  9(6Q26) MUTATED   23 33
  DEL PEAK  9(6Q26) WILD-TYPE 21 17
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                         56                          38 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                         33                          17 
$`DEL PEAK  9(6Q26) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A2JF 
       16.47        32.55        22.55        10.26        11.41        30.87 
TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
       15.25        13.32        24.00         2.86        48.79        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IC 
       39.19         9.99        36.69        25.15         4.93         6.64 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
        7.00        17.56         1.12         1.35        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
       36.07         8.81         7.96        37.97        11.15         4.41 
TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
        1.08        27.12         8.12         8.84         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        2.43         8.09        25.28        23.90         9.67         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A3PL TCGA-FS-A1ZR 
        3.52        11.11         4.18        42.84         1.71         8.81 
TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A267 
        3.22         0.20         1.02         0.13        31.33        16.21 
TCGA-GN-A268 TCGA-GN-A26A 
       15.39        12.16 

$`DEL PEAK  9(6Q26) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK 
       70.16        98.76        28.08         8.38        21.14         6.35 
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I0 
       45.70         9.30         5.39         4.01        35.80        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I5 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       13.68        44.52        22.36        19.36        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 
        6.31         5.13        38.63         9.47        12.03        11.31 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       12.99        28.64        78.44         6.58         5.95        72.16 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       53.82        10.78         6.41        15.35        24.85        84.72 
TCGA-GN-A266 TCGA-GN-A26D 
       10.09        14.70 

  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                       0.13                        4.01 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                      51.12                       98.76 
  DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE 
                     10.125                      14.190 
[1] "0.1 - 51.1 (10.1)" "4.0 - 98.8 (14.2)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK  9(6Q26) WILD-TYPE"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-GN-A267                  TCGA-GN-A268 
  "DEL PEAK  9(6Q26) MUTATED"   "DEL PEAK  9(6Q26) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK  9(6Q26) MUTATED" "DEL PEAK  9(6Q26) WILD-TYPE" 
[1] "hr=" "1.8"
D33V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK  9(6Q26) MUTATED                   19             1
  DEL PEAK  9(6Q26) WILD-TYPE                  6             0
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK  9(6Q26) MUTATED                                                                                         21
  DEL PEAK  9(6Q26) WILD-TYPE                                                                                       14
                             vv
clus                          REGIONAL LYMPH NODE
  DEL PEAK  9(6Q26) MUTATED                    63
  DEL PEAK  9(6Q26) WILD-TYPE                  49
D33V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK  9(6Q26) MUTATED
  DISTANT METASTASIS                                                                                              19
  PRIMARY TUMOR                                                                                                    1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        21
  REGIONAL LYMPH NODE                                                                                             63
                                                                                          clus
vv                                                                                         DEL PEAK  9(6Q26) WILD-TYPE
  DISTANT METASTASIS                                                                                                 6
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          14
  REGIONAL LYMPH NODE                                                                                               49
D33V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  9(6Q26) MUTATED     42   62
  DEL PEAK  9(6Q26) WILD-TYPE   25   44
        clus
vv       DEL PEAK  9(6Q26) MUTATED DEL PEAK  9(6Q26) WILD-TYPE
  FEMALE                        42                          25
  MALE                          62                          44
                             vv
clus                          M0 M1 M1A M1B M1C
  DEL PEAK  9(6Q26) MUTATED   91  2   1   1   1
  DEL PEAK  9(6Q26) WILD-TYPE 59  0   1   1   1
D33V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  9(6Q26) MUTATED   54  0   6  12  1   2   5   4 10  2
  DEL PEAK  9(6Q26) WILD-TYPE 41  2   1   4  0   2   6   1  6  0
D33V6, multiclass
D33V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  9(6Q26) MUTATED             3       9        6       10       10
  DEL PEAK  9(6Q26) WILD-TYPE           1       8        4        4        9
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  9(6Q26) MUTATED           4         6         3         4
  DEL PEAK  9(6Q26) WILD-TYPE         4         4         5         5
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  9(6Q26) MUTATED            4         13         14        4
  DEL PEAK  9(6Q26) WILD-TYPE          2          5          9        2
D33V8, multiclass

Clustering(34) Variable = Del Peak 10(8p23.3) mutation analysis
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(8P23.3) MUTATED    7 14
  DEL PEAK 10(8P23.3) WILD-TYPE 37 36
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                           21                            73 
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                           14                            36 
$`DEL PEAK 10(8P23.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3MO 
       16.47        22.55        10.26        11.41        15.25         9.30 
TCGA-DA-A1IA TCGA-DA-A3F3 TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L 
        4.93         7.00        12.20        37.97         4.41         1.08 
TCGA-EE-A29M TCGA-EE-A29V TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A3PL 
       27.12         2.43        23.90         9.67         4.18         1.71 
TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A265 
        1.02        31.33        84.72 

$`DEL PEAK 10(8P23.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 
       32.55        70.16        98.76        28.08         8.38        21.14 
TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV 
       30.87         6.35        45.70        13.32        24.00         5.39 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        4.01         2.86        48.79        35.80        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 
       39.19        13.68         9.99        44.52        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
       22.36         6.64        19.36        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        6.31         1.12         1.35         4.27        36.07         5.13 
TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P 
        8.81         7.96        11.15        38.63         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
        8.12         8.84         9.99         6.48         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M 
       25.28         8.94         3.52        11.11        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       42.84        78.44         6.58         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3TU 
       53.82         3.22        10.78         6.41         0.20         0.13 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       15.35        24.85        10.09        16.21        15.39        12.16 
TCGA-GN-A26D 
       14.70 

  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                         1.02                          0.13 
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                        84.72                         98.76 
  DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE 
                        10.26                         12.03 
[1] "1.0 - 84.7 (10.3)" "0.1 - 98.8 (12.0)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 10(8P23.3) MUTATED"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 10(8P23.3) MUTATED"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A182                    TCGA-EE-A183 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 10(8P23.3) MUTATED"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 10(8P23.3) WILD-TYPE"   "DEL PEAK 10(8P23.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 10(8P23.3) MUTATED" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
[1] "hr=" "1.6"
D34V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 10(8P23.3) MUTATED                    7             1
  DEL PEAK 10(8P23.3) WILD-TYPE                 18             0
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 10(8P23.3) MUTATED                                                                                          5
  DEL PEAK 10(8P23.3) WILD-TYPE                                                                                       30
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK 10(8P23.3) MUTATED                    29
  DEL PEAK 10(8P23.3) WILD-TYPE                  83
D34V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 10(8P23.3) MUTATED
  DISTANT METASTASIS                                                                                                 7
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           5
  REGIONAL LYMPH NODE                                                                                               29
                                                                                          clus
vv                                                                                         DEL PEAK 10(8P23.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                  18
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            30
  REGIONAL LYMPH NODE                                                                                                 83
D34V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(8P23.3) MUTATED     12   30
  DEL PEAK 10(8P23.3) WILD-TYPE   55   76
        clus
vv       DEL PEAK 10(8P23.3) MUTATED DEL PEAK 10(8P23.3) WILD-TYPE
  FEMALE                          12                            55
  MALE                            30                            76
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK 10(8P23.3) MUTATED    34   1   1   1   0
  DEL PEAK 10(8P23.3) WILD-TYPE 116   1   1   1   2
D34V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 10(8P23.3) MUTATED   22  0   0   5  1   2   1   2  4  0
  DEL PEAK 10(8P23.3) WILD-TYPE 73  2   7  11  0   2  10   3 12  2
D34V6, multiclass
D34V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 10(8P23.3) MUTATED             1       6        4        5        2
  DEL PEAK 10(8P23.3) WILD-TYPE           3      11        6        9       17
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 10(8P23.3) MUTATED           1         2         0         3
  DEL PEAK 10(8P23.3) WILD-TYPE         7         8         8         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 10(8P23.3) MUTATED            0          5          4        2
  DEL PEAK 10(8P23.3) WILD-TYPE          6         13         19        4
D34V8, multiclass

Clustering(35) Variable = Del Peak 11(9p23) mutation analysis
D35V1, survival
                             sevent
clus2                          0  1
  DEL PEAK 11(9P23) MUTATED   28 38
  DEL PEAK 11(9P23) WILD-TYPE 16 12
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                         66                          28 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                         38                          12 
$`DEL PEAK 11(9P23) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JF 
       16.47        32.55        70.16        28.08        10.26        30.87 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
        6.35        15.25        45.70        24.00         9.30         5.39 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 
        4.01         2.86        48.79        35.80        51.12        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IC 
       13.68         9.99        44.52        25.15         4.93         6.64 
TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20B 
        7.00        11.57         1.12         1.35         4.27        36.07 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
        5.13         8.81        37.97        11.15        38.63         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V 
        9.47        12.03         8.12         9.99         6.48         2.43 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
        8.09        11.31         9.67         8.94         3.52        11.11 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       12.99        28.64        42.84         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
        8.81        53.82         3.22        10.78         6.41         1.02 
TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
        0.13        31.33        10.09        15.39        12.16        14.70 

$`DEL PEAK 11(9P23) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE 
       98.76        22.55         8.38        21.14        11.41        13.32 
TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       10.03        36.69        22.36        19.36        17.56        14.83 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A29A TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29R 
        6.31        12.20         7.96         4.41        27.12         8.84 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19J TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FW-A3I3 
       25.28        23.90         4.18        78.44         6.58         0.20 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A267 
       15.35        24.85        84.72        16.21 

