Computes the expected mutation probability matrices (one per GAM type, per
sample block) used as the simulation background in null_model_parallel.
Value
A list with template.obj (per-block S matrices) and
temp_mat (full concatenated template matrices, one per GAM type).
Examples
# \donttest{
data(luad_run_data, package = "SelectSim")
al <- new.AL.general(luad_run_data$M,
feat.covariates = luad_run_data$alteration.class,
sample.covariates = luad_run_data$sample.class,
min.freq = 10)
template.obj.gen(al)
#> $template.obj
#> $template.obj$missense
#> $template.obj$missense$LUAD
#> TCGA-05-4244-01 TCGA-05-4249-01 TCGA-05-4250-01 TCGA-05-4382-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.00000000
#> ATM 0.005397530 0.008377761 0.008940693 0.04397497
#> BRAF 0.043180238 0.067022087 0.071525547 0.35179973
#> CDKN2A 0.013493824 0.020944402 0.022351734 0.10993742
#> CMTR2 0.000000000 0.000000000 0.000000000 0.00000000
#> CTNNB1 0.016192589 0.025133283 0.026822080 0.13192490
#> EGFR 0.040481473 0.062833206 0.067055201 0.32981225
#> KEAP1 0.017541972 0.027227723 0.029057254 0.14291864
#> KRAS 0.207804894 0.322543793 0.344216696 1.00000000
#> MGA 0.000000000 0.000000000 0.000000000 0.00000000
#> NF1 0.001349382 0.002094440 0.002235173 0.01099374
#> PIK3CA 0.025638266 0.039794364 0.042468294 0.20888109
#> PTPRD 0.000000000 0.000000000 0.000000000 0.00000000
#> PTPRT 0.001349382 0.002094440 0.002235173 0.01099374
#> RB1 0.000000000 0.000000000 0.000000000 0.00000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.00000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.00000000
#> SETD2 0.002698765 0.004188880 0.004470347 0.02198748
#> SMAD4 0.009445677 0.014661081 0.015646213 0.07695619
#> SMARCA4 0.004048147 0.006283321 0.006705520 0.03298122
#> STK11 0.010795059 0.016755522 0.017881387 0.08794993
#> TP53 0.171371569 0.265993907 0.283867015 1.00000000
#> U2AF1 0.016192589 0.025133283 0.026822080 0.13192490
#> TCGA-05-4384-01 TCGA-05-4389-01 TCGA-05-4390-01 TCGA-05-4395-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.003311368 0.006192258 0.014503792 0.006523395
#> BRAF 0.026490943 0.049538064 0.116030332 0.052187159
#> CDKN2A 0.008278420 0.015480645 0.036259479 0.016308487
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.009934104 0.018576774 0.043511375 0.019570184
#> EGFR 0.024835259 0.046441935 0.108778436 0.048925461
#> KEAP1 0.010761946 0.020124839 0.047137322 0.021201033
#> KRAS 0.127487665 0.238401934 0.558395973 0.251150700
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.000827842 0.001548065 0.003625948 0.001630849
#> PIK3CA 0.015728998 0.029413226 0.068893010 0.030986125
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.000827842 0.001548065 0.003625948 0.001630849
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.001655684 0.003096129 0.007251896 0.003261697
#> SMAD4 0.005794894 0.010836452 0.025381635 0.011415941
#> SMARCA4 0.002483526 0.004644194 0.010877844 0.004892546
#> STK11 0.006622736 0.012384516 0.029007583 0.013046790
#> TP53 0.105135932 0.196604192 0.460495381 0.207117785
#> U2AF1 0.009934104 0.018576774 0.043511375 0.019570184
#> TCGA-05-4396-01 TCGA-05-4397-01 TCGA-05-4403-01 TCGA-05-4405-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.036391934 0.020795391 0.0034438226 0.010298354
#> BRAF 0.291135468 0.166363125 0.0275505811 0.082386834
#> CDKN2A 0.090979834 0.051988476 0.0086095566 0.025745886
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.109175801 0.062386172 0.0103314679 0.030895063
#> EGFR 0.272939501 0.155965429 0.0258286698 0.077237657
#> KEAP1 0.118273784 0.067585019 0.0111924236 0.033469651
#> KRAS 1.000000000 0.800622537 0.1325871718 0.396486639
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.009097983 0.005198848 0.0008609557 0.002574589
#> PIK3CA 0.172861684 0.098778105 0.0163581576 0.048917183
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.009097983 0.005198848 0.0008609557 0.002574589
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.018195967 0.010397695 0.0017219113 0.005149177
#> SMAD4 0.063685884 0.036391934 0.0060266896 0.018022120
#> SMARCA4 0.027293950 0.015596543 0.0025828670 0.007723766
#> STK11 0.072783867 0.041590781 0.0068876453 0.020596709
#> TP53 1.000000000 0.660253651 0.1093413689 0.326972747
#> U2AF1 0.109175801 0.062386172 0.0103314679 0.030895063
#> TCGA-05-4410-01 TCGA-05-4415-01 TCGA-05-4417-01 TCGA-05-4418-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.029007583 0.005331302 0.007814828 0.007086327
#> BRAF 0.232060664 0.042650419 0.062518626 0.056690619
#> CDKN2A 0.072518958 0.013328256 0.019537071 0.017715818
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.087022749 0.015993907 0.023444485 0.021258982
#> EGFR 0.217556873 0.039984768 0.058611212 0.053147455
#> KEAP1 0.094274645 0.017326733 0.025398192 0.023030564
#> KRAS 1.000000000 0.205255141 0.300870890 0.272823603
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007251896 0.001332826 0.001953707 0.001771582
#> PIK3CA 0.137786019 0.025323686 0.037120434 0.033660055
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007251896 0.001332826 0.001953707 0.001771582
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014503792 0.002665651 0.003907414 0.003543164
#> SMAD4 0.050763270 0.009329779 0.013675950 0.012401073
#> SMARCA4 0.021755687 0.003998477 0.005861121 0.005314746
#> STK11 0.058015166 0.010662605 0.015629657 0.014172655
#> TP53 0.920990761 0.169268850 0.248120799 0.224990894
#> U2AF1 0.087022749 0.015993907 0.023444485 0.021258982
#> TCGA-05-4420-01 TCGA-05-4422-01 TCGA-05-4425-01 TCGA-05-4427-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.007152555 0.0009934104 0.0011258651 0.026788967
#> BRAF 0.057220438 0.0079472830 0.0090069208 0.214311732
#> CDKN2A 0.017881387 0.0024835259 0.0028146627 0.066972416
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.021457664 0.0029802311 0.0033775953 0.080366900
#> EGFR 0.053644160 0.0074505778 0.0084439882 0.200917249
#> KEAP1 0.023245803 0.0032285837 0.0036590616 0.087064141
#> KRAS 0.275373357 0.0382462995 0.0433458062 1.000000000
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.001788139 0.0002483526 0.0002814663 0.006697242
#> PIK3CA 0.033974635 0.0047186993 0.0053478592 0.127247591
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.001788139 0.0002483526 0.0002814663 0.006697242
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.003576277 0.0004967052 0.0005629325 0.013394483
#> SMAD4 0.012516971 0.0017384682 0.0019702639 0.046880691
#> SMARCA4 0.005364416 0.0007450578 0.0008443988 0.020091725
#> STK11 0.014305109 0.0019868208 0.0022517302 0.053577933
#> TP53 0.227093612 0.0315407795 0.0357462168 0.850549687
#> U2AF1 0.021457664 0.0029802311 0.0033775953 0.080366900
#> TCGA-05-4430-01 TCGA-05-4432-01 TCGA-05-4433-01 TCGA-05-5423-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.007682374 0.014768701 0.0009602967 0.003940528
#> BRAF 0.061458989 0.118149608 0.0076823736 0.031524223
#> CDKN2A 0.019205934 0.036921752 0.0024007417 0.009851320
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.023047121 0.044306103 0.0028808901 0.011821583
#> EGFR 0.057617802 0.110765257 0.0072022252 0.029553959
#> KEAP1 0.024967714 0.047998278 0.0031209643 0.012806715
#> KRAS 0.295771383 0.568594987 0.0369714229 0.151710322
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001920593 0.003692175 0.0002400742 0.000985132
#> PIK3CA 0.036491275 0.070151330 0.0045614093 0.018717507
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001920593 0.003692175 0.0002400742 0.000985132
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003841187 0.007384350 0.0004801483 0.001970264
#> SMAD4 0.013444154 0.025845227 0.0016805192 0.006895924
#> SMARCA4 0.005761780 0.011076526 0.0007202225 0.002955396
#> STK11 0.015364747 0.029537402 0.0019205934 0.007881056
#> TP53 0.243915361 0.468906255 0.0304894202 0.125111759
#> U2AF1 0.023047121 0.044306103 0.0028808901 0.011821583
#> TCGA-05-5425-01 TCGA-05-5428-01 TCGA-05-5429-01 TCGA-35-3615-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.015066724 0.009602967 0.0008609557 0.0029140038
#> BRAF 0.120533793 0.076823736 0.0068876453 0.0233120302
#> CDKN2A 0.037666810 0.024007417 0.0021523892 0.0072850094
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.045200172 0.028808901 0.0025828670 0.0087420113
#> EGFR 0.113000430 0.072022252 0.0064571675 0.0218550283
#> KEAP1 0.048966853 0.031209643 0.0027981059 0.0094705123
#> KRAS 0.580068876 0.369714229 0.0331467929 0.1121891453
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.003766681 0.002400742 0.0002152389 0.0007285009
#> PIK3CA 0.071566939 0.045614093 0.0040895394 0.0138415179
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.003766681 0.002400742 0.0002152389 0.0007285009
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.007533362 0.004801483 0.0004304778 0.0014570019
#> SMAD4 0.026366767 0.016805192 0.0015066724 0.0050995066
#> SMARCA4 0.011300043 0.007202225 0.0006457167 0.0021855028
#> STK11 0.030133448 0.019205934 0.0017219113 0.0058280075
#> TP53 0.478368489 0.304894202 0.0273353422 0.0925196199
#> U2AF1 0.045200172 0.028808901 0.0025828670 0.0087420113
#> TCGA-35-4122-01 TCGA-35-4123-01 TCGA-35-5375-01 TCGA-38-4625-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008443988 0.006953873 0.010795059 0.015000497
#> BRAF 0.067551906 0.055630981 0.086360476 0.120003974
#> CDKN2A 0.021109971 0.017384682 0.026987649 0.037501242
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025331965 0.020861618 0.032385178 0.045001490
#> EGFR 0.063329912 0.052154045 0.080962946 0.112503725
#> KEAP1 0.027442962 0.022600086 0.035083943 0.048751614
#> KRAS 0.325093546 0.267724097 0.415609788 0.577519123
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002110997 0.001738468 0.002698765 0.003750124
#> PIK3CA 0.040108944 0.033030895 0.051276532 0.071252359
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002110997 0.001738468 0.002698765 0.003750124
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004221994 0.003476936 0.005397530 0.007500248
#> SMAD4 0.014776979 0.012169277 0.018891354 0.026250869
#> SMARCA4 0.006332991 0.005215404 0.008096295 0.011250373
#> STK11 0.016887976 0.013907745 0.021590119 0.030000993
#> TP53 0.268096626 0.220785456 0.342743137 0.476265770
#> U2AF1 0.025331965 0.020861618 0.032385178 0.045001490
#> TCGA-38-4627-01 TCGA-38-4631-01 TCGA-38-4632-01 TCGA-38-6178-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0007947283 0.018643001 0.013973973 0.0017550250
#> BRAF 0.0063578264 0.149144011 0.111791781 0.0140402000
#> CDKN2A 0.0019868208 0.046607504 0.034934932 0.0043875625