  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                       0.13                        0.20 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                      72.16                       98.76 
  DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE 
                      10.52                       15.78 
[1] "0.1 - 72.2 (10.5)" "0.2 - 98.8 (15.8)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-D3-A2JF                  TCGA-D3-A2JK 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3C6                  TCGA-D3-A3CC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3CE                  TCGA-D3-A3CF 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D3-A3MO                  TCGA-D3-A3MV 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-D9-A3Z1                  TCGA-D9-A3Z3 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HV                  TCGA-DA-A1HW 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1HY                  TCGA-DA-A1I0 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1I1                  TCGA-DA-A1I2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I4                  TCGA-DA-A1I5 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-DA-A1IA                  TCGA-DA-A1IB 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A1IC                  TCGA-DA-A3F2 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F3                  TCGA-DA-A3F5 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-DA-A3F8                  TCGA-EE-A17X 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A17Z                  TCGA-EE-A181 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A182                  TCGA-EE-A183 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A20H 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29A                  TCGA-EE-A29C 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29M                  TCGA-EE-A29N 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29P                  TCGA-EE-A29Q 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29R                  TCGA-EE-A29S 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29T                  TCGA-EE-A29V 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 11(9P23) WILD-TYPE" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F2 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FS-A4F9                  TCGA-FS-A4FC 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3I3                  TCGA-FW-A3R5 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-FW-A3TU                  TCGA-GN-A261 
  "DEL PEAK 11(9P23) MUTATED" "DEL PEAK 11(9P23) WILD-TYPE" 
                 TCGA-GN-A262                  TCGA-GN-A264 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A265                  TCGA-GN-A266 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A267                  TCGA-GN-A268 
"DEL PEAK 11(9P23) WILD-TYPE"   "DEL PEAK 11(9P23) MUTATED" 
                 TCGA-GN-A26A                  TCGA-GN-A26D 
  "DEL PEAK 11(9P23) MUTATED"   "DEL PEAK 11(9P23) MUTATED" 
[1] "hr=" "1.6"
D35V2, continuous
                             vv
clus                          DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 11(9P23) MUTATED                   18             0
  DEL PEAK 11(9P23) WILD-TYPE                  7             1
                             vv
clus                          REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 11(9P23) MUTATED                                                                                         28
  DEL PEAK 11(9P23) WILD-TYPE                                                                                        7
                             vv
clus                          REGIONAL LYMPH NODE
  DEL PEAK 11(9P23) MUTATED                    75
  DEL PEAK 11(9P23) WILD-TYPE                  37
D35V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 11(9P23) MUTATED
  DISTANT METASTASIS                                                                                              18
  PRIMARY TUMOR                                                                                                    0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        28
  REGIONAL LYMPH NODE                                                                                             75
                                                                                          clus
vv                                                                                         DEL PEAK 11(9P23) WILD-TYPE
  DISTANT METASTASIS                                                                                                 7
  PRIMARY TUMOR                                                                                                      1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           7
  REGIONAL LYMPH NODE                                                                                               37
D35V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 11(9P23) MUTATED     50   71
  DEL PEAK 11(9P23) WILD-TYPE   17   35
        clus
vv       DEL PEAK 11(9P23) MUTATED DEL PEAK 11(9P23) WILD-TYPE
  FEMALE                        50                          17
  MALE                          71                          35
                             vv
clus                           M0  M1 M1A M1B M1C
  DEL PEAK 11(9P23) MUTATED   105   0   1   1   2
  DEL PEAK 11(9P23) WILD-TYPE  45   2   1   1   0
D35V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 11(9P23) MUTATED   68  1   4  12  1   1   6   5 10  2
  DEL PEAK 11(9P23) WILD-TYPE 27  1   3   4  0   3   5   0  6  0
D35V6, multiclass
D35V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 11(9P23) MUTATED             4       9        6        9       15
  DEL PEAK 11(9P23) WILD-TYPE           0       8        4        5        4
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 11(9P23) MUTATED           7         8         6         7
  DEL PEAK 11(9P23) WILD-TYPE         1         2         2         2
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 11(9P23) MUTATED            2         13         15        4
  DEL PEAK 11(9P23) WILD-TYPE          4          5          8        2
D35V8, multiclass

Clustering(36) Variable = Del Peak 12(9p21.3) mutation analysis
D36V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(9P21.3) MUTATED   34 41
  DEL PEAK 12(9P21.3) WILD-TYPE 10  9
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                           75                            19 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                           41                             9 
$`DEL PEAK 12(9P21.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JF 
       16.47        32.55        70.16        28.08        10.26        30.87 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
        6.35        15.25        45.70        13.32        24.00         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        5.39         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 
       39.19        13.68         9.99        44.52        36.69        25.15 
TCGA-DA-A1IA TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A181 
        4.93         6.64         7.00        17.56        11.57         1.12 
TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
        1.35         4.27        36.07         5.13         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       37.97        11.15        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V 
       12.03         8.12         8.84         9.99         6.48         2.43 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
        8.09        11.31         9.67         8.94         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A3YN 
        4.18        12.99        28.64        42.84         1.71         5.95 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC 
       72.16         8.81        53.82         3.22        10.78         6.41 
TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        0.20         1.02         0.13        31.33        84.72        10.09 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

$`DEL PEAK 12(9P21.3) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-DA-A1I0 
       98.76        22.55         8.38        21.14        11.41        10.03 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A29M 
       22.36        19.36        14.83         6.31        12.20        27.12 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-GN-A261 TCGA-GN-A262 
       25.28        23.90        78.44         6.58        15.35        24.85 
TCGA-GN-A267 
       16.21 

  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                         0.13                          6.31 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                        84.72                         98.76 
  DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE 
                        10.26                         19.36 
[1] "0.1 - 84.7 (10.3)" "6.3 - 98.8 (19.4)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JF                    TCGA-D3-A2JK 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3C6                    TCGA-D3-A3CC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3CE                    TCGA-D3-A3CF 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D3-A3MO                    TCGA-D3-A3MV 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-D9-A3Z1                    TCGA-D9-A3Z3 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HV                    TCGA-DA-A1HW 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1HY                    TCGA-DA-A1I0 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1I1                    TCGA-DA-A1I2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I4                    TCGA-DA-A1I5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A1IA                    TCGA-DA-A1IB 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A1IC                    TCGA-DA-A3F2 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-DA-A3F3                    TCGA-DA-A3F5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-DA-A3F8                    TCGA-EE-A17X 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A17Z                    TCGA-EE-A181 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A182                    TCGA-EE-A183 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A20H 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29A                    TCGA-EE-A29C 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29M                    TCGA-EE-A29N 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29P                    TCGA-EE-A29Q 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29R                    TCGA-EE-A29S 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29T                    TCGA-EE-A29V 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 12(9P21.3) WILD-TYPE" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F2 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FS-A4F9                    TCGA-FS-A4FC 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3I3                    TCGA-FW-A3R5 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-FW-A3TU                    TCGA-GN-A261 
  "DEL PEAK 12(9P21.3) MUTATED" "DEL PEAK 12(9P21.3) WILD-TYPE" 
                   TCGA-GN-A262                    TCGA-GN-A264 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A265                    TCGA-GN-A266 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A267                    TCGA-GN-A268 
"DEL PEAK 12(9P21.3) WILD-TYPE"   "DEL PEAK 12(9P21.3) MUTATED" 
                   TCGA-GN-A26A                    TCGA-GN-A26D 
  "DEL PEAK 12(9P21.3) MUTATED"   "DEL PEAK 12(9P21.3) MUTATED" 
[1] "hr=" "1.6"
D36V2, continuous
                               vv
clus                            DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 12(9P21.3) MUTATED                   22             0
  DEL PEAK 12(9P21.3) WILD-TYPE                  3             1
                               vv
clus                            REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 12(9P21.3) MUTATED                                                                                         29
  DEL PEAK 12(9P21.3) WILD-TYPE                                                                                        6
                               vv
clus                            REGIONAL LYMPH NODE
  DEL PEAK 12(9P21.3) MUTATED                    86
  DEL PEAK 12(9P21.3) WILD-TYPE                  26
D36V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 12(9P21.3) MUTATED
  DISTANT METASTASIS                                                                                                22
  PRIMARY TUMOR                                                                                                      0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          29
  REGIONAL LYMPH NODE                                                                                               86
                                                                                          clus
vv                                                                                         DEL PEAK 12(9P21.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   3
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             6
  REGIONAL LYMPH NODE                                                                                                 26
D36V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(9P21.3) MUTATED     57   80
  DEL PEAK 12(9P21.3) WILD-TYPE   10   26
        clus
vv       DEL PEAK 12(9P21.3) MUTATED DEL PEAK 12(9P21.3) WILD-TYPE
  FEMALE                          57                            10
  MALE                            80                            26
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK 12(9P21.3) MUTATED   116   2   1   2   2
  DEL PEAK 12(9P21.3) WILD-TYPE  34   0   1   0   0
D36V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 12(9P21.3) MUTATED   74  1   5  14  1   1   8   5 13  2
  DEL PEAK 12(9P21.3) WILD-TYPE 21  1   2   2  0   3   3   0  3  0
D36V6, multiclass
D36V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 12(9P21.3) MUTATED             4      11        8        9       15
  DEL PEAK 12(9P21.3) WILD-TYPE           0       6        2        5        4
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 12(9P21.3) MUTATED           7         8         7         8
  DEL PEAK 12(9P21.3) WILD-TYPE         1         2         1         1
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 12(9P21.3) MUTATED            3         14         18        6
  DEL PEAK 12(9P21.3) WILD-TYPE          3          4          5        0
D36V8, multiclass

Clustering(37) Variable = Del Peak 13(10p15.3) mutation analysis
D37V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 13(10P15.3) MUTATED   19 31
  DEL PEAK 13(10P15.3) WILD-TYPE 25 19
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                            50                             44 
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                            31                             19 
$`DEL PEAK 13(10P15.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       11.41         6.35        13.32        24.00         9.30         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
        2.86        35.80        51.12        39.19        13.68         9.99 
TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A3F5 TCGA-EE-A17Z 
       44.52        36.69        25.15         4.93        17.56         6.31 
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29H TCGA-EE-A29L 
        1.12         4.27        36.07         8.81         4.41         1.08 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
       27.12         9.47        12.03         8.12         9.99         6.48 
TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3ET 
        8.09        23.90         9.67         3.52        12.99         6.58 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
        1.71         5.95         8.81        31.33        10.09        16.21 
TCGA-GN-A268 TCGA-GN-A26A 
       15.39        12.16 

$`DEL PEAK 13(10P15.3) WILD-TYPE`
TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D3-A3C6 TCGA-D3-A3CC 
       22.55         8.38        21.14        30.87        15.25        45.70 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
        4.01        48.79        10.03        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20F 
        7.00        14.83        11.57         1.35        12.20         5.13 
TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A29V 
        7.96        37.97        11.15        38.63         8.84         2.43 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M 
       11.31        25.28         8.94        11.11         4.18        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 
       42.84        78.44        72.16        53.82         3.22        10.78 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 
        6.41         0.20         1.02         0.13        15.35        24.85 
TCGA-GN-A265 TCGA-GN-A26D 
       84.72        14.70 