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0023841849 0.055929004 0.041921918 0.0052650750
#> EGFR 0.0059604623 0.139822511 0.104804795 0.0131626875
#> KEAP1 0.0025828670 0.060589755 0.045415411 0.0057038313
#> KRAS 0.0305970396 0.717755555 0.537997947 0.0675684625
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0001986821 0.004660750 0.003493493 0.0004387563
#> PIK3CA 0.0037749594 0.088554257 0.066376370 0.0083363688
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0001986821 0.004660750 0.003493493 0.0004387563
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0003973642 0.009321501 0.006986986 0.0008775125
#> SMAD4 0.0013907745 0.032625252 0.024454452 0.0030712938
#> SMARCA4 0.0005960462 0.013982251 0.010480479 0.0013162688
#> STK11 0.0015894566 0.037286003 0.027947945 0.0035100500
#> TP53 0.0252326236 0.591915295 0.443673632 0.0557220438
#> U2AF1 0.0023841849 0.055929004 0.041921918 0.0052650750
#> TCGA-44-2656-01 TCGA-44-2657-01 TCGA-44-2662-01 TCGA-44-2665-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.020927845 0.010761946 0.005364416 0.0012252061
#> BRAF 0.167422762 0.086095566 0.042915328 0.0098016491
#> CDKN2A 0.052319613 0.026904864 0.013411040 0.0030630153
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.062783536 0.032285837 0.016093248 0.0036756184
#> EGFR 0.156958840 0.080714593 0.040233120 0.0091890460
#> KEAP1 0.068015497 0.034976324 0.017434352 0.0039819199
#> KRAS 0.805722044 0.414334912 0.206530018 0.0471704361
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.005231961 0.002690486 0.001341104 0.0003063015
#> PIK3CA 0.099407265 0.051119242 0.025480976 0.0058197291
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.005231961 0.002690486 0.001341104 0.0003063015
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.010463923 0.005380973 0.002682208 0.0006126031
#> SMAD4 0.036623729 0.018833405 0.009387728 0.0021441107
#> SMARCA4 0.015695884 0.008071459 0.004023312 0.0009189046
#> STK11 0.041855691 0.021523892 0.010728832 0.0024504123
#> TP53 0.664459088 0.341691778 0.170320209 0.0389002947
#> U2AF1 0.062783536 0.032285837 0.016093248 0.0036756184
#> TCGA-44-2666-01 TCGA-44-2668-01 TCGA-44-3396-01 TCGA-44-5643-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0011589788 0.008675784 0.005198848 0.0031126859
#> BRAF 0.0092718302 0.069406272 0.041590781 0.0249014868
#> CDKN2A 0.0028974469 0.021689460 0.012997119 0.0077817146
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0034769363 0.026027352 0.015596543 0.0093380576
#> EGFR 0.0086923408 0.065068380 0.038991357 0.0233451439
#> KEAP1 0.0037666810 0.028196298 0.016896255 0.0101162290
#> KRAS 0.0446206828 0.334017683 0.200155634 0.1198384052
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0002897447 0.002168946 0.001299712 0.0007781715
#> PIK3CA 0.0055051492 0.041209974 0.024694526 0.0147852578
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0002897447 0.002168946 0.001299712 0.0007781715
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0005794894 0.004337892 0.002599424 0.0015563429
#> SMAD4 0.0020282129 0.015182622 0.009097983 0.0054472002
#> SMARCA4 0.0008692341 0.006506838 0.003899136 0.0023345144
#> STK11 0.0023179575 0.017351568 0.010397695 0.0062253717
#> TP53 0.0367975761 0.275456141 0.165063413 0.0988277758
#> U2AF1 0.0034769363 0.026027352 0.015596543 0.0093380576
#> TCGA-44-5645-01 TCGA-44-6145-01 TCGA-44-6146-01 TCGA-44-6774-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0008940693 0.008311533 0.0009934104 0.007715487
#> BRAF 0.0071525547 0.066492268 0.0079472830 0.061723898
#> CDKN2A 0.0022351734 0.020778834 0.0024835259 0.019288718
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0026822080 0.024934600 0.0029802311 0.023146462
#> EGFR 0.0067055201 0.062336501 0.0074505778 0.057866155
#> KEAP1 0.0029057254 0.027012484 0.0032285837 0.025075334
#> KRAS 0.0344216696 0.319994040 0.0382462995 0.297046260
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002235173 0.002077883 0.0002483526 0.001928872
#> PIK3CA 0.0042468294 0.039479784 0.0047186993 0.036648565
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002235173 0.002077883 0.0002483526 0.001928872
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004470347 0.004155767 0.0004967052 0.003857744
#> SMAD4 0.0015646213 0.014545184 0.0017384682 0.013502103
#> SMARCA4 0.0006705520 0.006233650 0.0007450578 0.005786615
#> STK11 0.0017881387 0.016623067 0.0019868208 0.015430975
#> TP53 0.0283867015 0.263891188 0.0315407795 0.244966721
#> U2AF1 0.0026822080 0.024934600 0.0029802311 0.023146462
#> TCGA-44-6775-01 TCGA-44-6776-01 TCGA-44-6777-01 TCGA-44-7659-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0016887976 0.005331302 0.010099672 0.0039074142
#> BRAF 0.0135103811 0.042650419 0.080797377 0.0312593132
#> CDKN2A 0.0042219941 0.013328256 0.025249180 0.0097685354
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0050663929 0.015993907 0.030299017 0.0117222425
#> EGFR 0.0126659823 0.039984768 0.075747541 0.0293056061
#> KEAP1 0.0054885923 0.017326733 0.032823935 0.0126990960
#> KRAS 0.0650187092 0.205255141 0.388837379 0.1504354449
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0004221994 0.001332826 0.002524918 0.0009768535
#> PIK3CA 0.0080217888 0.025323686 0.047973443 0.0185602172
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0004221994 0.001332826 0.002524918 0.0009768535
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0008443988 0.002665651 0.005049836 0.0019537071
#> SMAD4 0.0029553959 0.009329779 0.017674426 0.0068379748
#> SMARCA4 0.0012665982 0.003998477 0.007574754 0.0029305606
#> STK11 0.0033775953 0.010662605 0.020199344 0.0078148283
#> TP53 0.0536193251 0.169268850 0.320664592 0.1240603994
#> U2AF1 0.0050663929 0.015993907 0.030299017 0.0117222425
#> TCGA-44-7661-01 TCGA-44-7662-01 TCGA-44-7670-01 TCGA-44-7671-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.007881056 0.015662770 0.028245968 0.005496871
#> BRAF 0.063048445 0.125302162 0.225967747 0.043974966
#> CDKN2A 0.019702639 0.039156926 0.070614921 0.013742177
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.023643167 0.046988311 0.084737905 0.016490612
#> EGFR 0.059107917 0.117470777 0.211844763 0.041226531
#> KEAP1 0.025613431 0.050904003 0.091799397 0.017864830
#> KRAS 0.303420643 0.603016656 1.000000000 0.211629524
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001970264 0.003915693 0.007061492 0.001374218
#> PIK3CA 0.037435014 0.074398159 0.134168350 0.026110136
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001970264 0.003915693 0.007061492 0.001374218
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.003940528 0.007831385 0.014122984 0.002748435
#> SMAD4 0.013791847 0.027409848 0.049430445 0.009619524
#> SMARCA4 0.005910792 0.011747078 0.021184476 0.004122653
#> STK11 0.015762111 0.031325541 0.056491937 0.010993742
#> TP53 0.250223517 0.497292957 0.896809497 0.174525647
#> U2AF1 0.023643167 0.046988311 0.084737905 0.016490612
#> TCGA-44-7672-01 TCGA-44-8117-01 TCGA-44-8119-01 TCGA-44-8120-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.004371006 0.018974138 0.016623067 0.014901156
#> BRAF 0.034968045 0.151793106 0.132984536 0.119209245
#> CDKN2A 0.010927514 0.047435346 0.041557667 0.037252889
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.013113017 0.056922415 0.049869201 0.044703467
#> EGFR 0.032782542 0.142306037 0.124673002 0.111758668
#> KEAP1 0.014205768 0.061665949 0.054024968 0.048428756
#> KRAS 0.168283718 0.730504321 0.639988079 0.573694493
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001092751 0.004743535 0.004155767 0.003725289
#> PIK3CA 0.020762277 0.090127157 0.078959568 0.070780489
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001092751 0.004743535 0.004155767 0.003725289
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002185503 0.009487069 0.008311533 0.007450578
#> SMAD4 0.007649260 0.033204742 0.029090367 0.026077022
#> SMARCA4 0.003278254 0.014230604 0.012467300 0.011175867
#> STK11 0.008742011 0.037948276 0.033246134 0.029802311
#> TP53 0.138779430 0.602428888 0.527782377 0.473111692
#> U2AF1 0.013113017 0.056922415 0.049869201 0.044703467
#> TCGA-44-A47A-01 TCGA-44-A47G-01 TCGA-44-A4SS-01 TCGA-44-A4SU-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.005794894 0.0021523892 0.012715653 0.003940528
#> BRAF 0.046359151 0.0172191132 0.101725223 0.031524223
#> CDKN2A 0.014487235 0.0053809729 0.031789132 0.009851320
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.017384682 0.0064571675 0.038146959 0.011821583
#> EGFR 0.043461704 0.0161429186 0.095367396 0.029553959
#> KEAP1 0.018833405 0.0069952647 0.041325872 0.012806715
#> KRAS 0.223103414 0.0828669824 0.489552634 0.151710322
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001448723 0.0005380973 0.003178913 0.000985132
#> PIK3CA 0.027525746 0.0102238485 0.060399351 0.018717507
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001448723 0.0005380973 0.003178913 0.000985132
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.002897447 0.0010761946 0.006357826 0.001970264
#> SMAD4 0.010141064 0.0037666810 0.022252392 0.006895924
#> SMARCA4 0.004346170 0.0016142919 0.009536740 0.002955396
#> STK11 0.011589788 0.0043047783 0.025431306 0.007881056
#> TP53 0.183987880 0.0683383556 0.403721978 0.125111759
#> U2AF1 0.017384682 0.0064571675 0.038146959 0.011821583
#> TCGA-49-4486-01 TCGA-49-4488-01 TCGA-49-4490-01 TCGA-49-4494-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.004205437 0.007483692 0.0015232292 0.004900825
#> BRAF 0.033643498 0.059869532 0.0121858340 0.039206596
#> CDKN2A 0.010513593 0.018709229 0.0038080731 0.012252061
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.012616312 0.022451075 0.0045696877 0.014702474
#> EGFR 0.031540779 0.056127686 0.0114242193 0.036756184
#> KEAP1 0.013667671 0.024321997 0.0049504950 0.015927680
#> KRAS 0.161909335 0.288122123 0.0586443260 0.188681744
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001051359 0.001870923 0.0003808073 0.001225206
#> PIK3CA 0.019975827 0.035547535 0.0072353389 0.023278917
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001051359 0.001870923 0.0003808073 0.001225206
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.002102719 0.003741846 0.0007616146 0.002450412
#> SMAD4 0.007359515 0.013096460 0.0026656512 0.008576443
#> SMARCA4 0.003154078 0.005612769 0.0011424219 0.003675618
#> STK11 0.008410875 0.014967383 0.0030464585 0.009801649
#> TP53 0.133522633 0.237607206 0.0483625286 0.155601179
#> U2AF1 0.012616312 0.022451075 0.0045696877 0.014702474
#> TCGA-49-4505-01 TCGA-49-4506-01 TCGA-49-4507-01 TCGA-49-4510-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.005430643 0.0030464585 0.005298189 0.0016225703