  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                          1.08                           0.13 
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE 
                        10.835                         11.885 
[1] "1.1 - 98.8 (10.8)" "0.1 - 84.7 (11.9)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
"DEL PEAK 13(10P15.3) WILD-TYPE" "DEL PEAK 13(10P15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 13(10P15.3) WILD-TYPE"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 13(10P15.3) MUTATED"   "DEL PEAK 13(10P15.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 13(10P15.3) MUTATED" "DEL PEAK 13(10P15.3) WILD-TYPE" 
[1] "hr=" "1.5"
D37V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 13(10P15.3) MUTATED                   12             1
  DEL PEAK 13(10P15.3) WILD-TYPE                 13             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 13(10P15.3) MUTATED                                                                                         24
  DEL PEAK 13(10P15.3) WILD-TYPE                                                                                       11
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 13(10P15.3) MUTATED                    55
  DEL PEAK 13(10P15.3) WILD-TYPE                  57
D37V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 13(10P15.3) MUTATED
  DISTANT METASTASIS                                                                                                 12
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           24
  REGIONAL LYMPH NODE                                                                                                55
                                                                                          clus
vv                                                                                         DEL PEAK 13(10P15.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   13
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             11
  REGIONAL LYMPH NODE                                                                                                  57
D37V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 13(10P15.3) MUTATED     39   53
  DEL PEAK 13(10P15.3) WILD-TYPE   28   53
        clus
vv       DEL PEAK 13(10P15.3) MUTATED DEL PEAK 13(10P15.3) WILD-TYPE
  FEMALE                           39                             28
  MALE                             53                             53
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 13(10P15.3) MUTATED   81  0   1   1   2
  DEL PEAK 13(10P15.3) WILD-TYPE 69  2   1   1   0
D37V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 13(10P15.3) MUTATED   50  1   6   8  0   1   5   4  9  1
  DEL PEAK 13(10P15.3) WILD-TYPE 45  1   1   8  1   3   6   1  7  1
D37V6, multiclass
D37V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 13(10P15.3) MUTATED             4       7        6        7       10
  DEL PEAK 13(10P15.3) WILD-TYPE           0      10        4        7        9
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 13(10P15.3) MUTATED           3         6         4         5
  DEL PEAK 13(10P15.3) WILD-TYPE         5         4         4         4
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 13(10P15.3) MUTATED            4         10         13        4
  DEL PEAK 13(10P15.3) WILD-TYPE          2          8         10        2
D37V8, multiclass

Clustering(38) Variable = Del Peak 14(10q23.31) mutation analysis
D38V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 14(10Q23.31) MUTATED   24 32
  DEL PEAK 14(10Q23.31) WILD-TYPE 20 18
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                             56                              38 
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                             32                              18 
$`DEL PEAK 14(10Q23.31) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       11.41         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I2 
        9.30         5.39         2.86        35.80        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A3F5 
        9.99        44.52        36.69        25.15         4.93        17.56 
TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       14.83         6.31         1.12         4.27        36.07         5.13 
TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29P 
        8.81        11.15         4.41         1.08        27.12        12.03 
TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2A5 
        8.12         6.48         8.09        11.31        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
        8.94         3.52        12.99         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
        8.81         0.20         0.13        24.85        31.33        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

$`DEL PEAK 14(10Q23.31) WILD-TYPE`
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D9-A3Z1 TCGA-DA-A1HV 
       10.26         8.38        21.14        30.87         4.01        48.79 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       51.12        10.03        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E 
       11.57         1.35        12.20         7.96        37.97        38.63 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A2A1 TCGA-ER-A19F 
        9.47         8.84         9.99         2.43        25.28        11.11 
TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FS-A4F0 
        4.18        28.64        42.84        78.44         6.58        53.82 
TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
        3.22        10.78         6.41         1.02        15.35        84.72 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                           0.13                            1.02 
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                          98.76                           84.72 
  DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE 
                          11.72                           11.34 
[1] "0.1 - 98.8 (11.7)" "1.0 - 84.7 (11.3)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
  "DEL PEAK 14(10Q23.31) MUTATED"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 14(10Q23.31) WILD-TYPE"   "DEL PEAK 14(10Q23.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
  "DEL PEAK 14(10Q23.31) MUTATED" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
[1] "hr=" "1.3"
D38V2, continuous
                                 vv
clus                              DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 14(10Q23.31) MUTATED                   15             1
  DEL PEAK 14(10Q23.31) WILD-TYPE                 10             0
                                 vv
clus                              REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 14(10Q23.31) MUTATED                                                                                         27
  DEL PEAK 14(10Q23.31) WILD-TYPE                                                                                        8
                                 vv
clus                              REGIONAL LYMPH NODE
  DEL PEAK 14(10Q23.31) MUTATED                    64
  DEL PEAK 14(10Q23.31) WILD-TYPE                  48
D38V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 14(10Q23.31) MUTATED
  DISTANT METASTASIS                                                                                                  15
  PRIMARY TUMOR                                                                                                        1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            27
  REGIONAL LYMPH NODE                                                                                                 64
                                                                                          clus
vv                                                                                         DEL PEAK 14(10Q23.31) WILD-TYPE
  DISTANT METASTASIS                                                                                                    10
  PRIMARY TUMOR                                                                                                          0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                               8
  REGIONAL LYMPH NODE                                                                                                   48
D38V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 14(10Q23.31) MUTATED     50   57
  DEL PEAK 14(10Q23.31) WILD-TYPE   17   49
        clus
vv       DEL PEAK 14(10Q23.31) MUTATED DEL PEAK 14(10Q23.31) WILD-TYPE
  FEMALE                            50                              17
  MALE                              57                              49
                                 vv
clus                              M0 M1 M1A M1B M1C
  DEL PEAK 14(10Q23.31) MUTATED   90  1   1   2   2
  DEL PEAK 14(10Q23.31) WILD-TYPE 60  1   1   0   0
D38V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 14(10Q23.31) MUTATED   57  1   5  10  0   2   6   4  9  2
  DEL PEAK 14(10Q23.31) WILD-TYPE 38  1   2   6  1   2   5   1  7  0
D38V6, multiclass
D38V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 14(10Q23.31) MUTATED             4       7        8        8
  DEL PEAK 14(10Q23.31) WILD-TYPE           0      10        2        6
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 14(10Q23.31) MUTATED         12         4         6         5
  DEL PEAK 14(10Q23.31) WILD-TYPE        7         4         4         3
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 14(10Q23.31) MUTATED           6          3         12         12
  DEL PEAK 14(10Q23.31) WILD-TYPE         3          3          6         11
                                 vv
clus                              STAGE IV
  DEL PEAK 14(10Q23.31) MUTATED          5
  DEL PEAK 14(10Q23.31) WILD-TYPE        1
D38V8, multiclass

Clustering(39) Variable = Del Peak 15(10q26.3) mutation analysis
D39V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 15(10Q26.3) MUTATED   25 30
  DEL PEAK 15(10Q26.3) WILD-TYPE 19 20
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                            55                             39 
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                            30                             20 
$`DEL PEAK 15(10Q26.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       11.41         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 
        9.30         5.39         2.86        35.80        51.12        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA 
       13.68         9.99        44.52        36.69        25.15         4.93 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B 
       17.56        14.83         6.31         1.12         4.27        36.07 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29P 
        5.13         8.81        11.15         4.41        27.12        12.03 
TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2A5 
        8.12         6.48         8.09        11.31        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
        8.94         3.52        12.99         6.58         1.71         5.95 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
       72.16         8.81         0.13        24.85        31.33        10.09 
TCGA-GN-A26A 
       12.16 

$`DEL PEAK 15(10Q26.3) WILD-TYPE`
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JF TCGA-D9-A3Z1 TCGA-DA-A1HV 
       10.26         8.38        21.14        30.87         4.01        48.79 
TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X 
       10.03        22.36         6.64        19.36         7.00        11.57 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29L 
        1.35        12.20         7.96        37.97        38.63         1.08 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A2A1 TCGA-ER-A19F 
        9.47         8.84         9.99         2.43        25.28        11.11 
TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A4F0 TCGA-FS-A4F2 
        4.18        28.64        42.84        78.44        53.82         3.22 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
       10.78         6.41         0.20         1.02        15.35        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE 
                         12.03                          11.11 
[1] "0.1 - 98.8 (12.0)" "0.2 - 84.7 (11.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 15(10Q26.3) MUTATED"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 15(10Q26.3) WILD-TYPE"   "DEL PEAK 15(10Q26.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 15(10Q26.3) WILD-TYPE" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 15(10Q26.3) MUTATED" "DEL PEAK 15(10Q26.3) WILD-TYPE" 
[1] "hr=" "1"  
D39V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 15(10Q26.3) MUTATED                   14             1
  DEL PEAK 15(10Q26.3) WILD-TYPE                 11             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 15(10Q26.3) MUTATED                                                                                         29
  DEL PEAK 15(10Q26.3) WILD-TYPE                                                                                        6
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 15(10Q26.3) MUTATED                    63
  DEL PEAK 15(10Q26.3) WILD-TYPE                  49
D39V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 15(10Q26.3) MUTATED
  DISTANT METASTASIS                                                                                                 14
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           29
  REGIONAL LYMPH NODE                                                                                                63
                                                                                          clus
vv                                                                                         DEL PEAK 15(10Q26.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   11
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              6
  REGIONAL LYMPH NODE                                                                                                  49
D39V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(10Q26.3) MUTATED     50   57
  DEL PEAK 15(10Q26.3) WILD-TYPE   17   49
        clus
vv       DEL PEAK 15(10Q26.3) MUTATED DEL PEAK 15(10Q26.3) WILD-TYPE
  FEMALE                           50                             17
  MALE                             57                             49
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 15(10Q26.3) MUTATED   91  0   1   2   2
  DEL PEAK 15(10Q26.3) WILD-TYPE 59  2   1   0   0
D39V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 15(10Q26.3) MUTATED   58  1   5  10  0   2   6   4  9  1
  DEL PEAK 15(10Q26.3) WILD-TYPE 37  1   2   6  1   2   5   1  7  1
D39V6, multiclass
D39V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 15(10Q26.3) MUTATED             4      10        8        8       12
  DEL PEAK 15(10Q26.3) WILD-TYPE           0       7        2        6        7
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 15(10Q26.3) MUTATED           3         6         5         6
  DEL PEAK 15(10Q26.3) WILD-TYPE         5         4         3         3
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 15(10Q26.3) MUTATED            3         12         12        4
  DEL PEAK 15(10Q26.3) WILD-TYPE          3          6         11        2
D39V8, multiclass