#> BRAF 0.043445147 0.0243716679 0.042385509 0.0129805623
#> CDKN2A 0.013576608 0.0076161462 0.013245472 0.0040564257
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.016291930 0.0091393755 0.015894566 0.0048677109
#> EGFR 0.040729825 0.0228484387 0.039736415 0.0121692771
#> KEAP1 0.017649591 0.0099009901 0.017219113 0.0052733534
#> KRAS 0.209079771 0.1172886519 0.203980264 0.0624689559
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001357661 0.0007616146 0.001324547 0.0004056426
#> PIK3CA 0.025795556 0.0144706778 0.025166396 0.0077072088
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001357661 0.0007616146 0.001324547 0.0004056426
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.002715322 0.0015232292 0.002649094 0.0008112851
#> SMAD4 0.009503626 0.0053313024 0.009271830 0.0028394980
#> SMARCA4 0.004072983 0.0022848439 0.003973642 0.0012169277
#> STK11 0.010861287 0.0060929170 0.010596377 0.0032451406
#> TP53 0.172422928 0.0967250571 0.168217491 0.0515166065
#> U2AF1 0.016291930 0.0091393755 0.015894566 0.0048677109
#> TCGA-49-4514-01 TCGA-49-6744-01 TCGA-49-6745-01 TCGA-49-AAQV-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.008278420 0.006159144 0.0035100500 0.002053048
#> BRAF 0.066227359 0.049273155 0.0280804000 0.016424385
#> CDKN2A 0.020696050 0.015397861 0.0087751250 0.005132620
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.024835259 0.018477433 0.0105301500 0.006159144
#> EGFR 0.062088149 0.046193583 0.0263253750 0.015397861
#> KEAP1 0.026904864 0.020017219 0.0114076625 0.006672406
#> KRAS 0.318719163 0.237127057 0.1351369251 0.079042352
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.002069605 0.001539786 0.0008775125 0.000513262
#> PIK3CA 0.039322494 0.029255936 0.0166727375 0.009751979
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.002069605 0.001539786 0.0008775125 0.000513262
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.004139210 0.003079572 0.0017550250 0.001026524
#> SMAD4 0.014487235 0.010778503 0.0061425875 0.003592834
#> SMARCA4 0.006208815 0.004619358 0.0026325375 0.001539786
#> STK11 0.016556840 0.012318289 0.0070201000 0.004106096
#> TP53 0.262839829 0.195552833 0.1114440876 0.065184278
#> U2AF1 0.024835259 0.018477433 0.0105301500 0.006159144
#> TCGA-49-AAR9-01 TCGA-49-AARE-01 TCGA-49-AARN-01 TCGA-49-AARO-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.00000000
#> ATM 0.016159475 0.034338885 0.020464254 0.01529852
#> BRAF 0.129275804 0.274711083 0.163714030 0.12238816
#> CDKN2A 0.040398689 0.085847213 0.051160634 0.03824630
#> CMTR2 0.000000000 0.000000000 0.000000000 0.00000000
#> CTNNB1 0.048478426 0.103016656 0.061392761 0.04589556
#> EGFR 0.121196066 0.257541640 0.153481903 0.11473890
#> KEAP1 0.052518295 0.111601378 0.066508825 0.04972019
#> KRAS 0.622139806 1.000000000 0.787873771 0.58899301
#> MGA 0.000000000 0.000000000 0.000000000 0.00000000
#> NF1 0.004039869 0.008584721 0.005116063 0.00382463
#> PIK3CA 0.076757509 0.163109706 0.097205205 0.07266797
#> PTPRD 0.000000000 0.000000000 0.000000000 0.00000000
#> PTPRT 0.004039869 0.008584721 0.005116063 0.00382463
#> RB1 0.000000000 0.000000000 0.000000000 0.00000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.00000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.00000000
#> SETD2 0.008079738 0.017169443 0.010232127 0.00764926
#> SMAD4 0.028279082 0.060093049 0.035812444 0.02677241
#> SMARCA4 0.012119607 0.025754164 0.015348190 0.01147389
#> STK11 0.032318951 0.068677771 0.040928508 0.03059704
#> TP53 0.513063346 1.000000000 0.649740058 0.48572800
#> U2AF1 0.048478426 0.103016656 0.061392761 0.04589556
#> TCGA-49-AARQ-01 TCGA-4B-A93V-01 TCGA-50-5044-01 TCGA-50-5051-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.018245637 0.0036756184 0.0036756184 0.0029802311
#> BRAF 0.145965098 0.0294049472 0.0294049472 0.0238418491
#> CDKN2A 0.045614093 0.0091890460 0.0091890460 0.0074505778
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.054736912 0.0110268552 0.0110268552 0.0089406934
#> EGFR 0.136842280 0.0275671380 0.0275671380 0.0223517335
#> KEAP1 0.059298321 0.0119457598 0.0119457598 0.0096857512
#> KRAS 0.702457035 0.1415113083 0.1415113083 0.1147388986
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.004561409 0.0009189046 0.0009189046 0.0007450578
#> PIK3CA 0.086666777 0.0174591874 0.0174591874 0.0141560979
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.004561409 0.0009189046 0.0009189046 0.0007450578
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.009122819 0.0018378092 0.0018378092 0.0014901156
#> SMAD4 0.031929865 0.0064323322 0.0064323322 0.0052154045
#> SMARCA4 0.013684228 0.0027567138 0.0027567138 0.0022351734
#> STK11 0.036491275 0.0073512368 0.0073512368 0.0059604623
#> TP53 0.579298983 0.1167008841 0.1167008841 0.0946223385
#> U2AF1 0.054736912 0.0110268552 0.0110268552 0.0089406934
#> TCGA-50-5066-01 TCGA-50-5068-01 TCGA-50-5930-01 TCGA-50-5932-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.007616146 0.0025497533 0.029106924 0.0018874797
#> BRAF 0.060929170 0.0203980264 0.232855393 0.0150998377
#> CDKN2A 0.019040366 0.0063743833 0.072767310 0.0047186993
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.022848439 0.0076492599 0.087320772 0.0056624392
#> EGFR 0.057121097 0.0191231498 0.218301931 0.0141560979
#> KEAP1 0.024752475 0.0082866982 0.094597503 0.0061343091
#> KRAS 0.293221630 0.0981655022 1.000000000 0.0726679691
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001904037 0.0006374383 0.007276731 0.0004718699
#> PIK3CA 0.036176695 0.0121113282 0.138257889 0.0089655287
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001904037 0.0006374383 0.007276731 0.0004718699
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.003808073 0.0012748767 0.014553462 0.0009437399
#> SMAD4 0.013328256 0.0044620683 0.050937117 0.0033030895
#> SMARCA4 0.005712110 0.0019123150 0.021830193 0.0014156098
#> STK11 0.015232292 0.0050995066 0.058213848 0.0037749594
#> TP53 0.241812643 0.0809546674 0.924144839 0.0599274810
#> U2AF1 0.022848439 0.0076492599 0.087320772 0.0056624392
#> TCGA-50-5933-01 TCGA-50-5936-01 TCGA-50-5939-01 TCGA-50-5941-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.014205768 0.0031457995 0.002053048 0.010397695
#> BRAF 0.113646147 0.0251663962 0.016424385 0.083181562
#> CDKN2A 0.035514421 0.0078644988 0.005132620 0.025994238
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.042617305 0.0094373986 0.006159144 0.031193086
#> EGFR 0.106543263 0.0235934965 0.015397861 0.077982715
#> KEAP1 0.046168747 0.0102238485 0.006672406 0.033792510
#> KRAS 0.546922084 0.1211132819 0.079042352 0.400311269
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.003551442 0.0007864499 0.000513262 0.002599424
#> PIK3CA 0.067477400 0.0149425478 0.009751979 0.049389053
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.003551442 0.0007864499 0.000513262 0.002599424
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.007102884 0.0015728998 0.001026524 0.005198848
#> SMAD4 0.024860095 0.0055051492 0.003592834 0.018195967
#> SMARCA4 0.010654326 0.0023593496 0.001539786 0.007798271
#> STK11 0.028411537 0.0062915991 0.004106096 0.020795391
#> TP53 0.451033147 0.0998791351 0.065184278 0.330126825
#> U2AF1 0.042617305 0.0094373986 0.006159144 0.031193086
#> TCGA-50-5942-01 TCGA-50-5944-01 TCGA-50-5946-01 TCGA-50-6591-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0016225703 0.0015563429 0.016589953 0.0015563429
#> BRAF 0.0129805623 0.0124507434 0.132719626 0.0124507434
#> CDKN2A 0.0040564257 0.0038908573 0.041474883 0.0038908573
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0048677109 0.0046690288 0.049769860 0.0046690288
#> EGFR 0.0121692771 0.0116725719 0.124424650 0.0116725719
#> KEAP1 0.0052733534 0.0050581145 0.053917348 0.0050581145
#> KRAS 0.0624689559 0.0599192026 0.638713202 0.0599192026
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0004056426 0.0003890857 0.004147488 0.0003890857
#> PIK3CA 0.0077072088 0.0073926289 0.078802278 0.0073926289
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0004056426 0.0003890857 0.004147488 0.0003890857
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0008112851 0.0007781715 0.008294977 0.0007781715
#> SMAD4 0.0028394980 0.0027236001 0.029032418 0.0027236001
#> SMARCA4 0.0012169277 0.0011672572 0.012442465 0.0011672572
#> STK11 0.0032451406 0.0031126859 0.033179907 0.0031126859
#> TP53 0.0515166065 0.0494138879 0.526731018 0.0494138879
#> U2AF1 0.0048677109 0.0046690288 0.049769860 0.0046690288
#> TCGA-50-6592-01 TCGA-50-6593-01 TCGA-50-6594-01 TCGA-50-6595-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.007450578 0.008079738 0.013046790 0.0027815491
#> BRAF 0.059604623 0.064637902 0.104374317 0.0222523925
#> CDKN2A 0.018626445 0.020199344 0.032616974 0.0069538726
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.022351734 0.024239213 0.039140369 0.0083446472
#> EGFR 0.055879334 0.060598033 0.097850922 0.0208616179
#> KEAP1 0.024214378 0.026259148 0.042402066 0.0090400344
#> KRAS 0.286847247 0.311069903 0.502301401 0.1070896387
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001862644 0.002019934 0.003261697 0.0006953873
#> PIK3CA 0.035390245 0.038378754 0.061972251 0.0132123580
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001862644 0.002019934 0.003261697 0.0006953873
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003725289 0.004039869 0.006523395 0.0013907745
#> SMAD4 0.013038511 0.014139541 0.022831882 0.0048677109
#> SMARCA4 0.005587933 0.006059803 0.009785092 0.0020861618
#> STK11 0.014901156 0.016159475 0.026093579 0.0055630981
#> TP53 0.236555846 0.256531673 0.414235571 0.0883141826
#> U2AF1 0.022351734 0.024239213 0.039140369 0.0083446472
#> TCGA-50-6673-01 TCGA-50-7109-01 TCGA-50-8459-01 TCGA-50-8460-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0022517302 0.006821418 0.0021523892 0.0008609557
#> BRAF 0.0180138415 0.054571343 0.0172191132 0.0068876453
#> CDKN2A 0.0056293255 0.017053545 0.0053809729 0.0021523892
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0067551906 0.020464254 0.0064571675 0.0025828670
#> EGFR 0.0168879764 0.051160634 0.0161429186 0.0064571675
#> KEAP1 0.0073181231 0.022169608 0.0069952647 0.0027981059
#> KRAS 0.0866916123 0.262624590 0.0828669824 0.0331467929
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0005629325 0.001705354 0.0005380973 0.0002152389
#> PIK3CA 0.0106957184 0.032401735 0.0102238485 0.0040895394
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0005629325 0.001705354 0.0005380973 0.0002152389
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0011258651 0.003410709 0.0010761946 0.0004304778
#> SMAD4 0.0039405278 0.011937481 0.0037666810 0.0015066724
#> SMARCA4 0.0016887976 0.005116063 0.0016142919 0.0006457167
#> STK11 0.0045034604 0.013642836 0.0043047783 0.0017219113
#> TP53 0.0714924335 0.216580019 0.0683383556 0.0273353422
#> U2AF1 0.0067551906 0.020464254 0.0064571675 0.0025828670
#> TCGA-53-7626-01 TCGA-53-7813-01 TCGA-53-A4EZ-01 TCGA-55-1592-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.028742674 0.003708732 0.012748767 0.014570019
#> BRAF 0.229941389 0.029669857 0.101990132 0.116560151
#> CDKN2A 0.071856684 0.009271830 0.031871916 0.036425047
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.086228021 0.011126196 0.038246300 0.043710057
#> EGFR 0.215570052 0.027815491 0.095615749 0.109275142
#> KEAP1 0.093413689 0.012053379 0.041433491 0.047352561
#> KRAS 1.000000000 0.142786185 0.490827511 0.560945727
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007185668 0.000927183 0.003187192 0.003642505
#> PIK3CA 0.136527700 0.017616477 0.060556641 0.069207590
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007185668 0.000927183 0.003187192 0.003642505
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014371337 0.001854366 0.006374383 0.007285009
#> SMAD4 0.050299679 0.006490281 0.022310341 0.025497533
#> SMARCA4 0.021557005 0.002781549 0.009561575 0.010927514
#> STK11 0.057485347 0.007417464 0.025497533 0.029140038
#> TP53 0.912579887 0.117752243 0.404773337 0.462598099
#> U2AF1 0.086228021 0.011126196 0.038246300 0.043710057
#> TCGA-55-1595-01 TCGA-55-1596-01 TCGA-55-6642-01 TCGA-55-6968-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008344647 0.004900825 0.003311368 0.013245472
#> BRAF 0.066757177 0.039206596 0.026490943 0.105963774
#> CDKN2A 0.020861618 0.012252061 0.008278420 0.033113679
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025033942 0.014702474 0.009934104 0.039736415
#> EGFR 0.062584854 0.036756184 0.024835259 0.099341038
#> KEAP1 0.027120103 0.015927680 0.010761946 0.043047783
#> KRAS 0.321268916 0.188681744 0.127487665 0.509950661
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002086162 0.001225206 0.000827842 0.003311368
#> PIK3CA 0.039637074 0.023278917 0.015728998 0.062915991
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002086162 0.001225206 0.000827842 0.003311368
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004172324 0.002450412 0.001655684 0.006622736
#> SMAD4 0.014603133 0.008576443 0.005794894 0.023179575
#> SMARCA4 0.006258485 0.003675618 0.002483526 0.009934104
#> STK11 0.016689294 0.009801649 0.006622736 0.026490943
#> TP53 0.264942548 0.155601179 0.105135932 0.420543727
#> U2AF1 0.025033942 0.014702474 0.009934104 0.039736415
#> TCGA-55-6969-01 TCGA-55-6970-01 TCGA-55-6975-01 TCGA-55-6979-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.012285175 0.004735256 0.002284844 0.015530316
#> BRAF 0.098281400 0.037882049 0.018278751 0.124242525
#> CDKN2A 0.030712938 0.011838140 0.005712110 0.038825789
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.036855525 0.014205768 0.006854532 0.046590947
#> EGFR 0.092138813 0.035514421 0.017136329 0.116477367
#> KEAP1 0.039926819 0.015389582 0.007425743 0.050473526
#> KRAS 0.472979238 0.182307361 0.087966489 0.597917150
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003071294 0.001183814 0.000571211 0.003882579
#> PIK3CA 0.058354581 0.022492467 0.010853008 0.073768999
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003071294 0.001183814 0.000571211 0.003882579
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.006142588 0.002367628 0.001142422 0.007765158
#> SMAD4 0.021499056 0.008286698 0.003998477 0.027178052
#> SMARCA4 0.009213881 0.003551442 0.001713633 0.011647737
#> STK11 0.024570350 0.009470512 0.004569688 0.031060631
#> TP53 0.390054306 0.150344382 0.072543793 0.493087519
#> U2AF1 0.036855525 0.014205768 0.006854532 0.046590947
#> TCGA-55-6981-01 TCGA-55-6983-01 TCGA-55-6984-01 TCGA-55-7281-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.005960462 0.0029471175 0.0008609557 0.012483857
#> BRAF 0.047683698 0.0235769396 0.0068876453 0.099870857
#> CDKN2A 0.014901156 0.0073677936 0.0021523892 0.031209643
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.017881387 0.0088413524 0.0025828670 0.037451571
#> EGFR 0.044703467 0.0221033809 0.0064571675 0.093628928
#> KEAP1 0.019371502 0.0095781317 0.0027981059 0.040572536
#> KRAS 0.229477797 0.1134640220 0.0331467929 0.480628498
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.001490116 0.0007367794 0.0002152389 0.003120964
#> PIK3CA 0.028312196 0.0139988079 0.0040895394 0.059298321
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.001490116 0.0007367794 0.0002152389 0.003120964
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.002980231 0.0014735587 0.0004304778 0.006241929
#> SMAD4 0.010430809 0.0051574555 0.0015066724 0.021846750
#> SMARCA4 0.004470347 0.0022103381 0.0006457167 0.009362893
#> STK11 0.011920925 0.0058942349 0.0017219113 0.024967714
#> TP53 0.189244677 0.0935709792 0.0273353422 0.396362462
#> U2AF1 0.017881387 0.0088413524 0.0025828670 0.037451571
#> TCGA-55-7283-01 TCGA-55-7284-01 TCGA-55-7570-01 TCGA-55-7573-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.005960462 0.0011920925 0.010000331 0.0013576608
#> BRAF 0.047683698 0.0095367396 0.080002649 0.0108612868
#> CDKN2A 0.014901156 0.0029802311 0.025000828 0.0033941521
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.017881387 0.0035762774 0.030000993 0.0040729825
#> EGFR 0.044703467 0.0089406934 0.075002484 0.0101824564
#> KEAP1 0.019371502 0.0038743005 0.032501076 0.0044123978
#> KRAS 0.229477797 0.0458955595 0.385012749 0.0522699427
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001490116 0.0002980231 0.002500083 0.0003394152
#> PIK3CA 0.028312196 0.0056624392 0.047501573 0.0064488890
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001490116 0.0002980231 0.002500083 0.0003394152
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.002980231 0.0005960462 0.005000166 0.0006788304
#> SMAD4 0.010430809 0.0020861618 0.017500579 0.0023759065
#> SMARCA4 0.004470347 0.0008940693 0.007500248 0.0010182456
#> STK11 0.011920925 0.0023841849 0.020000662 0.0027153217
#> TP53 0.189244677 0.0378489354 0.317510514 0.0431057320
#> U2AF1 0.017881387 0.0035762774 0.030000993 0.0040729825
#> TCGA-55-7576-01 TCGA-55-7724-01 TCGA-55-7725-01 TCGA-55-7726-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.010795059 0.006126031 0.0030464585 0.0030133448
#> BRAF 0.086360476 0.049008245 0.0243716679 0.0241067585
#> CDKN2A 0.026987649 0.015315077 0.0076161462 0.0075333620
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.032385178 0.018378092 0.0091393755 0.0090400344
#> EGFR 0.080962946 0.045945230 0.0228484387 0.0226000861
#> KEAP1 0.035083943 0.019909600 0.0099009901 0.0097933706
#> KRAS 0.415609788 0.235852181 0.1172886519 0.1160137753
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.002698765 0.001531508 0.0007616146 0.0007533362
#> PIK3CA 0.051276532 0.029098646 0.0144706778 0.0143133879
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.002698765 0.001531508 0.0007616146 0.0007533362
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.005397530 0.003063015 0.0015232292 0.0015066724
#> SMAD4 0.018891354 0.010720554 0.0053313024 0.0052733534
#> SMARCA4 0.008096295 0.004594523 0.0022848439 0.0022600086
#> STK11 0.021590119 0.012252061 0.0060929170 0.0060266896
#> TP53 0.342743137 0.194501474 0.0967250571 0.0956736978
#> U2AF1 0.032385178 0.018378092 0.0091393755 0.0090400344
#> TCGA-55-7727-01 TCGA-55-7728-01 TCGA-55-7815-01 TCGA-55-7903-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.006457167 0.0024504123 0.0037418458 0.0039074142
#> BRAF 0.051657340 0.0196032981 0.0299347661 0.0312593132
#> CDKN2A 0.016142919 0.0061260307 0.0093546144 0.0097685354
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.019371502 0.0073512368 0.0112255373 0.0117222425
#> EGFR 0.048428756 0.0183780920 0.0280638432 0.0293056061
#> KEAP1 0.020985794 0.0079638399 0.0121609987 0.0126990960
#> KRAS 0.248600947 0.0943408722 0.1440610616 0.1504354449
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.001614292 0.0006126031 0.0009354614 0.0009768535
#> PIK3CA 0.030671545 0.0116394583 0.0177737673 0.0185602172
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.001614292 0.0006126031 0.0009354614 0.0009768535
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.003228584 0.0012252061 0.0018709229 0.0019537071
#> SMAD4 0.011300043 0.0042882215 0.0065482301 0.0068379748
#> SMARCA4 0.004842876 0.0018378092 0.0028063843 0.0029305606
#> STK11 0.012914335 0.0049008245 0.0074836915 0.0078148283
#> TP53 0.205015067 0.0778005894 0.1188036028 0.1240603994
#> U2AF1 0.019371502 0.0073512368 0.0112255373 0.0117222425
#> TCGA-55-7907-01 TCGA-55-7910-01 TCGA-55-7911-01 TCGA-55-7913-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.029802311 0.008245306 0.005927349 0.008973807
#> BRAF 0.238418491 0.065962449 0.047418789 0.071790457
#> CDKN2A 0.074505778 0.020613265 0.014818371 0.022434518
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.089406934 0.024735918 0.017782046 0.026921421
#> EGFR 0.223517335 0.061839796 0.044455114 0.067303553
#> KEAP1 0.096857512 0.026797245 0.019263883 0.029164873
#> KRAS 1.000000000 0.317444286 0.228202921 0.345491573
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007450578 0.002061327 0.001481837 0.002243452
#> PIK3CA 0.141560979 0.039165204 0.028154906 0.042625584
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007450578 0.002061327 0.001481837 0.002243452
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014901156 0.004122653 0.002963674 0.004486904
#> SMAD4 0.052154045 0.014429286 0.010372860 0.015704162
#> SMARCA4 0.022351734 0.006183980 0.004445511 0.006730355
#> STK11 0.059604623 0.016490612 0.011854697 0.017947614
#> TP53 0.946223385 0.261788470 0.188193318 0.284918375
#> U2AF1 0.089406934 0.024735918 0.017782046 0.026921421
#> TCGA-55-7914-01 TCGA-55-7994-01 TCGA-55-7995-01 TCGA-55-8085-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.004768370 0.039074142 0.017682705 0.006324713
#> BRAF 0.038146959 0.312593132 0.141461638 0.050597702
#> CDKN2A 0.011920925 0.097685354 0.044206762 0.015811782
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.014305109 0.117222425 0.053048114 0.018974138
#> EGFR 0.035762774 0.293056061 0.132620285 0.047435346
#> KEAP1 0.015497202 0.126990960 0.057468790 0.020555316
#> KRAS 0.183582238 1.000000000 0.680784132 0.243501440
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001192092 0.009768535 0.004420676 0.001581178
#> PIK3CA 0.022649757 0.185602172 0.083992847 0.030042386
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001192092 0.009768535 0.004420676 0.001581178