Clustering(40) Variable = Del Peak 16(11q23.3) mutation analysis
D40V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 16(11Q23.3) MUTATED   28 29
  DEL PEAK 16(11Q23.3) WILD-TYPE 16 21
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                            57                             37 
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                            29                             21 
$`DEL PEAK 16(11Q23.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD 
       16.47        32.55        98.76        22.55        10.26        11.41 
TCGA-D3-A2JF TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       30.87        15.25        45.70        24.00         9.30         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I5 TCGA-DA-A1I8 
        2.86        48.79        35.80        39.19        44.52        25.15 
TCGA-DA-A1IA TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A182 TCGA-EE-A20B TCGA-EE-A20F 
        4.93         7.00        17.56         1.35        36.07         5.13 
TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
        8.81         7.96        37.97        11.15         4.41         1.08 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       27.12         9.47         8.12         8.84         9.99         6.48 
TCGA-EE-A29V TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L 
        2.43        23.90         9.67         3.52        11.11        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       28.64        42.84         6.58         1.71         5.95        72.16 
TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
        0.20         0.13        24.85        31.33        10.09        16.21 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

$`DEL PEAK 16(11Q23.3) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3CE 
       70.16        28.08         8.38        21.14         6.35        13.32 
TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
        4.01        51.12        10.03        13.68         9.99        36.69 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         6.64        19.36        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29X 
        1.12        12.20         4.27        38.63        12.03         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A1A1 TCGA-FS-A1ZR 
       11.31        25.28         8.94         4.18        78.44         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
       53.82         3.22        10.78         6.41         1.02        15.35 
TCGA-GN-A265 
       84.72 

  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                          0.13                           1.02 
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE 
                         11.41                          11.57 
[1] "0.1 - 98.8 (11.4)" "1.0 - 84.7 (11.6)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 16(11Q23.3) WILD-TYPE" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 16(11Q23.3) MUTATED" "DEL PEAK 16(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 16(11Q23.3) WILD-TYPE"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 16(11Q23.3) MUTATED"   "DEL PEAK 16(11Q23.3) MUTATED" 
[1] "hr=" "1.1"
D40V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 16(11Q23.3) MUTATED                   20             1
  DEL PEAK 16(11Q23.3) WILD-TYPE                  5             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 16(11Q23.3) MUTATED                                                                                         20
  DEL PEAK 16(11Q23.3) WILD-TYPE                                                                                       15
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 16(11Q23.3) MUTATED                    60
  DEL PEAK 16(11Q23.3) WILD-TYPE                  52
D40V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 16(11Q23.3) MUTATED
  DISTANT METASTASIS                                                                                                 20
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           20
  REGIONAL LYMPH NODE                                                                                                60
                                                                                          clus
vv                                                                                         DEL PEAK 16(11Q23.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                    5
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             15
  REGIONAL LYMPH NODE                                                                                                  52
D40V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11Q23.3) MUTATED     42   59
  DEL PEAK 16(11Q23.3) WILD-TYPE   25   47
        clus
vv       DEL PEAK 16(11Q23.3) MUTATED DEL PEAK 16(11Q23.3) WILD-TYPE
  FEMALE                           42                             25
  MALE                             59                             47
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 16(11Q23.3) MUTATED   85  1   1   1   2
  DEL PEAK 16(11Q23.3) WILD-TYPE 65  1   1   1   0
D40V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 16(11Q23.3) MUTATED   54  0   6  13  0   3   2   4  7  2
  DEL PEAK 16(11Q23.3) WILD-TYPE 41  2   1   3  1   1   9   1  9  0
D40V6, multiclass
D40V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 16(11Q23.3) MUTATED             2       8        8        9        9
  DEL PEAK 16(11Q23.3) WILD-TYPE           2       9        2        5       10
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 16(11Q23.3) MUTATED           1         6         6         3
  DEL PEAK 16(11Q23.3) WILD-TYPE         7         4         2         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 16(11Q23.3) MUTATED            5         11         12        4
  DEL PEAK 16(11Q23.3) WILD-TYPE          1          7         11        2
D40V8, multiclass

Clustering(41) Variable = Del Peak 17(12p13.31) mutation analysis
D41V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 17(12P13.31) MUTATED    7  4
  DEL PEAK 17(12P13.31) WILD-TYPE 37 46
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                             11                              83 
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                              4                              46 
$`DEL PEAK 17(12P13.31) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-DA-A1HV TCGA-DA-A1I1 TCGA-EE-A20B TCGA-EE-A29Q 
       22.55        10.26        48.79        39.19        36.07         8.12 
TCGA-EE-A29V TCGA-EE-A2A2 TCGA-FW-A3R5 TCGA-GN-A266 TCGA-GN-A26D 
        2.43        23.90         1.02        10.09        14.70 

$`DEL PEAK 17(12P13.31) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        28.08         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       21.14        11.41        30.87         6.35        15.25        45.70 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       13.32        24.00         9.30         5.39         4.01         2.86 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 
       35.80        51.12        10.03        13.68         9.99        44.52 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       36.69        25.15         4.93        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
        1.35        12.20         4.27         5.13         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
       37.97        11.15        38.63         4.41         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
        9.47        12.03         8.84         9.99         6.48         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
       11.31        25.28         9.67         8.94         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        4.18        12.99        28.64        42.84        78.44         6.58 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 
        1.71         5.95        72.16         8.81        53.82         3.22 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 
       10.78         6.41         0.20         0.13        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       31.33        84.72        16.21        15.39        12.16 

  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                           1.02                            0.13 
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                          48.79                           98.76 
  DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE 
                          14.70                           11.41 
[1] "1.0 - 48.8 (14.7)" "0.1 - 98.8 (11.4)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 17(12P13.31) MUTATED" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
"DEL PEAK 17(12P13.31) WILD-TYPE" "DEL PEAK 17(12P13.31) WILD-TYPE" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 17(12P13.31) WILD-TYPE"   "DEL PEAK 17(12P13.31) MUTATED" 
[1] "hr=" "1.7"
D41V2, continuous
                                 vv
clus                              DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 17(12P13.31) MUTATED                    3             0
  DEL PEAK 17(12P13.31) WILD-TYPE                 22             1
                                 vv
clus                              REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 17(12P13.31) MUTATED                                                                                          6
  DEL PEAK 17(12P13.31) WILD-TYPE                                                                                       29
                                 vv
clus                              REGIONAL LYMPH NODE
  DEL PEAK 17(12P13.31) MUTATED                    14
  DEL PEAK 17(12P13.31) WILD-TYPE                  98
D41V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 17(12P13.31) MUTATED
  DISTANT METASTASIS                                                                                                   3
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             6
  REGIONAL LYMPH NODE                                                                                                 14
                                                                                          clus
vv                                                                                         DEL PEAK 17(12P13.31) WILD-TYPE
  DISTANT METASTASIS                                                                                                    22
  PRIMARY TUMOR                                                                                                          1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              29
  REGIONAL LYMPH NODE                                                                                                   98
D41V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 17(12P13.31) MUTATED     10   13
  DEL PEAK 17(12P13.31) WILD-TYPE   57   93
        clus
vv       DEL PEAK 17(12P13.31) MUTATED DEL PEAK 17(12P13.31) WILD-TYPE
  FEMALE                            10                              57
  MALE                              13                              93
                                 vv
clus                               M0  M1 M1A M1B M1C
  DEL PEAK 17(12P13.31) MUTATED    20   0   0   0   1
  DEL PEAK 17(12P13.31) WILD-TYPE 130   2   2   2   1
D41V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 17(12P13.31) MUTATED   12  0   1   3  1   1   1   2  1  0
  DEL PEAK 17(12P13.31) WILD-TYPE 83  2   6  13  0   3  10   3 15  2
D41V6, multiclass
D41V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 17(12P13.31) MUTATED             0       4        2        0
  DEL PEAK 17(12P13.31) WILD-TYPE           4      13        8       14
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 17(12P13.31) MUTATED          3         0         2         1
  DEL PEAK 17(12P13.31) WILD-TYPE       16         8         8         7
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 17(12P13.31) MUTATED           2          0          5          2
  DEL PEAK 17(12P13.31) WILD-TYPE         7          6         13         21
                                 vv
clus                              STAGE IV
  DEL PEAK 17(12P13.31) MUTATED          1
  DEL PEAK 17(12P13.31) WILD-TYPE        5
D41V8, multiclass

Clustering(42) Variable = Del Peak 18(12q23.3) mutation analysis
D42V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 18(12Q23.3) MUTATED   11  8
  DEL PEAK 18(12Q23.3) WILD-TYPE 33 42
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                            19                             75 
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                             8                             42 
$`DEL PEAK 18(12Q23.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3MV TCGA-DA-A1I1 TCGA-EE-A20B 
       16.47        15.25        45.70         5.39        39.19        36.07 
TCGA-EE-A29D TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A2 TCGA-ER-A3PL 
       11.15         8.12         9.99         8.09        23.90         1.71 
TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A266 TCGA-GN-A267 
        3.22        10.78         1.02         0.13        10.09        16.21 
TCGA-GN-A268 
       15.39 

$`DEL PEAK 18(12Q23.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CE 
        8.38        21.14        11.41        30.87         6.35        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       51.12        10.03        13.68         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       25.15         4.93        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 
       17.56        14.83        11.57         6.31         1.12         1.35 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C 
       12.20         4.27         5.13         8.81         7.96        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P 
       38.63         4.41         1.08        27.12         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 
        8.84         6.48         2.43        11.31        25.28         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       42.84        78.44         6.58         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       53.82         6.41         0.20        15.35        24.85        31.33 
TCGA-GN-A265 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        12.16        14.70 

  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                         45.70                          98.76 
  DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE 
                         10.78                          12.03 
[1] "0.1 - 45.7 (10.8)" "0.2 - 98.8 (12.0)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 18(12Q23.3) MUTATED" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 18(12Q23.3) WILD-TYPE"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 18(12Q23.3) MUTATED"   "DEL PEAK 18(12Q23.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 18(12Q23.3) WILD-TYPE" "DEL PEAK 18(12Q23.3) WILD-TYPE" 
[1] "hr=" "1.1"
D42V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 18(12Q23.3) MUTATED                    5             0
  DEL PEAK 18(12Q23.3) WILD-TYPE                 20             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 18(12Q23.3) MUTATED                                                                                         12
  DEL PEAK 18(12Q23.3) WILD-TYPE                                                                                       23
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 18(12Q23.3) MUTATED                    21
  DEL PEAK 18(12Q23.3) WILD-TYPE                  91
D42V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 18(12Q23.3) MUTATED
  DISTANT METASTASIS                                                                                                  5
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           12
  REGIONAL LYMPH NODE                                                                                                21
                                                                                          clus
vv                                                                                         DEL PEAK 18(12Q23.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   20
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             23
  REGIONAL LYMPH NODE                                                                                                  91
D42V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 18(12Q23.3) MUTATED     17   21
  DEL PEAK 18(12Q23.3) WILD-TYPE   50   85
        clus
vv       DEL PEAK 18(12Q23.3) MUTATED DEL PEAK 18(12Q23.3) WILD-TYPE
  FEMALE                           17                             50
  MALE                             21                             85
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 18(12Q23.3) MUTATED    31   0   1   1   1
  DEL PEAK 18(12Q23.3) WILD-TYPE 119   2   1   1   1
D42V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 18(12Q23.3) MUTATED   20  0   2   3  1   1   0   3  4  0
  DEL PEAK 18(12Q23.3) WILD-TYPE 75  2   5  13  0   3  11   2 12  2
D42V6, multiclass
D42V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 18(12Q23.3) MUTATED             1       4        3        2        4
  DEL PEAK 18(12Q23.3) WILD-TYPE           3      13        7       12       15
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 18(12Q23.3) MUTATED           1         2         2         3
  DEL PEAK 18(12Q23.3) WILD-TYPE         7         8         6         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 18(12Q23.3) MUTATED            1          4          4        2
  DEL PEAK 18(12Q23.3) WILD-TYPE          5         14         19        4
D42V8, multiclass