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002384185 0.019537071 0.008841352 0.003162356
#> SMAD4 0.008344647 0.068379748 0.030944733 0.011068247
#> SMARCA4 0.003576277 0.029305606 0.013262029 0.004743535
#> STK11 0.009536740 0.078148283 0.035365409 0.012649425
#> TP53 0.151395742 1.000000000 0.561425875 0.200809629
#> U2AF1 0.014305109 0.117222425 0.053048114 0.018974138
#> TCGA-55-8089-01 TCGA-55-8090-01 TCGA-55-8092-01 TCGA-55-8094-01
#> ARID1A 0.00000000 0.0000000000 0.00000000 0.000000000
#> ATM 0.03142488 0.0021855028 0.01404020 0.011192424
#> BRAF 0.25139905 0.0174840226 0.11232160 0.089539389
#> CDKN2A 0.07856220 0.0054637571 0.03510050 0.027981059
#> CMTR2 0.00000000 0.0000000000 0.00000000 0.000000000
#> CTNNB1 0.09427464 0.0065565085 0.04212060 0.033577271
#> EGFR 0.23568661 0.0163912712 0.10530150 0.083943177
#> KEAP1 0.10213087 0.0071028842 0.04563065 0.036375377
#> KRAS 1.00000000 0.0841418590 0.54054770 0.430908308
#> MGA 0.00000000 0.0000000000 0.00000000 0.000000000
#> NF1 0.00785622 0.0005463757 0.00351005 0.002798106
#> PIK3CA 0.14926819 0.0103811384 0.06669095 0.053164012
#> PTPRD 0.00000000 0.0000000000 0.00000000 0.000000000
#> PTPRT 0.00785622 0.0005463757 0.00351005 0.002798106
#> RB1 0.00000000 0.0000000000 0.00000000 0.000000000
#> RBM10 0.00000000 0.0000000000 0.00000000 0.000000000
#> SETBP1 0.00000000 0.0000000000 0.00000000 0.000000000
#> SETD2 0.01571244 0.0010927514 0.00702010 0.005596212
#> SMAD4 0.05499354 0.0038246300 0.02457035 0.019586741
#> SMARCA4 0.02356866 0.0016391271 0.01053015 0.008394318
#> STK11 0.06284976 0.0043710057 0.02808040 0.022384847
#> TP53 0.99773999 0.0693897149 0.44577635 0.355359449
#> U2AF1 0.09427464 0.0065565085 0.04212060 0.033577271
#> TCGA-55-8096-01 TCGA-55-8097-01 TCGA-55-8203-01 TCGA-55-8205-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0037749594 0.0028808901 0.011391106 0.013113017
#> BRAF 0.0301996755 0.0230471208 0.091128845 0.104904136
#> CDKN2A 0.0094373986 0.0072022252 0.028477764 0.032782542
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0113248783 0.0086426703 0.034173317 0.039339051
#> EGFR 0.0283121958 0.0216066757 0.085433292 0.098347627
#> KEAP1 0.0122686182 0.0093628928 0.037021093 0.042617305
#> KRAS 0.1453359383 0.1109142687 0.438557568 0.504851154
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0009437399 0.0007202225 0.002847776 0.003278254
#> PIK3CA 0.0179310573 0.0136842280 0.054107752 0.062286831
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0009437399 0.0007202225 0.002847776 0.003278254
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0018874797 0.0014404450 0.005695553 0.006556508
#> SMAD4 0.0066061790 0.0050415577 0.019934435 0.022947780
#> SMARCA4 0.0028312196 0.0021606676 0.008543329 0.009834763
#> STK11 0.0075499189 0.0057617802 0.022782211 0.026226034
#> TP53 0.1198549621 0.0914682605 0.361667605 0.416338289
#> U2AF1 0.0113248783 0.0086426703 0.034173317 0.039339051
#> TCGA-55-8207-01 TCGA-55-8208-01 TCGA-55-8299-01 TCGA-55-8301-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008013510 0.009238717 0.005761780 0.007185668
#> BRAF 0.064108083 0.073909732 0.046094242 0.057485347
#> CDKN2A 0.020033776 0.023096791 0.014404450 0.017964171
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.024040531 0.027716150 0.017285341 0.021557005
#> EGFR 0.060101328 0.069290374 0.043213351 0.053892513
#> KEAP1 0.026043909 0.030025829 0.018725786 0.023353422
#> KRAS 0.308520150 0.355690586 0.221828537 0.276648233
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002003378 0.002309679 0.001440445 0.001796417
#> PIK3CA 0.038064174 0.043883903 0.027368456 0.034131925
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002003378 0.002309679 0.001440445 0.001796417
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004006755 0.004619358 0.002880890 0.003592834
#> SMAD4 0.014023643 0.016167754 0.010083115 0.012574920
#> SMARCA4 0.006010133 0.006929037 0.004321335 0.005389251
#> STK11 0.016027021 0.018477433 0.011523560 0.014371337
#> TP53 0.254428955 0.293329249 0.182936521 0.228144972
#> U2AF1 0.024040531 0.027716150 0.017285341 0.021557005
#> TCGA-55-8302-01 TCGA-55-8505-01 TCGA-55-8506-01 TCGA-55-8508-01
#> ARID1A 0.000000000 0.0000000000 0.00000000 0.000000000
#> ATM 0.017384682 0.0008278420 0.04231928 0.004437233
#> BRAF 0.139077453 0.0066227359 0.33855426 0.035497864
#> CDKN2A 0.043461704 0.0020696050 0.10579821 0.011093083
#> CMTR2 0.000000000 0.0000000000 0.00000000 0.000000000
#> CTNNB1 0.052154045 0.0024835259 0.12695785 0.013311699
#> EGFR 0.130385112 0.0062088149 0.31739462 0.033279248
#> KEAP1 0.056500215 0.0026904864 0.13753767 0.014421007
#> KRAS 0.669310242 0.0318719163 1.00000000 0.170833471
#> MGA 0.000000000 0.0000000000 0.00000000 0.000000000
#> NF1 0.004346170 0.0002069605 0.01057982 0.001109308
#> PIK3CA 0.082577238 0.0039322494 0.20101659 0.021076857
#> PTPRD 0.000000000 0.0000000000 0.00000000 0.000000000
#> PTPRT 0.004346170 0.0002069605 0.01057982 0.001109308
#> RB1 0.000000000 0.0000000000 0.00000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.00000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.00000000 0.000000000
#> SETD2 0.008692341 0.0004139210 0.02115964 0.002218617
#> SMAD4 0.030423193 0.0014487235 0.07405874 0.007765158
#> SMARCA4 0.013038511 0.0006208815 0.03173946 0.003327925
#> STK11 0.034769363 0.0016556840 0.08463856 0.008874466
#> TP53 0.551963641 0.0262839829 1.00000000 0.140882148
#> U2AF1 0.052154045 0.0024835259 0.12695785 0.013311699
#> TCGA-55-8511-01 TCGA-55-8512-01 TCGA-55-8514-01 TCGA-55-8614-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.014470678 0.001026524 0.006788304 0.005861121
#> BRAF 0.115765423 0.008212192 0.054306434 0.046888970
#> CDKN2A 0.036176695 0.002566310 0.016970761 0.014652803
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.043412034 0.003079572 0.020364913 0.017583364
#> EGFR 0.108530084 0.007698930 0.050912282 0.043958409
#> KEAP1 0.047029703 0.003336203 0.022061989 0.019048644
#> KRAS 0.557121097 0.039521176 0.261349714 0.225653167
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003617669 0.000256631 0.001697076 0.001465280
#> PIK3CA 0.068735720 0.004875989 0.032244445 0.027840326
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003617669 0.000256631 0.001697076 0.001465280
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.007235339 0.000513262 0.003394152 0.002930561
#> SMAD4 0.025323686 0.001796417 0.011879532 0.010256962
#> SMARCA4 0.010853008 0.000769893 0.005091228 0.004395841
#> STK11 0.028941356 0.002053048 0.013576608 0.011722242
#> TP53 0.459444021 0.032592139 0.215528660 0.186090599
#> U2AF1 0.043412034 0.003079572 0.020364913 0.017583364
#> TCGA-55-8615-01 TCGA-55-8616-01 TCGA-55-8620-01 TCGA-55-A48X-01
#> ARID1A 0.0000000000 0.00000000 0.000000000 0.000000000
#> ATM 0.0028808901 0.01215272 0.011788470 0.010298354
#> BRAF 0.0230471208 0.09722176 0.094307759 0.082386834
#> CDKN2A 0.0072022252 0.03038180 0.029471175 0.025745886
#> CMTR2 0.0000000000 0.00000000 0.000000000 0.000000000
#> CTNNB1 0.0086426703 0.03645816 0.035365409 0.030895063
#> EGFR 0.0216066757 0.09114540 0.088413524 0.077237657
#> KEAP1 0.0093628928 0.03949634 0.038312527 0.033469651
#> KRAS 0.1109142687 0.46787973 0.453856088 0.396486639
#> MGA 0.0000000000 0.00000000 0.000000000 0.000000000
#> NF1 0.0007202225 0.00303818 0.002947117 0.002574589
#> PIK3CA 0.0136842280 0.05772542 0.055995232 0.048917183
#> PTPRD 0.0000000000 0.00000000 0.000000000 0.000000000
#> PTPRT 0.0007202225 0.00303818 0.002947117 0.002574589
#> RB1 0.0000000000 0.00000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETD2 0.0014404450 0.00607636 0.005894235 0.005149177
#> SMAD4 0.0050415577 0.02126726 0.020629822 0.018022120
#> SMARCA4 0.0021606676 0.00911454 0.008841352 0.007723766
#> STK11 0.0057617802 0.02430544 0.023576940 0.020596709
#> TP53 0.0914682605 0.38584887 0.374283917 0.326972747
#> U2AF1 0.0086426703 0.03645816 0.035365409 0.030895063
#> TCGA-55-A48Y-01 TCGA-55-A48Z-01 TCGA-55-A490-01 TCGA-55-A491-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.009006921 0.0011920925 0.033345475 0.009569853
#> BRAF 0.072055366 0.0095367396 0.266763800 0.076558826
#> CDKN2A 0.022517302 0.0029802311 0.083363688 0.023924633
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.027020762 0.0035762774 0.100036425 0.028709560
#> EGFR 0.067551906 0.0089406934 0.250091063 0.071773900
#> KEAP1 0.029272492 0.0038743005 0.108372794 0.031102023
#> KRAS 0.346766449 0.0458955595 1.000000000 0.368439352
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002251730 0.0002980231 0.008336369 0.002392463
#> PIK3CA 0.042782874 0.0056624392 0.158391006 0.045456803
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002251730 0.0002980231 0.008336369 0.002392463
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004503460 0.0005960462 0.016672738 0.004784927
#> SMAD4 0.015762111 0.0020861618 0.058354581 0.016747243
#> SMARCA4 0.006755191 0.0008940693 0.025009106 0.007177390
#> STK11 0.018013842 0.0023841849 0.066690950 0.019139707
#> TP53 0.285969734 0.0378489354 1.000000000 0.303842842
#> U2AF1 0.027020762 0.0035762774 0.100036425 0.028709560
#> TCGA-55-A492-01 TCGA-55-A493-01 TCGA-55-A494-01 TCGA-55-A4DG-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.007218782 0.006755191 0.006059803 0.017748932
#> BRAF 0.057750257 0.054041525 0.048478426 0.141991457
#> CDKN2A 0.018046955 0.016887976 0.015149508 0.044372330
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.021656346 0.020265572 0.018179410 0.053246796
#> EGFR 0.054140866 0.050663929 0.045448525 0.133116991
#> KEAP1 0.023461042 0.021954369 0.019694361 0.057684029
#> KRAS 0.277923110 0.260074837 0.233302427 0.683333885
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001804696 0.001688798 0.001514951 0.004437233
#> PIK3CA 0.034289215 0.032087155 0.028784066 0.084307427
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001804696 0.001688798 0.001514951 0.004437233
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.003609391 0.003377595 0.003029902 0.008874466
#> SMAD4 0.012632869 0.011821583 0.010604656 0.031060631
#> SMARCA4 0.005414087 0.005066393 0.004544852 0.013311699
#> STK11 0.014437564 0.013510381 0.012119607 0.035497864
#> TP53 0.229196331 0.214477301 0.192398755 0.563528594
#> U2AF1 0.021656346 0.020265572 0.018179410 0.053246796
#> TCGA-55-A57B-01 TCGA-62-8394-01 TCGA-62-8395-01 TCGA-62-8398-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0011258651 0.0035100500 0.0019868208 0.0021523892
#> BRAF 0.0090069208 0.0280804000 0.0158945660 0.0172191132
#> CDKN2A 0.0028146627 0.0087751250 0.0049670519 0.0053809729