Clustering(43) Variable = Del Peak 19(12q24.33) mutation analysis
D43V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 19(12Q24.33) MUTATED   12 10
  DEL PEAK 19(12Q24.33) WILD-TYPE 32 40
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                             22                              72 
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                             10                              40 
$`DEL PEAK 19(12Q24.33) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3MV TCGA-DA-A1I1 TCGA-DA-A1IA 
       16.47        10.26        45.70         5.39        39.19         4.93 
TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A2 
       36.07         8.81         8.12         9.99         8.09        23.90 
TCGA-EE-A2A5 TCGA-ER-A3PL TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-FW-A3TU 
        9.67         1.71         3.22        10.78         1.02         0.13 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       84.72        10.09        16.21        15.39 

$`DEL PEAK 19(12Q24.33) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
       21.14        11.41        30.87         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       51.12        10.03        13.68         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 
       25.15        22.36         6.64        19.36         7.00        17.56 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 
       14.83        11.57         6.31         1.12         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        4.27         5.13         7.96        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
        4.41         1.08        27.12         9.47        12.03         8.84 
TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19D 
        6.48         2.43        11.31        25.28         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4FC 
        6.58         5.95        72.16         8.81        53.82         6.41 
TCGA-FW-A3I3 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A26A TCGA-GN-A26D 
        0.20        15.35        24.85        31.33        12.16        14.70 

  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                           0.13                            0.20 
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                          84.72                           98.76 
  DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE 
                          10.04                           12.18 
[1] "0.1 - 84.7 (10.0)" "0.2 - 98.8 (12.2)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JF                      TCGA-D3-A2JK 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3C6                      TCGA-D3-A3CC 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D3-A3CE                      TCGA-D3-A3CF 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MO                      TCGA-D3-A3MV 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-D9-A3Z1                      TCGA-D9-A3Z3 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HV                      TCGA-DA-A1HW 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HY                      TCGA-DA-A1I0 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I1                      TCGA-DA-A1I2 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I4                      TCGA-DA-A1I5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IA                      TCGA-DA-A1IB 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IC                      TCGA-DA-A3F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F3                      TCGA-DA-A3F5 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F8                      TCGA-EE-A17X 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17Z                      TCGA-EE-A181 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A182                      TCGA-EE-A183 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A20H 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29A                      TCGA-EE-A29C 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29M                      TCGA-EE-A29N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29P                      TCGA-EE-A29Q 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29R                      TCGA-EE-A29S 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A29T                      TCGA-EE-A29V 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F2 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FS-A4F9                      TCGA-FS-A4FC 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-FW-A3I3                      TCGA-FW-A3R5 
"DEL PEAK 19(12Q24.33) WILD-TYPE"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-FW-A3TU                      TCGA-GN-A261 
  "DEL PEAK 19(12Q24.33) MUTATED" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A262                      TCGA-GN-A264 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A265                      TCGA-GN-A266 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A267                      TCGA-GN-A268 
  "DEL PEAK 19(12Q24.33) MUTATED"   "DEL PEAK 19(12Q24.33) MUTATED" 
                     TCGA-GN-A26A                      TCGA-GN-A26D 
"DEL PEAK 19(12Q24.33) WILD-TYPE" "DEL PEAK 19(12Q24.33) WILD-TYPE" 
[1] "hr=" "1"  
D43V2, continuous
                                 vv
clus                              DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 19(12Q24.33) MUTATED                    6             0
  DEL PEAK 19(12Q24.33) WILD-TYPE                 19             1
                                 vv
clus                              REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 19(12Q24.33) MUTATED                                                                                         12
  DEL PEAK 19(12Q24.33) WILD-TYPE                                                                                       23
                                 vv
clus                              REGIONAL LYMPH NODE
  DEL PEAK 19(12Q24.33) MUTATED                    21
  DEL PEAK 19(12Q24.33) WILD-TYPE                  91
D43V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 19(12Q24.33) MUTATED
  DISTANT METASTASIS                                                                                                   6
  PRIMARY TUMOR                                                                                                        0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            12
  REGIONAL LYMPH NODE                                                                                                 21
                                                                                          clus
vv                                                                                         DEL PEAK 19(12Q24.33) WILD-TYPE
  DISTANT METASTASIS                                                                                                    19
  PRIMARY TUMOR                                                                                                          1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              23
  REGIONAL LYMPH NODE                                                                                                   91
D43V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 19(12Q24.33) MUTATED     18   21
  DEL PEAK 19(12Q24.33) WILD-TYPE   49   85
        clus
vv       DEL PEAK 19(12Q24.33) MUTATED DEL PEAK 19(12Q24.33) WILD-TYPE
  FEMALE                            18                              49
  MALE                              21                              85
                                 vv
clus                               M0  M1 M1A M1B M1C
  DEL PEAK 19(12Q24.33) MUTATED    32   0   1   0   1
  DEL PEAK 19(12Q24.33) WILD-TYPE 118   2   1   2   1
D43V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 19(12Q24.33) MUTATED   21  0   2   3  1   1   0   3  3  0
  DEL PEAK 19(12Q24.33) WILD-TYPE 74  2   5  13  0   3  11   2 13  2
D43V6, multiclass
D43V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 19(12Q24.33) MUTATED             0       6        3        2
  DEL PEAK 19(12Q24.33) WILD-TYPE           4      11        7       12
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 19(12Q24.33) MUTATED          3         1         3         2
  DEL PEAK 19(12Q24.33) WILD-TYPE       16         7         7         6
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 19(12Q24.33) MUTATED           3          1          5          3
  DEL PEAK 19(12Q24.33) WILD-TYPE         6          5         13         20
                                 vv
clus                              STAGE IV
  DEL PEAK 19(12Q24.33) MUTATED          2
  DEL PEAK 19(12Q24.33) WILD-TYPE        4
D43V8, multiclass

Clustering(44) Variable = Del Peak 20(13q34) mutation analysis
D44V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 20(13Q34) MUTATED   11 12
  DEL PEAK 20(13Q34) WILD-TYPE 33 38
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                          23                           71 
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                          12                           38 
$`DEL PEAK 20(13Q34) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       28.08        22.55         8.38         2.86        48.79        35.80 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F5 
       13.68         9.99        44.52        25.15         6.64        17.56 
TCGA-EE-A181 TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T 
        1.12        11.15        38.63         9.47         8.12         6.48 
TCGA-EE-A2A6 TCGA-FR-A3YN TCGA-FS-A4F9 TCGA-GN-A266 TCGA-GN-A26D 
        8.94         5.95        10.78        10.09        14.70 

$`DEL PEAK 20(13Q34) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J9 
       16.47        32.55        70.16        98.76        10.26        21.14 
TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       11.41        30.87         6.35        15.25        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 
       24.00         9.30         5.39         4.01        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I7 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 
       39.19        36.69         4.93        22.36        19.36         7.00 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
       14.83        11.57         6.31         1.35        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29H 
       36.07         5.13         8.81         7.96        37.97         4.41 
TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V 
        1.08        27.12        12.03         8.84         9.99         2.43 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D 
        8.09        11.31        25.28        23.90         9.67         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 
        6.58         1.71        72.16         8.81        53.82         3.22 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A261 TCGA-GN-A262 
        6.41         0.20         1.02         0.13        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       31.33        84.72        16.21        15.39        12.16 

  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                        1.12                         0.13 
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                       48.79                        98.76 
  DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE 
                       10.78                        12.03 
[1] "1.1 - 48.8 (10.8)" "0.1 - 98.8 (12.0)"
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-GN-A267                   TCGA-GN-A268 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-GN-A267                   TCGA-GN-A268 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JF                   TCGA-D3-A2JK 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3C6                   TCGA-D3-A3CC 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CE                   TCGA-D3-A3CF 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MO                   TCGA-D3-A3MV 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z1                   TCGA-D9-A3Z3 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HV                   TCGA-DA-A1HW 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1HY                   TCGA-DA-A1I0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I1                   TCGA-DA-A1I2 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I4                   TCGA-DA-A1I5 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A1IA                   TCGA-DA-A1IB 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A1IC                   TCGA-DA-A3F2 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F3                   TCGA-DA-A3F5 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-DA-A3F8                   TCGA-EE-A17X 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A17Z                   TCGA-EE-A181 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A182                   TCGA-EE-A183 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A20H 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29A                   TCGA-EE-A29C 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 20(13Q34) MUTATED"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29M                   TCGA-EE-A29N 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29P                   TCGA-EE-A29Q 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-EE-A29R                   TCGA-EE-A29S 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29T                   TCGA-EE-A29V 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F2 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F9                   TCGA-FS-A4FC 
  "DEL PEAK 20(13Q34) MUTATED" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3I3                   TCGA-FW-A3R5 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-FW-A3TU                   TCGA-GN-A261 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A262                   TCGA-GN-A264 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A265                   TCGA-GN-A266 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
                  TCGA-GN-A267                   TCGA-GN-A268 
"DEL PEAK 20(13Q34) WILD-TYPE" "DEL PEAK 20(13Q34) WILD-TYPE" 
                  TCGA-GN-A26A                   TCGA-GN-A26D 
"DEL PEAK 20(13Q34) WILD-TYPE"   "DEL PEAK 20(13Q34) MUTATED" 
[1] "hr=" "1"  
D44V2, continuous
                              vv
clus                           DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 20(13Q34) MUTATED                    2             0
  DEL PEAK 20(13Q34) WILD-TYPE                 23             1
                              vv
clus                           REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 20(13Q34) MUTATED                                                                                          9
  DEL PEAK 20(13Q34) WILD-TYPE                                                                                       26
                              vv
clus                           REGIONAL LYMPH NODE
  DEL PEAK 20(13Q34) MUTATED                    31
  DEL PEAK 20(13Q34) WILD-TYPE                  81
D44V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 20(13Q34) MUTATED
  DISTANT METASTASIS                                                                                                2
  PRIMARY TUMOR                                                                                                     0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          9
  REGIONAL LYMPH NODE                                                                                              31
                                                                                          clus
vv                                                                                         DEL PEAK 20(13Q34) WILD-TYPE
  DISTANT METASTASIS                                                                                                 23
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           26
  REGIONAL LYMPH NODE                                                                                                81
D44V4, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 20(13Q34) MUTATED     14   28
  DEL PEAK 20(13Q34) WILD-TYPE   53   78
        clus
vv       DEL PEAK 20(13Q34) MUTATED DEL PEAK 20(13Q34) WILD-TYPE
  FEMALE                         14                           53
  MALE                           28                           78
                              vv
clus                            M0  M1 M1A M1B M1C
  DEL PEAK 20(13Q34) MUTATED    35   0   0   2   2
  DEL PEAK 20(13Q34) WILD-TYPE 115   2   2   0   0
D44V5, multiclass
                              vv
clus                           N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 20(13Q34) MUTATED   21  0   0   5  0   1   3   4  5  1
  DEL PEAK 20(13Q34) WILD-TYPE 74  2   7  11  1   3   8   1 11  1
D44V6, multiclass
D44V7, continuous
                              vv
clus                           I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 20(13Q34) MUTATED             0       5        5        2        4
  DEL PEAK 20(13Q34) WILD-TYPE           4      12        5       12       15
                              vv
clus                           STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 20(13Q34) MUTATED           0         1         2         1
  DEL PEAK 20(13Q34) WILD-TYPE         8         9         6         8
                              vv
clus                           STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 20(13Q34) MUTATED            0          8          5        3
  DEL PEAK 20(13Q34) WILD-TYPE          6         10         18        3
D44V8, multiclass