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0033775953 0.0105301500 0.0059604623 0.0064571675
#> EGFR 0.0084439882 0.0263253750 0.0149011557 0.0161429186
#> KEAP1 0.0036590616 0.0114076625 0.0064571675 0.0069952647
#> KRAS 0.0433458062 0.1351369251 0.0764925991 0.0828669824
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0002814663 0.0008775125 0.0004967052 0.0005380973
#> PIK3CA 0.0053478592 0.0166727375 0.0094373986 0.0102238485
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0002814663 0.0008775125 0.0004967052 0.0005380973
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0005629325 0.0017550250 0.0009934104 0.0010761946
#> SMAD4 0.0019702639 0.0061425875 0.0034769363 0.0037666810
#> SMARCA4 0.0008443988 0.0026325375 0.0014901156 0.0016142919
#> STK11 0.0022517302 0.0070201000 0.0039736415 0.0043047783
#> TP53 0.0357462168 0.1114440876 0.0630815590 0.0683383556
#> U2AF1 0.0033775953 0.0105301500 0.0059604623 0.0064571675
#> TCGA-62-8399-01 TCGA-62-8402-01 TCGA-62-A46R-01 TCGA-62-A46S-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.013278585 0.0011589788 0.004602801 0.0031789132
#> BRAF 0.106228683 0.0092718302 0.036822411 0.0254313057
#> CDKN2A 0.033196463 0.0028974469 0.011507004 0.0079472830
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.039835756 0.0034769363 0.013808404 0.0095367396
#> EGFR 0.099589390 0.0086923408 0.034521011 0.0238418491
#> KEAP1 0.043155402 0.0037666810 0.014959105 0.0103314679
#> KRAS 0.511225537 0.0446206828 0.177207855 0.1223881585
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.003319646 0.0002897447 0.001150700 0.0007947283
#> PIK3CA 0.063073281 0.0055051492 0.021863307 0.0150998377
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.003319646 0.0002897447 0.001150700 0.0007947283
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.006639293 0.0005794894 0.002301401 0.0015894566
#> SMAD4 0.023237524 0.0020282129 0.008054902 0.0055630981
#> SMARCA4 0.009958939 0.0008692341 0.003452101 0.0023841849
#> STK11 0.026557171 0.0023179575 0.009205603 0.0063578264
#> TP53 0.421595086 0.0367975761 0.146138945 0.1009304944
#> U2AF1 0.039835756 0.0034769363 0.013808404 0.0095367396
#> TCGA-62-A46U-01 TCGA-62-A46V-01 TCGA-62-A470-01 TCGA-62-A471-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0011920925 0.0014238882 0.0028146627 0.0026159807
#> BRAF 0.0095367396 0.0113911057 0.0225173019 0.0209278453
#> CDKN2A 0.0029802311 0.0035597205 0.0070366568 0.0065399517
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0035762774 0.0042716646 0.0084439882 0.0078479420
#> EGFR 0.0089406934 0.0106791616 0.0211099705 0.0196198550
#> KEAP1 0.0038743005 0.0046276367 0.0091476539 0.0085019372
#> KRAS 0.0458955595 0.0548196960 0.1083645154 0.1007152555
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0002980231 0.0003559721 0.0007036657 0.0006539952
#> PIK3CA 0.0056624392 0.0067634690 0.0133696480 0.0124259081
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0002980231 0.0003559721 0.0007036657 0.0006539952
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0005960462 0.0007119441 0.0014073314 0.0013079903
#> SMAD4 0.0020861618 0.0024918044 0.0049256598 0.0045779662
#> SMARCA4 0.0008940693 0.0010679162 0.0021109971 0.0019619855
#> STK11 0.0023841849 0.0028477764 0.0056293255 0.0052319613
#> TP53 0.0378489354 0.0452084506 0.0893655419 0.0830573860
#> U2AF1 0.0035762774 0.0042716646 0.0084439882 0.0078479420
#> TCGA-62-A472-01 TCGA-64-1676-01 TCGA-64-1677-01 TCGA-64-1679-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0014238882 0.015430975 0.005728667 0.013377926
#> BRAF 0.0113911057 0.123447796 0.045829332 0.107023411
#> CDKN2A 0.0035597205 0.038577436 0.014321666 0.033444816
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0042716646 0.046292924 0.017186000 0.040133779
#> EGFR 0.0106791616 0.115732309 0.042964999 0.100334448
#> KEAP1 0.0046276367 0.050150667 0.018618166 0.043478261
#> KRAS 0.0548196960 0.594092520 0.220553661 0.515050167
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003559721 0.003857744 0.001432167 0.003344482
#> PIK3CA 0.0067634690 0.073297129 0.027211166 0.063545151
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003559721 0.003857744 0.001432167 0.003344482
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0007119441 0.007715487 0.002864333 0.006688963
#> SMAD4 0.0024918044 0.027004205 0.010025166 0.023411371
#> SMARCA4 0.0010679162 0.011573231 0.004296500 0.010033445
#> STK11 0.0028477764 0.030861949 0.011457333 0.026755853
#> TP53 0.0452084506 0.489933442 0.181885162 0.424749164
#> U2AF1 0.0042716646 0.046292924 0.017186000 0.040133779
#> TCGA-64-1680-01 TCGA-64-1681-01 TCGA-64-5774-01 TCGA-64-5775-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.0015232292 0.0020861618 0.0036093910 0.011656015
#> BRAF 0.0121858340 0.0166892943 0.0288751283 0.093248121
#> CDKN2A 0.0038080731 0.0052154045 0.0090234776 0.029140038
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.0045696877 0.0062584854 0.0108281731 0.034968045
#> EGFR 0.0114242193 0.0156462135 0.0270704328 0.087420113
#> KEAP1 0.0049504950 0.0067800258 0.0117305209 0.037882049
#> KRAS 0.0586443260 0.0803172290 0.1389615550 0.448756581
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.0003808073 0.0005215404 0.0009023478 0.002914004
#> PIK3CA 0.0072353389 0.0099092685 0.0171446074 0.055366072
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.0003808073 0.0005215404 0.0009023478 0.002914004
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.0007616146 0.0010430809 0.0018046955 0.005828008
#> SMAD4 0.0026656512 0.0036507831 0.0063164343 0.020398026
#> SMARCA4 0.0011424219 0.0015646213 0.0027070433 0.008742011
#> STK11 0.0030464585 0.0041723236 0.0072187821 0.023312030
#> TP53 0.0483625286 0.0662356369 0.1145981655 0.370078479
#> U2AF1 0.0045696877 0.0062584854 0.0108281731 0.034968045
#> TCGA-64-5778-01 TCGA-64-5815-01 TCGA-67-3771-01 TCGA-67-3772-01
#> ARID1A 0.00000000 0.000000000 0.000000000 0.000000000
#> ATM 0.01215272 0.004072983 0.026325375 0.001655684
#> BRAF 0.09722176 0.032583860 0.210603000 0.013245472
#> CDKN2A 0.03038180 0.010182456 0.065813438 0.004139210
#> CMTR2 0.00000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.03645816 0.012218948 0.078976125 0.004967052
#> EGFR 0.09114540 0.030547369 0.197440313 0.012417630
#> KEAP1 0.03949634 0.013237193 0.085557469 0.005380973
#> KRAS 0.46787973 0.156809828 1.000000000 0.063743833
#> MGA 0.00000000 0.000000000 0.000000000 0.000000000
#> NF1 0.00303818 0.001018246 0.006581344 0.000413921
#> PIK3CA 0.05772542 0.019346667 0.125045531 0.007864499
#> PTPRD 0.00000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.00303818 0.001018246 0.006581344 0.000413921
#> RB1 0.00000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.00000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.00000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.00607636 0.002036491 0.013162688 0.000827842
#> SMAD4 0.02126726 0.007127719 0.046069406 0.002897447
#> SMARCA4 0.00911454 0.003054737 0.019744031 0.001241763
#> STK11 0.02430544 0.008145965 0.052650750 0.003311368
#> TP53 0.38584887 0.129317196 0.835830657 0.052567966
#> U2AF1 0.03645816 0.012218948 0.078976125 0.004967052
#> TCGA-67-3773-01 TCGA-67-3774-01 TCGA-67-4679-01 TCGA-67-6215-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0027484354 0.0027153217 0.006986986 0.0031789132
#> BRAF 0.0219874830 0.0217225736 0.055895891 0.0254313057
#> CDKN2A 0.0068710884 0.0067883042 0.017467466 0.0079472830
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0082453061 0.0081459651 0.020960959 0.0095367396
#> EGFR 0.0206132653 0.0203649127 0.052402397 0.0238418491
#> KEAP1 0.0089324150 0.0088247955 0.022707706 0.0103314679
#> KRAS 0.1058147621 0.1045398854 0.268998973 0.1223881585
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0006871088 0.0006788304 0.001746747 0.0007947283
#> PIK3CA 0.0130550680 0.0128977781 0.033188185 0.0150998377
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0006871088 0.0006788304 0.001746747 0.0007947283
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0013742177 0.0013576608 0.003493493 0.0015894566
#> SMAD4 0.0048097619 0.0047518130 0.012227226 0.0055630981
#> SMARCA4 0.0020613265 0.0020364913 0.005240240 0.0023841849
#> STK11 0.0054968708 0.0054306434 0.013973973 0.0063578264
#> TP53 0.0872628233 0.0862114640 0.221836816 0.1009304944
#> U2AF1 0.0082453061 0.0081459651 0.020960959 0.0095367396
#> TCGA-67-6216-01 TCGA-67-6217-01 TCGA-69-7765-01 TCGA-69-7973-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0009271830 0.005066393 0.015728998 0.006589622
#> BRAF 0.0074174642 0.040531143 0.125831981 0.052716977
#> CDKN2A 0.0023179575 0.012665982 0.039322494 0.016474055
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0027815491 0.015199179 0.047186993 0.019768867
#> EGFR 0.0069538726 0.037997947 0.117967482 0.049422166
#> KEAP1 0.0030133448 0.016465777 0.051119242 0.021416272
#> KRAS 0.0356965462 0.195056128 0.605566409 0.253700454
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0002317958 0.001266598 0.003932249 0.001647406
#> PIK3CA 0.0044041193 0.024065366 0.074712739 0.031300705
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0002317958 0.001266598 0.003932249 0.001647406
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0004635915 0.002533196 0.007864499 0.003294811
#> SMAD4 0.0016225703 0.008866188 0.027525746 0.011531839
#> SMARCA4 0.0006953873 0.003799795 0.011796748 0.004942217
#> STK11 0.0018543660 0.010132786 0.031457995 0.013179244
#> TP53 0.0294380609 0.160857975 0.499395675 0.209220504
#> U2AF1 0.0027815491 0.015199179 0.047186993 0.019768867
#> TCGA-69-7974-01 TCGA-69-7978-01 TCGA-69-7980-01 TCGA-69-8253-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.013642836 0.015364747 0.020464254 0.0038743005
#> BRAF 0.109142687 0.122917977 0.163714030 0.0309944038
#> CDKN2A 0.034107090 0.038411868 0.051160634 0.0096857512
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.040928508 0.046094242 0.061392761 0.0116229014
#> EGFR 0.102321269 0.115235604 0.153481903 0.0290572536
#> KEAP1 0.044339217 0.049935428 0.066508825 0.0125914765
#> KRAS 0.525249180 0.591542766 0.787873771 0.1491605682
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.003410709 0.003841187 0.005116063 0.0009685751
#> PIK3CA 0.064803470 0.072982549 0.097205205 0.0184029272
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.003410709 0.003841187 0.005116063 0.0009685751
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.006821418 0.007682374 0.010232127 0.0019371502
#> SMAD4 0.023874963 0.026888308 0.035812444 0.0067800258
#> SMARCA4 0.010232127 0.011523560 0.015348190 0.0029057254