Clustering(45) Variable = Del Peak 21(14q32.2) mutation analysis
D45V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 21(14Q32.2) MUTATED   15 14
  DEL PEAK 21(14Q32.2) WILD-TYPE 29 36
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                            29                             65 
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                            14                             36 
$`DEL PEAK 21(14Q32.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D3-A3CE 
       16.47        32.55        10.26        30.87        45.70        13.32 
TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I5 TCGA-DA-A1I8 
        5.39        48.79        51.12        39.19        44.52        25.15 
TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A29V TCGA-EE-A2A2 TCGA-EE-A2A5 
       17.56         1.12        37.97         2.43        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F2 TCGA-FS-A4F9 
        8.94         1.71        72.16         8.81         3.22        10.78 
TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
        0.13        31.33        16.21        15.39        12.16 

$`DEL PEAK 21(14Q32.2) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 
       70.16        98.76        28.08        22.55         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
       11.41         6.35        15.25        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
        2.86        35.80        10.03        13.68         9.99        36.69 
TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 
        4.93        22.36         6.64        19.36         7.00        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       11.57         6.31         1.35        12.20         4.27        36.07 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        5.13         8.81         7.96        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
        1.08        27.12         9.47        12.03         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-ER-A19D 
        9.99         6.48         8.09        11.31        25.28         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-FW-A3R5 
        6.58         5.95        53.82         6.41         0.20         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26D 
       15.35        24.85        84.72        10.09        14.70 

  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                         72.16                          98.76 
  DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE 
                         16.21                          11.11 
[1] "0.1 - 72.2 (16.2)" "0.2 - 98.8 (11.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 21(14Q32.2) WILD-TYPE"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 21(14Q32.2) WILD-TYPE" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 21(14Q32.2) MUTATED"   "DEL PEAK 21(14Q32.2) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
  "DEL PEAK 21(14Q32.2) MUTATED" "DEL PEAK 21(14Q32.2) WILD-TYPE" 
[1] "hr=" "1.5"
D45V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 21(14Q32.2) MUTATED                   11             0
  DEL PEAK 21(14Q32.2) WILD-TYPE                 14             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 21(14Q32.2) MUTATED                                                                                         12
  DEL PEAK 21(14Q32.2) WILD-TYPE                                                                                       23
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 21(14Q32.2) MUTATED                    35
  DEL PEAK 21(14Q32.2) WILD-TYPE                  77
D45V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 21(14Q32.2) MUTATED
  DISTANT METASTASIS                                                                                                 11
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           12
  REGIONAL LYMPH NODE                                                                                                35
                                                                                          clus
vv                                                                                         DEL PEAK 21(14Q32.2) WILD-TYPE
  DISTANT METASTASIS                                                                                                   14
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             23
  REGIONAL LYMPH NODE                                                                                                  77
D45V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 21(14Q32.2) MUTATED     21   37
  DEL PEAK 21(14Q32.2) WILD-TYPE   46   69
        clus
vv       DEL PEAK 21(14Q32.2) MUTATED DEL PEAK 21(14Q32.2) WILD-TYPE
  FEMALE                           21                             46
  MALE                             37                             69
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 21(14Q32.2) MUTATED   52  0   1   0   2
  DEL PEAK 21(14Q32.2) WILD-TYPE 98  2   1   2   0
D45V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 21(14Q32.2) MUTATED   33  1   4   6  0   1   1   3  6  0
  DEL PEAK 21(14Q32.2) WILD-TYPE 62  1   3  10  1   3  10   2 10  2
D45V6, multiclass
D45V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 21(14Q32.2) MUTATED             4       7        4        2        9
  DEL PEAK 21(14Q32.2) WILD-TYPE           0      10        6       12       10
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 21(14Q32.2) MUTATED           0         2         3         4
  DEL PEAK 21(14Q32.2) WILD-TYPE         8         8         5         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 21(14Q32.2) MUTATED            3          5          8        3
  DEL PEAK 21(14Q32.2) WILD-TYPE          3         13         15        3
D45V8, multiclass

Clustering(46) Variable = Del Peak 22(15q13.3) mutation analysis
D46V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 22(15Q13.3) MUTATED    9 10
  DEL PEAK 22(15Q13.3) WILD-TYPE 35 40
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                            19                             75 
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                            10                             40 
$`DEL PEAK 22(15Q13.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       16.47        15.25        45.70        48.79        35.80        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-EE-A17Z TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29Q 
       39.19        25.15         6.31         1.08        12.03         8.12 
TCGA-EE-A2A5 TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 
        9.67         0.20         0.13        31.33        10.09        16.21 
TCGA-GN-A26D 
       14.70 

$`DEL PEAK 22(15Q13.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CE 
        8.38        21.14        11.41        30.87         6.35        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1I0 
       24.00         9.30         5.39         4.01         2.86        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1IA TCGA-DA-A1IB 
       13.68         9.99        44.52        36.69         4.93        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
        6.64        19.36         7.00        17.56        14.83        11.57 
TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
        1.12         1.35        12.20         4.27        36.07         5.13 
TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        8.81         7.96        37.97        11.15        38.63         4.41 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V 
       27.12         9.47         8.84         9.99         6.48         2.43 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.09        11.31        25.28        23.90         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
        6.58         1.71         5.95        72.16         8.81        53.82 
TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
        3.22        10.78         6.41         1.02        15.35        24.85 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
       84.72        15.39        12.16 

  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                          0.13                           1.02 
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                         51.12                          98.76 
  DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE 
                         15.25                          11.15 
[1] "0.1 - 51.1 (15.2)" "1.0 - 98.8 (11.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 22(15Q13.3) MUTATED"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 22(15Q13.3) WILD-TYPE" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 22(15Q13.3) MUTATED" "DEL PEAK 22(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 22(15Q13.3) WILD-TYPE"   "DEL PEAK 22(15Q13.3) MUTATED" 
[1] "hr=" "1.2"
D46V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 22(15Q13.3) MUTATED                    5             0
  DEL PEAK 22(15Q13.3) WILD-TYPE                 20             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 22(15Q13.3) MUTATED                                                                                         10
  DEL PEAK 22(15Q13.3) WILD-TYPE                                                                                       25
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 22(15Q13.3) MUTATED                    25
  DEL PEAK 22(15Q13.3) WILD-TYPE                  87
D46V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 22(15Q13.3) MUTATED
  DISTANT METASTASIS                                                                                                  5
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                25
                                                                                          clus
vv                                                                                         DEL PEAK 22(15Q13.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   20
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  87
D46V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(15Q13.3) MUTATED     18   22
  DEL PEAK 22(15Q13.3) WILD-TYPE   49   84
        clus
vv       DEL PEAK 22(15Q13.3) MUTATED DEL PEAK 22(15Q13.3) WILD-TYPE
  FEMALE                           18                             49
  MALE                             22                             84
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 22(15Q13.3) MUTATED    33   1   0   1   0
  DEL PEAK 22(15Q13.3) WILD-TYPE 117   1   2   1   2
D46V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 22(15Q13.3) MUTATED   22  0   2   1  0   0   3   1  6  1
  DEL PEAK 22(15Q13.3) WILD-TYPE 73  2   5  15  1   4   8   4 10  1
D46V6, multiclass
D46V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 22(15Q13.3) MUTATED             0       5        2        3        4
  DEL PEAK 22(15Q13.3) WILD-TYPE           4      12        8       11       15
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 22(15Q13.3) MUTATED           0         3         4         2
  DEL PEAK 22(15Q13.3) WILD-TYPE         8         7         4         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 22(15Q13.3) MUTATED            1          3          6        1
  DEL PEAK 22(15Q13.3) WILD-TYPE          5         15         17        5
D46V8, multiclass

Clustering(47) Variable = Del Peak 23(15q15.3) mutation analysis
D47V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 23(15Q15.3) MUTATED    8 14
  DEL PEAK 23(15Q15.3) WILD-TYPE 36 36
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                            22                             72 
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                            14                             36 
$`DEL PEAK 23(15Q15.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 
       16.47        15.25        45.70        48.79        35.80        39.19 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29L 
       25.15         4.93         6.31         1.12        12.20         1.08 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A3ET TCGA-FW-A3TU 
       12.03         8.12         9.67         4.18         6.58         0.13 
TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26D 
       31.33        10.09        16.21        14.70 

$`DEL PEAK 23(15Q15.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3CE 
        8.38        21.14        11.41        30.87         6.35        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY 
       24.00         9.30         5.39         4.01         2.86        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1IB 
       10.03        13.68         9.99        44.52        36.69        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
        6.64        19.36         7.00        17.56        14.83        11.57 
TCGA-EE-A182 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A 
        1.35         4.27        36.07         5.13         8.81         7.96 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29N 
       37.97        11.15        38.63         4.41        27.12         9.47 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
        8.84         9.99         6.48         2.43         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L 
       25.28        23.90         8.94         3.52        11.11        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       28.64        42.84        78.44         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 
        8.81        53.82         3.22        10.78         6.41         0.20 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
        1.02        15.35        24.85        84.72        15.39        12.16 

  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                         48.79                          98.76 
  DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE 
                        12.115                         11.360 
[1] "0.1 - 48.8 (12.1)" "0.2 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 23(15Q15.3) MUTATED"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q15.3) WILD-TYPE" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 23(15Q15.3) MUTATED" "DEL PEAK 23(15Q15.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 23(15Q15.3) WILD-TYPE"   "DEL PEAK 23(15Q15.3) MUTATED" 
[1] "hr=" "1.3"
D47V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 23(15Q15.3) MUTATED                    4             0
  DEL PEAK 23(15Q15.3) WILD-TYPE                 21             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 23(15Q15.3) MUTATED                                                                                         10
  DEL PEAK 23(15Q15.3) WILD-TYPE                                                                                       25
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 23(15Q15.3) MUTATED                    25
  DEL PEAK 23(15Q15.3) WILD-TYPE                  87
D47V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 23(15Q15.3) MUTATED
  DISTANT METASTASIS                                                                                                  4
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                25
                                                                                          clus
vv                                                                                         DEL PEAK 23(15Q15.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   21
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  87
D47V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(15Q15.3) MUTATED     19   20
  DEL PEAK 23(15Q15.3) WILD-TYPE   48   86
        clus
vv       DEL PEAK 23(15Q15.3) MUTATED DEL PEAK 23(15Q15.3) WILD-TYPE
  FEMALE                           19                             48
  MALE                             20                             86
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 23(15Q15.3) MUTATED    32   1   0   1   0
  DEL PEAK 23(15Q15.3) WILD-TYPE 118   1   2   1   2
D47V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 23(15Q15.3) MUTATED   20  0   2   3  0   0   3   1  6  0
  DEL PEAK 23(15Q15.3) WILD-TYPE 75  2   5  13  1   4   8   4 10  2
D47V6, multiclass
D47V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 23(15Q15.3) MUTATED             0       6        2        2        4
  DEL PEAK 23(15Q15.3) WILD-TYPE           4      11        8       12       15
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 23(15Q15.3) MUTATED           0         3         3         3
  DEL PEAK 23(15Q15.3) WILD-TYPE         8         7         5         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 23(15Q15.3) MUTATED            2          3          5        1
  DEL PEAK 23(15Q15.3) WILD-TYPE          4         15         18        5
D47V8, multiclass

Clustering(48) Variable = Del Peak 24(16p13.3) mutation analysis
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(16P13.3) MUTATED    6 10
  DEL PEAK 24(16P13.3) WILD-TYPE 38 40
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                            16                             78 
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                            10                             40 
$`DEL PEAK 24(16P13.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-EE-A181 
       32.55        22.55        45.70        35.80        13.68         1.12 
TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29X TCGA-EE-A2A0 TCGA-FW-A3R5 
       11.15         1.08        27.12         8.09        11.31         1.02 
TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A267 TCGA-GN-A26D 
        0.13        24.85        16.21        14.70 

$`DEL PEAK 24(16P13.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE 
       21.14        11.41        30.87         6.35        15.25        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
       24.00         9.30         5.39         4.01         2.86        48.79 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 
       51.12        10.03        39.19         9.99        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       25.15         4.93        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A183 
       17.56        14.83        11.57         6.31         1.35        12.20 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C 
        4.27        36.07         5.13         8.81         7.96        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       38.63         4.41         9.47        12.03         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        9.99         6.48         2.43        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       42.84        78.44         6.58         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3I3 
        8.81        53.82         3.22        10.78         6.41         0.20 
TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A 
       15.35        31.33        84.72        10.09        15.39        12.16 

  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                         45.70                          98.76 
  DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE 
                         14.19                          11.26 
[1] "0.1 - 45.7 (14.2)" "0.2 - 98.8 (11.3)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 24(16P13.3) MUTATED"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 24(16P13.3) MUTATED"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 24(16P13.3) MUTATED"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 24(16P13.3) WILD-TYPE" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 24(16P13.3) MUTATED" "DEL PEAK 24(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 24(16P13.3) WILD-TYPE"   "DEL PEAK 24(16P13.3) MUTATED" 
[1] "hr=" "1.2"
D48V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 24(16P13.3) MUTATED                    5             1
  DEL PEAK 24(16P13.3) WILD-TYPE                 20             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 24(16P13.3) MUTATED                                                                                          4
  DEL PEAK 24(16P13.3) WILD-TYPE                                                                                       31
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 24(16P13.3) MUTATED                    22
  DEL PEAK 24(16P13.3) WILD-TYPE                  90
D48V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 24(16P13.3) MUTATED
  DISTANT METASTASIS                                                                                                  5
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            4
  REGIONAL LYMPH NODE                                                                                                22
                                                                                          clus
vv                                                                                         DEL PEAK 24(16P13.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   20
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             31
  REGIONAL LYMPH NODE                                                                                                  90
D48V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(16P13.3) MUTATED     17   15
  DEL PEAK 24(16P13.3) WILD-TYPE   50   91
        clus
vv       DEL PEAK 24(16P13.3) MUTATED DEL PEAK 24(16P13.3) WILD-TYPE
  FEMALE                           17                             50
  MALE                             15                             91
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 24(16P13.3) MUTATED    28   0   0   0   0
  DEL PEAK 24(16P13.3) WILD-TYPE 122   2   2   2   2
D48V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 24(16P13.3) MUTATED   19  0   2   3  1   2   1   0  1  0
  DEL PEAK 24(16P13.3) WILD-TYPE 76  2   5  13  0   2  10   5 15  2
D48V6, multiclass
D48V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 24(16P13.3) MUTATED             2       3        3        2        3
  DEL PEAK 24(16P13.3) WILD-TYPE           2      14        7       12       16
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 24(16P13.3) MUTATED           2         1         3         2
  DEL PEAK 24(16P13.3) WILD-TYPE         6         9         5         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 24(16P13.3) MUTATED            2          3          3        0
  DEL PEAK 24(16P13.3) WILD-TYPE          4         15         20        6
D48V8, multiclass

Clustering(49) Variable = Del Peak 25(16q12.1) mutation analysis
D49V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(16Q12.1) MUTATED   15 17
  DEL PEAK 25(16Q12.1) WILD-TYPE 29 33
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                            32                             62 
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                            17                             33 
$`DEL PEAK 25(16Q12.1) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3CC TCGA-D9-A3Z3 
       32.55        98.76        10.26        30.87        45.70         2.86 
TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17Z 
       35.80        13.68         9.99        17.56        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29M 
        1.12         4.27        37.97        11.15         1.08        27.12 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19N 
        9.47        12.03         8.09        11.31         9.67        42.84 
TCGA-FS-A4F2 TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A264 
        3.22         0.20         1.02         0.13        24.85        31.33 
TCGA-GN-A267 TCGA-GN-A26D 
       16.21        14.70 

$`DEL PEAK 25(16Q12.1) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 
       16.47        70.16        28.08        22.55         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       11.41         6.35        15.25        13.32        24.00         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        5.39         4.01        48.79        51.12        10.03        39.19 
TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC 
       44.52        36.69        25.15         4.93        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20B 
       19.36         7.00        11.57         1.35        12.20        36.07 
TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29Q 
        5.13         8.81         7.96        38.63         4.41         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         6.48         2.43        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       78.44         6.58         1.71         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 
       53.82        10.78         6.41        15.35        84.72        10.09 
TCGA-GN-A268 TCGA-GN-A26A 
       15.39        12.16 

  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                          0.13                           1.35 
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE 
                         11.67                          11.49 
[1] "0.1 - 98.8 (11.7)" "1.4 - 84.7 (11.5)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 25(16Q12.1) MUTATED"   "DEL PEAK 25(16Q12.1) MUTATED" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 25(16Q12.1) WILD-TYPE" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 25(16Q12.1) MUTATED" "DEL PEAK 25(16Q12.1) WILD-TYPE" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 25(16Q12.1) WILD-TYPE"   "DEL PEAK 25(16Q12.1) MUTATED" 
[1] "hr=" "1"  
D49V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 25(16Q12.1) MUTATED                   11             1
  DEL PEAK 25(16Q12.1) WILD-TYPE                 14             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 25(16Q12.1) MUTATED                                                                                          8
  DEL PEAK 25(16Q12.1) WILD-TYPE                                                                                       27
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 25(16Q12.1) MUTATED                    38
  DEL PEAK 25(16Q12.1) WILD-TYPE                  74
D49V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 25(16Q12.1) MUTATED
  DISTANT METASTASIS                                                                                                 11
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            8
  REGIONAL LYMPH NODE                                                                                                38
                                                                                          clus
vv                                                                                         DEL PEAK 25(16Q12.1) WILD-TYPE
  DISTANT METASTASIS                                                                                                   14
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             27
  REGIONAL LYMPH NODE                                                                                                  74
D49V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(16Q12.1) MUTATED     26   32
  DEL PEAK 25(16Q12.1) WILD-TYPE   41   74
        clus
vv       DEL PEAK 25(16Q12.1) MUTATED DEL PEAK 25(16Q12.1) WILD-TYPE
  FEMALE                           26                             41
  MALE                             32                             74
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 25(16Q12.1) MUTATED    49   1   0   1   0
  DEL PEAK 25(16Q12.1) WILD-TYPE 101   1   2   1   2
D49V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 25(16Q12.1) MUTATED   34  0   3   5  1   1   3   1  4  0
  DEL PEAK 25(16Q12.1) WILD-TYPE 61  2   4  11  0   3   8   4 12  2
D49V6, multiclass
D49V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 25(16Q12.1) MUTATED             2       3        4        5        8
  DEL PEAK 25(16Q12.1) WILD-TYPE           2      14        6        9       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 25(16Q12.1) MUTATED           1         3         6         2
  DEL PEAK 25(16Q12.1) WILD-TYPE         7         7         2         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 25(16Q12.1) MUTATED            2          7          5        1
  DEL PEAK 25(16Q12.1) WILD-TYPE          4         11         18        5
D49V8, multiclass