#> STK11 0.027285672 0.030729494 0.040928508 0.0077486009
#> TP53 0.433160038 0.487830723 0.649740058 0.1230090400
#> U2AF1 0.040928508 0.046094242 0.061392761 0.0116229014
#> TCGA-69-8254-01 TCGA-73-4658-01 TCGA-73-4662-01 TCGA-73-4666-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0019205934 0.008907580 0.005828008 0.009900990
#> BRAF 0.0153647472 0.071260638 0.046624060 0.079207921
#> CDKN2A 0.0048014835 0.022268949 0.014570019 0.024752475
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0057617802 0.026722739 0.017484023 0.029702970
#> EGFR 0.0144044505 0.066806848 0.043710057 0.074257426
#> KEAP1 0.0062419285 0.028949634 0.018941025 0.032178218
#> KRAS 0.0739428458 0.342941819 0.224378291 0.381188119
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0004801483 0.002226895 0.001457002 0.002475248
#> PIK3CA 0.0091228186 0.042311004 0.027683036 0.047029703
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0004801483 0.002226895 0.001457002 0.002475248
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0009602967 0.004453790 0.002914004 0.004950495
#> SMAD4 0.0033610384 0.015588265 0.010199013 0.017326733
#> SMARCA4 0.0014404450 0.006680685 0.004371006 0.007425743
#> STK11 0.0038411868 0.017815159 0.011656015 0.019801980
#> TP53 0.0609788404 0.282815656 0.185039240 0.314356436
#> U2AF1 0.0057617802 0.026722739 0.017484023 0.029702970
#> TCGA-73-4670-01 TCGA-73-4676-01 TCGA-73-4677-01 TCGA-73-7498-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.009006921 0.002284844 0.006589622 0.0027815491
#> BRAF 0.072055366 0.018278751 0.052716977 0.0222523925
#> CDKN2A 0.022517302 0.005712110 0.016474055 0.0069538726
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.027020762 0.006854532 0.019768867 0.0083446472
#> EGFR 0.067551906 0.017136329 0.049422166 0.0208616179
#> KEAP1 0.029272492 0.007425743 0.021416272 0.0090400344
#> KRAS 0.346766449 0.087966489 0.253700454 0.1070896387
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.002251730 0.000571211 0.001647406 0.0006953873
#> PIK3CA 0.042782874 0.010853008 0.031300705 0.0132123580
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.002251730 0.000571211 0.001647406 0.0006953873
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.004503460 0.001142422 0.003294811 0.0013907745
#> SMAD4 0.015762111 0.003998477 0.011531839 0.0048677109
#> SMARCA4 0.006755191 0.001713633 0.004942217 0.0020861618
#> STK11 0.018013842 0.004569688 0.013179244 0.0055630981
#> TP53 0.285969734 0.072543793 0.209220504 0.0883141826
#> U2AF1 0.027020762 0.006854532 0.019768867 0.0083446472
#> TCGA-73-7499-01 TCGA-73-A9RS-01 TCGA-75-5126-01 TCGA-75-5146-01
#> ARID1A 0.0000000000 0.00000000 0.000000000 0.000000000
#> ATM 0.0019868208 0.02367628 0.016623067 0.004768370
#> BRAF 0.0158945660 0.18941025 0.132984536 0.038146959
#> CDKN2A 0.0049670519 0.05919070 0.041557667 0.011920925
#> CMTR2 0.0000000000 0.00000000 0.000000000 0.000000000
#> CTNNB1 0.0059604623 0.07102884 0.049869201 0.014305109
#> EGFR 0.0149011557 0.17757211 0.124673002 0.035762774
#> KEAP1 0.0064571675 0.07694791 0.054024968 0.015497202
#> KRAS 0.0764925991 0.91153681 0.639988079 0.183582238
#> MGA 0.0000000000 0.00000000 0.000000000 0.000000000
#> NF1 0.0004967052 0.00591907 0.004155767 0.001192092
#> PIK3CA 0.0094373986 0.11246233 0.078959568 0.022649757
#> PTPRD 0.0000000000 0.00000000 0.000000000 0.000000000
#> PTPRT 0.0004967052 0.00591907 0.004155767 0.001192092
#> RB1 0.0000000000 0.00000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETD2 0.0009934104 0.01183814 0.008311533 0.002384185
#> SMAD4 0.0034769363 0.04143349 0.029090367 0.008344647
#> SMARCA4 0.0014901156 0.01775721 0.012467300 0.003576277
#> STK11 0.0039736415 0.04735256 0.033246134 0.009536740
#> TP53 0.0630815590 0.75172191 0.527782377 0.151395742
#> U2AF1 0.0059604623 0.07102884 0.049869201 0.014305109
#> TCGA-75-5147-01 TCGA-75-6206-01 TCGA-75-6211-01 TCGA-75-6214-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0010927514 0.0023841849 0.009602967 0.018609888
#> BRAF 0.0087420113 0.0190734793 0.076823736 0.148879102
#> CDKN2A 0.0027318785 0.0059604623 0.024007417 0.046524719
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0032782542 0.0071525547 0.028808901 0.055829663
#> EGFR 0.0081956356 0.0178813868 0.072022252 0.139574158
#> KEAP1 0.0035514421 0.0077486009 0.031209643 0.060482135
#> KRAS 0.0420709295 0.0917911189 0.369714229 0.716480678
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0002731879 0.0005960462 0.002400742 0.004652472
#> PIK3CA 0.0051905692 0.0113248783 0.045614093 0.088396967
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0002731879 0.0005960462 0.002400742 0.004652472
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0005463757 0.0011920925 0.004801483 0.009304944
#> SMAD4 0.0019123150 0.0041723236 0.016805192 0.032567304
#> SMARCA4 0.0008195636 0.0017881387 0.007202225 0.013957416
#> STK11 0.0021855028 0.0047683698 0.019205934 0.037219775
#> TP53 0.0346948574 0.0756978708 0.304894202 0.590863936
#> U2AF1 0.0032782542 0.0071525547 0.028808901 0.055829663
#> TCGA-75-7027-01 TCGA-75-7030-01 TCGA-78-7145-01 TCGA-78-7146-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.006059803 0.0004304778 0.005165734 0.010066558
#> BRAF 0.048478426 0.0034438226 0.041325872 0.080532468
#> CDKN2A 0.015149508 0.0010761946 0.012914335 0.025166396
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.018179410 0.0012914335 0.015497202 0.030199675
#> EGFR 0.045448525 0.0032285837 0.038743005 0.075499189
#> KEAP1 0.019694361 0.0013990529 0.016788635 0.032716315
#> KRAS 0.233302427 0.0165733965 0.198880758 0.387562502
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001514951 0.0001076195 0.001291433 0.002516640
#> PIK3CA 0.028784066 0.0020447697 0.024537236 0.047816153
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001514951 0.0001076195 0.001291433 0.002516640
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.003029902 0.0002152389 0.002582867 0.005033279
#> SMAD4 0.010604656 0.0007533362 0.009040034 0.017616477
#> SMARCA4 0.004544852 0.0003228584 0.003874300 0.007549919
#> STK11 0.012119607 0.0008609557 0.010331468 0.020133117
#> TP53 0.192398755 0.0136676711 0.164012053 0.319613232
#> U2AF1 0.018179410 0.0012914335 0.015497202 0.030199675
#> TCGA-78-7147-01 TCGA-78-7148-01 TCGA-78-7149-01 TCGA-78-7150-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008510216 0.006159144 0.003940528 0.010364582
#> BRAF 0.068081725 0.049273155 0.031524223 0.082916653
#> CDKN2A 0.021275539 0.015397861 0.009851320 0.025911454
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025530647 0.018477433 0.011821583 0.031093745
#> EGFR 0.063826617 0.046193583 0.029553959 0.077734362
#> KEAP1 0.027658201 0.020017219 0.012806715 0.033684890
#> KRAS 0.327643299 0.237127057 0.151710322 0.399036392
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002127554 0.001539786 0.000985132 0.002591145
#> PIK3CA 0.040423524 0.029255936 0.018717507 0.049231763
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002127554 0.001539786 0.000985132 0.002591145
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004255108 0.003079572 0.001970264 0.005182291
#> SMAD4 0.014892877 0.010778503 0.006895924 0.018138018
#> SMARCA4 0.006382662 0.004619358 0.002955396 0.007773436
#> STK11 0.017020431 0.012318289 0.007881056 0.020729163
#> TP53 0.270199344 0.195552833 0.125111759 0.329075466
#> U2AF1 0.025530647 0.018477433 0.011821583 0.031093745
#> TCGA-78-7152-01 TCGA-78-7153-01 TCGA-78-7155-01 TCGA-78-7158-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.005198848 0.0032451406 0.039802642 0.006920759
#> BRAF 0.041590781 0.0259611245 0.318421140 0.055366072
#> CDKN2A 0.012997119 0.0081128514 0.099506606 0.017301897
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.015596543 0.0097354217 0.119407927 0.020762277
#> EGFR 0.038991357 0.0243385543 0.298519819 0.051905692
#> KEAP1 0.016896255 0.0105467068 0.129358588 0.022492467
#> KRAS 0.200155634 0.1249379119 1.000000000 0.266449220
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001299712 0.0008112851 0.009950661 0.001730190
#> PIK3CA 0.024694526 0.0154144177 0.189062552 0.032873605
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001299712 0.0008112851 0.009950661 0.001730190
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.002599424 0.0016225703 0.019901321 0.003460379
#> SMAD4 0.009097983 0.0056789960 0.069654624 0.012111328
#> SMARCA4 0.003899136 0.0024338554 0.029851982 0.005190569
#> STK11 0.010397695 0.0064902811 0.079605285 0.013841518
#> TP53 0.165063413 0.1030332130 1.000000000 0.219734097
#> U2AF1 0.015596543 0.0097354217 0.119407927 0.020762277
#> TCGA-78-7159-01 TCGA-78-7160-01 TCGA-78-7161-01 TCGA-78-7166-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008344647 0.0012914335 0.005066393 0.005463757
#> BRAF 0.066757177 0.0103314679 0.040531143 0.043710057
#> CDKN2A 0.020861618 0.0032285837 0.012665982 0.013659393
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.025033942 0.0038743005 0.015199179 0.016391271
#> EGFR 0.062584854 0.0096857512 0.037997947 0.040978178
#> KEAP1 0.027120103 0.0041971588 0.016465777 0.017757211
#> KRAS 0.321268916 0.0497201894 0.195056128 0.210354648
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002086162 0.0003228584 0.001266598 0.001365939
#> PIK3CA 0.039637074 0.0061343091 0.024065366 0.025952846
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002086162 0.0003228584 0.001266598 0.001365939
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004172324 0.0006457167 0.002533196 0.002731879
#> SMAD4 0.014603133 0.0022600086 0.008866188 0.009561575
#> SMARCA4 0.006258485 0.0009685751 0.003799795 0.004097818
#> STK11 0.016689294 0.0025828670 0.010132786 0.010927514
#> TP53 0.264942548 0.0410030133 0.160857975 0.173474287
#> U2AF1 0.025033942 0.0038743005 0.015199179 0.016391271
#> TCGA-78-7167-01 TCGA-78-7220-01 TCGA-78-7537-01 TCGA-78-7539-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0028146627 0.020596709 0.0035431637 0.012351402
#> BRAF 0.0225173019 0.164773668 0.0283453094 0.098811219
#> CDKN2A 0.0070366568 0.051491771 0.0088579092 0.030878506
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0084439882 0.061790126 0.0106294910 0.037054207
#> EGFR 0.0211099705 0.154475314 0.0265737276 0.092635518
#> KEAP1 0.0091476539 0.066939303 0.0115152820 0.040142058
#> KRAS 0.1083645154 0.792973277 0.1364118017 0.475528991
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0007036657 0.005149177 0.0008857909 0.003087851
#> PIK3CA 0.0133696480 0.097834365 0.0168300275 0.058669161
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0007036657 0.005149177 0.0008857909 0.003087851