Clustering(50) Variable = Del Peak 26(16q24.3) mutation analysis
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(16Q24.3) MUTATED   14 19
  DEL PEAK 26(16Q24.3) WILD-TYPE 30 31
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                            33                             61 
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                            19                             31 
$`DEL PEAK 26(16Q24.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JF TCGA-D3-A3CC 
       32.55        98.76        22.55        10.26        30.87        45.70 
TCGA-D3-A3CE TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F8 
       13.32         2.86        35.80        13.68         9.99        14.83 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29D TCGA-EE-A29H 
        6.31         1.12        12.20         4.27        11.15         4.41 
TCGA-EE-A29M TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19F 
       27.12        12.03         8.09        11.31         9.67        11.11 
TCGA-ER-A19N TCGA-ER-A3PL TCGA-FS-A4F2 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-GN-A262 
       42.84         1.71         3.22         1.02         0.13        24.85 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

$`DEL PEAK 26(16Q24.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        70.16        28.08         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 
        6.35        15.25        24.00         9.30         5.39         4.01 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I5 TCGA-DA-A1I7 
       48.79        51.12        10.03        39.19        44.52        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       25.15         4.93        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H 
       17.56        11.57         1.35        36.07         5.13         8.81 
TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q 
        7.96        37.97        38.63         1.08         9.47         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         6.48         2.43        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
        8.94         3.52         4.18        12.99        28.64        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
        6.58         5.95        72.16         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3I3 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        6.41         0.20        15.35        31.33        84.72        10.09 
TCGA-GN-A26A 
       12.16 

  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE 
                         12.03                          11.41 
[1] "0.1 - 98.8 (12.0)" "0.2 - 84.7 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 26(16Q24.3) MUTATED" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 26(16Q24.3) WILD-TYPE" "DEL PEAK 26(16Q24.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
  "DEL PEAK 26(16Q24.3) MUTATED"   "DEL PEAK 26(16Q24.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 26(16Q24.3) WILD-TYPE"   "DEL PEAK 26(16Q24.3) MUTATED" 
[1] "hr=" "1.2"
D50V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 26(16Q24.3) MUTATED                   10             1
  DEL PEAK 26(16Q24.3) WILD-TYPE                 15             0
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 26(16Q24.3) MUTATED                                                                                          9
  DEL PEAK 26(16Q24.3) WILD-TYPE                                                                                       26
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 26(16Q24.3) MUTATED                    42
  DEL PEAK 26(16Q24.3) WILD-TYPE                  70
D50V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 26(16Q24.3) MUTATED
  DISTANT METASTASIS                                                                                                 10
  PRIMARY TUMOR                                                                                                       1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            9
  REGIONAL LYMPH NODE                                                                                                42
                                                                                          clus
vv                                                                                         DEL PEAK 26(16Q24.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   15
  PRIMARY TUMOR                                                                                                         0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             26
  REGIONAL LYMPH NODE                                                                                                  70
D50V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q24.3) MUTATED     28   34
  DEL PEAK 26(16Q24.3) WILD-TYPE   39   72
        clus
vv       DEL PEAK 26(16Q24.3) MUTATED DEL PEAK 26(16Q24.3) WILD-TYPE
  FEMALE                           28                             39
  MALE                             34                             72
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 26(16Q24.3) MUTATED   54  0   1   1   0
  DEL PEAK 26(16Q24.3) WILD-TYPE 96  2   1   1   2
D50V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 26(16Q24.3) MUTATED   38  0   3   7  1   3   3   0  2  0
  DEL PEAK 26(16Q24.3) WILD-TYPE 57  2   4   9  0   1   8   5 14  2
D50V6, multiclass
D50V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 26(16Q24.3) MUTATED             2       5        5        4        7
  DEL PEAK 26(16Q24.3) WILD-TYPE           2      12        5       10       12
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 26(16Q24.3) MUTATED           1         6         6         3
  DEL PEAK 26(16Q24.3) WILD-TYPE         7         4         2         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 26(16Q24.3) MUTATED            2          8          3        1
  DEL PEAK 26(16Q24.3) WILD-TYPE          4         10         20        5
D50V8, multiclass

Clustering(51) Variable = Del Peak 27(19p13.3) mutation analysis
D51V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 27(19P13.3) MUTATED   12 19
  DEL PEAK 27(19P13.3) WILD-TYPE 32 31
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                            31                             63 
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                            19                             31 
$`DEL PEAK 27(19P13.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D9-A3Z3 TCGA-DA-A1HV 
       16.47        22.55        10.26        11.41         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA 
       35.80        10.03        44.52        36.69        25.15         4.93 
TCGA-DA-A1IC TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A20H TCGA-EE-A29C 
        6.64        17.56        11.57         4.27         8.81        37.97 
TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A0 
       11.15         4.41         9.47         2.43         8.09        11.31 
TCGA-EE-A2A6 TCGA-ER-A19M TCGA-FR-A3YN TCGA-FR-A44A TCGA-FW-A3TU TCGA-GN-A262 
        8.94        28.64         5.95        72.16         0.13        24.85 
TCGA-GN-A268 
       15.39 

$`DEL PEAK 27(19P13.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 
       32.55        70.16        98.76        28.08         8.38        21.14 
TCGA-D3-A2JF TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       30.87         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 
        9.30         5.39         4.01        51.12        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17Z 
        9.99        22.36        19.36         7.00        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29A 
        1.12         1.35        12.20        36.07         5.13         7.96 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       38.63         1.08        27.12        12.03         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D 
        9.99         6.48        25.28        23.90         9.67         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
       11.11         4.18        12.99        42.84        78.44         6.58 
TCGA-ER-A3PL TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F2 TCGA-FS-A4F9 TCGA-FS-A4FC 
        1.71         8.81        53.82         3.22        10.78         6.41 
TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        0.20         1.02        15.35        31.33        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        12.16        14.70 

  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                          0.13                           0.20 
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                         72.16                          98.76 
  DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE 
                         11.31                          12.16 
[1] "0.1 - 72.2 (11.3)" "0.2 - 98.8 (12.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-D3-A2JF                     TCGA-D3-A2JK 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3C6                     TCGA-D3-A3CC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3CE                     TCGA-D3-A3CF 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D3-A3MO                     TCGA-D3-A3MV 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z1                     TCGA-D9-A3Z3 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HV                     TCGA-DA-A1HW 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1HY                     TCGA-DA-A1I0 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I1                     TCGA-DA-A1I2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1I4                     TCGA-DA-A1I5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A1IA                     TCGA-DA-A1IB 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A1IC                     TCGA-DA-A3F2 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-DA-A3F3                     TCGA-DA-A3F5 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-DA-A3F8                     TCGA-EE-A17X 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A17Z                     TCGA-EE-A181 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A182                     TCGA-EE-A183 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A20H 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29A                     TCGA-EE-A29C 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29M                     TCGA-EE-A29N 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29P                     TCGA-EE-A29Q 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29R                     TCGA-EE-A29S 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A29T                     TCGA-EE-A29V 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 27(19P13.3) MUTATED"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F2 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FS-A4F9                     TCGA-FS-A4FC 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3I3                     TCGA-FW-A3R5 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-FW-A3TU                     TCGA-GN-A261 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A262                     TCGA-GN-A264 
  "DEL PEAK 27(19P13.3) MUTATED" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A265                     TCGA-GN-A266 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
                    TCGA-GN-A267                     TCGA-GN-A268 
"DEL PEAK 27(19P13.3) WILD-TYPE"   "DEL PEAK 27(19P13.3) MUTATED" 
                    TCGA-GN-A26A                     TCGA-GN-A26D 
"DEL PEAK 27(19P13.3) WILD-TYPE" "DEL PEAK 27(19P13.3) WILD-TYPE" 
[1] "hr=" "1.3"
D51V2, continuous
                                vv
clus                             DISTANT METASTASIS PRIMARY TUMOR
  DEL PEAK 27(19P13.3) MUTATED                    9             0
  DEL PEAK 27(19P13.3) WILD-TYPE                 16             1
                                vv
clus                             REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)
  DEL PEAK 27(19P13.3) MUTATED                                                                                          6
  DEL PEAK 27(19P13.3) WILD-TYPE                                                                                       29
                                vv
clus                             REGIONAL LYMPH NODE
  DEL PEAK 27(19P13.3) MUTATED                    38
  DEL PEAK 27(19P13.3) WILD-TYPE                  74
D51V3, multiclass
                                                                                          clus
vv                                                                                         DEL PEAK 27(19P13.3) MUTATED
  DISTANT METASTASIS                                                                                                  9
  PRIMARY TUMOR                                                                                                       0
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            6
  REGIONAL LYMPH NODE                                                                                                38
                                                                                          clus
vv                                                                                         DEL PEAK 27(19P13.3) WILD-TYPE
  DISTANT METASTASIS                                                                                                   16
  PRIMARY TUMOR                                                                                                         1
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             29
  REGIONAL LYMPH NODE                                                                                                  74
D51V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(19P13.3) MUTATED     24   29
  DEL PEAK 27(19P13.3) WILD-TYPE   43   77
        clus
vv       DEL PEAK 27(19P13.3) MUTATED DEL PEAK 27(19P13.3) WILD-TYPE
  FEMALE                           24                             43
  MALE                             29                             77
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 27(19P13.3) MUTATED    44   0   1   1   2
  DEL PEAK 27(19P13.3) WILD-TYPE 106   2   1   1   0
D51V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 27(19P13.3) MUTATED   25  0   2   7  0   2   3   2  6  1
  DEL PEAK 27(19P13.3) WILD-TYPE 70  2   5   9  1   2   8   3 10  1
D51V6, multiclass
D51V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 27(19P13.3) MUTATED             2       3        4        6        2
  DEL PEAK 27(19P13.3) WILD-TYPE           2      14        6        8       17
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 27(19P13.3) MUTATED           2         2         2         2
  DEL PEAK 27(19P13.3) WILD-TYPE         6         8         6         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 27(19P13.3) MUTATED            2          8          8        2
  DEL PEAK 27(19P13.3) WILD-TYPE          4         10         15        4
D51V8, multiclass
                     V1.D                        V2                        V3 
          "Time to Death"                     "AGE" "PRIMARY.SITE.OF.DISEASE" 
                       V4                        V5                        V6 
                 "GENDER"      "DISTANT.METASTASIS"   "LYMPH.NODE.METASTASIS" 
                       V7                        V8 
        "TUMOR.STAGECODE"   "NEOPLASM.DISEASESTAGE" 
> q(save="no")