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0014073314 0.010298354 0.0017715818 0.006175701
#> SMAD4 0.0049256598 0.036044240 0.0062005364 0.021614954
#> SMARCA4 0.0021109971 0.015447531 0.0026573728 0.009263552
#> STK11 0.0056293255 0.041193417 0.0070863274 0.024702805
#> TP53 0.0893655419 0.653945495 0.1124954469 0.392157025
#> U2AF1 0.0084439882 0.061790126 0.0106294910 0.037054207
#> TCGA-78-7540-01 TCGA-78-7633-01 TCGA-78-8640-01 TCGA-78-8655-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.005993576 0.004072983 0.018245637 0.0026490943
#> BRAF 0.047948608 0.032583860 0.145965098 0.0211927547
#> CDKN2A 0.014983940 0.010182456 0.045614093 0.0066227359
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.017980728 0.012218948 0.054736912 0.0079472830
#> EGFR 0.044951820 0.030547369 0.136842280 0.0198682076
#> KEAP1 0.019479122 0.013237193 0.059298321 0.0086095566
#> KRAS 0.230752674 0.156809828 0.702457035 0.1019901321
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001498394 0.001018246 0.004561409 0.0006622736
#> PIK3CA 0.028469486 0.019346667 0.086666777 0.0125831981
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001498394 0.001018246 0.004561409 0.0006622736
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.002996788 0.002036491 0.009122819 0.0013245472
#> SMAD4 0.010488758 0.007127719 0.031929865 0.0046359151
#> SMARCA4 0.004495182 0.003054737 0.013684228 0.0019868208
#> STK11 0.011987152 0.008145965 0.036491275 0.0052981887
#> TP53 0.190296036 0.129317196 0.579298983 0.0841087453
#> U2AF1 0.017980728 0.012218948 0.054736912 0.0079472830
#> TCGA-78-8660-01 TCGA-78-8662-01 TCGA-80-5607-01 TCGA-80-5608-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.006225372 0.028875128 0.0030133448 0.009172489
#> BRAF 0.049802974 0.231001027 0.0241067585 0.073379913
#> CDKN2A 0.015563429 0.072187821 0.0075333620 0.022931223
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.018676115 0.086625385 0.0090400344 0.027517467
#> EGFR 0.046690288 0.216563462 0.0226000861 0.068793669
#> KEAP1 0.020232458 0.093844167 0.0097933706 0.029810590
#> KRAS 0.239676810 1.000000000 0.1160137753 0.353140832
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001556343 0.007218782 0.0007533362 0.002293122
#> PIK3CA 0.029570516 0.137156859 0.0143133879 0.043569323
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001556343 0.007218782 0.0007533362 0.002293122
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003112686 0.014437564 0.0015066724 0.004586245
#> SMAD4 0.010894400 0.050531475 0.0052733534 0.016051856
#> SMARCA4 0.004669029 0.021656346 0.0022600086 0.006879367
#> STK11 0.012450743 0.057750257 0.0060266896 0.018344978
#> TP53 0.197655552 0.916785324 0.0956736978 0.291226531
#> U2AF1 0.018676115 0.086625385 0.0090400344 0.027517467
#> TCGA-83-5908-01 TCGA-86-6851-01 TCGA-86-7711-01 TCGA-86-7713-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.005861121 0.023643167 0.005629325 0.004139210
#> BRAF 0.046888970 0.189145336 0.045034604 0.033113679
#> CDKN2A 0.014652803 0.059107917 0.014073314 0.010348025
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.017583364 0.070929501 0.016887976 0.012417630
#> EGFR 0.043958409 0.177323752 0.042219941 0.031044074
#> KEAP1 0.019048644 0.076840293 0.018295308 0.013452432
#> KRAS 0.225653167 0.910261929 0.216729031 0.159359581
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001465280 0.005910792 0.001407331 0.001034802
#> PIK3CA 0.027840326 0.112305043 0.026739296 0.019661247
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001465280 0.005910792 0.001407331 0.001034802
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002930561 0.011821583 0.002814663 0.002069605
#> SMAD4 0.010256962 0.041375542 0.009851320 0.007243617
#> SMARCA4 0.004395841 0.017732375 0.004221994 0.003104407
#> STK11 0.011722242 0.047286334 0.011258651 0.008278420
#> TP53 0.186090599 0.750670552 0.178731084 0.131419915
#> U2AF1 0.017583364 0.070929501 0.016887976 0.012417630
#> TCGA-86-7714-01 TCGA-86-7953-01 TCGA-86-7954-01 TCGA-86-8054-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0019537071 0.0014570019 0.005397530 0.005761780
#> BRAF 0.0156296566 0.0116560151 0.043180238 0.046094242
#> CDKN2A 0.0048842677 0.0036425047 0.013493824 0.014404450
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0058611212 0.0043710057 0.016192589 0.017285341
#> EGFR 0.0146528031 0.0109275142 0.040481473 0.043213351
#> KEAP1 0.0063495480 0.0047352561 0.017541972 0.018725786
#> KRAS 0.0752177224 0.0560945727 0.207804894 0.221828537
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0004884268 0.0003642505 0.001349382 0.001440445
#> PIK3CA 0.0092801086 0.0069207590 0.025638266 0.027368456
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0004884268 0.0003642505 0.001349382 0.001440445
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0009768535 0.0007285009 0.002698765 0.002880890
#> SMAD4 0.0034189874 0.0025497533 0.009445677 0.010083115
#> SMARCA4 0.0014652803 0.0010927514 0.004048147 0.004321335
#> STK11 0.0039074142 0.0029140038 0.010795059 0.011523560
#> TP53 0.0620301997 0.0462598099 0.171371569 0.182936521
#> U2AF1 0.0058611212 0.0043710057 0.016192589 0.017285341
#> TCGA-86-8055-01 TCGA-86-8056-01 TCGA-86-8074-01 TCGA-86-8075-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0013576608 0.007715487 0.0017550250 0.0013907745
#> BRAF 0.0108612868 0.061723898 0.0140402000 0.0111261962
#> CDKN2A 0.0033941521 0.019288718 0.0043875625 0.0034769363
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0040729825 0.023146462 0.0052650750 0.0041723236
#> EGFR 0.0101824564 0.057866155 0.0131626875 0.0104308090
#> KEAP1 0.0044123978 0.025075334 0.0057038313 0.0045200172
#> KRAS 0.0522699427 0.297046260 0.0675684625 0.0535448194
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0003394152 0.001928872 0.0004387563 0.0003476936
#> PIK3CA 0.0064488890 0.036648565 0.0083363688 0.0066061790
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003394152 0.001928872 0.0004387563 0.0003476936
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0006788304 0.003857744 0.0008775125 0.0006953873
#> SMAD4 0.0023759065 0.013502103 0.0030712938 0.0024338554
#> SMARCA4 0.0010182456 0.005786615 0.0013162688 0.0010430809
#> STK11 0.0027153217 0.015430975 0.0035100500 0.0027815491
#> TP53 0.0431057320 0.244966721 0.0557220438 0.0441570913
#> U2AF1 0.0040729825 0.023146462 0.0052650750 0.0041723236
#> TCGA-86-8076-01 TCGA-86-8278-01 TCGA-86-8279-01 TCGA-86-8280-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0019537071 0.002682208 0.013013676 0.0013907745
#> BRAF 0.0156296566 0.021457664 0.104109408 0.0111261962
#> CDKN2A 0.0048842677 0.006705520 0.032534190 0.0034769363
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0058611212 0.008046624 0.039041028 0.0041723236
#> EGFR 0.0146528031 0.020116560 0.097602570 0.0104308090
#> KEAP1 0.0063495480 0.008717176 0.042294447 0.0045200172
#> KRAS 0.0752177224 0.103265009 0.501026524 0.0535448194
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0004884268 0.000670552 0.003253419 0.0003476936
#> PIK3CA 0.0092801086 0.012740488 0.061814961 0.0066061790
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0004884268 0.000670552 0.003253419 0.0003476936
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0009768535 0.001341104 0.006506838 0.0006953873
#> SMAD4 0.0034189874 0.004693864 0.022773933 0.0024338554
#> SMARCA4 0.0014652803 0.002011656 0.009760257 0.0010430809
#> STK11 0.0039074142 0.005364416 0.026027352 0.0027815491
#> TP53 0.0620301997 0.085160105 0.413184211 0.0441570913
#> U2AF1 0.0058611212 0.008046624 0.039041028 0.0041723236
#> TCGA-86-8281-01 TCGA-86-8359-01 TCGA-86-8585-01 TCGA-86-8668-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.006225372 0.004072983 0.015033610 0.0009271830
#> BRAF 0.049802974 0.032583860 0.120268883 0.0074174642
#> CDKN2A 0.015563429 0.010182456 0.037584026 0.0023179575
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.018676115 0.012218948 0.045100831 0.0027815491
#> EGFR 0.046690288 0.030547369 0.112752078 0.0069538726
#> KEAP1 0.020232458 0.013237193 0.048859234 0.0030133448
#> KRAS 0.239676810 0.156809828 0.578794000 0.0356965462
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001556343 0.001018246 0.003758403 0.0002317958
#> PIK3CA 0.029570516 0.019346667 0.071409649 0.0044041193
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001556343 0.001018246 0.003758403 0.0002317958
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003112686 0.002036491 0.007516805 0.0004635915
#> SMAD4 0.010894400 0.007127719 0.026308818 0.0016225703
#> SMARCA4 0.004669029 0.003054737 0.011275208 0.0006953873
#> STK11 0.012450743 0.008145965 0.030067221 0.0018543660
#> TP53 0.197655552 0.129317196 0.477317130 0.0294380609
#> U2AF1 0.018676115 0.012218948 0.045100831 0.0027815491
#> TCGA-86-8673-01 TCGA-86-8674-01 TCGA-86-A456-01 TCGA-86-A4JF-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.012086493 0.007218782 0.009304944 0.032815656
#> BRAF 0.096691943 0.057750257 0.074439551 0.262525249
#> CDKN2A 0.030216232 0.018046955 0.023262360 0.082039140
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.036259479 0.021656346 0.027914832 0.098446968
#> EGFR 0.090648697 0.054140866 0.069787079 0.246117421
#> KEAP1 0.039281102 0.023461042 0.030241068 0.106650882
#> KRAS 0.465329978 0.277923110 0.358240339 1.000000000
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003021623 0.001804696 0.002326236 0.008203914
#> PIK3CA 0.057410841 0.034289215 0.044198483 0.155874367
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003021623 0.001804696 0.002326236 0.008203914
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.006043246 0.003609391 0.004652472 0.016407828
#> SMAD4 0.021151363 0.012632869 0.016283652 0.057427398
#> SMARCA4 0.009064870 0.005414087 0.006978708 0.024611742
#> STK11 0.024172986 0.014437564 0.018609888 0.065631312
#> TP53 0.383746151 0.229196331 0.295431968 1.000000000
#> U2AF1 0.036259479 0.021656346 0.027914832 0.098446968
#> TCGA-86-A4P7-01 TCGA-91-6828-01 TCGA-91-6829-01 TCGA-91-6830-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0017550250 0.007715487 0.016358158 0.006920759
#> BRAF 0.0140402000 0.061723898 0.130865260 0.055366072
#> CDKN2A 0.0043875625 0.019288718 0.040895394 0.017301897
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0052650750 0.023146462 0.049074473 0.020762277
#> EGFR 0.0131626875 0.057866155 0.122686182 0.051905692
#> KEAP1 0.0057038313 0.025075334 0.053164012 0.022492467
#> KRAS 0.0675684625 0.297046260 0.629789066 0.266449220
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0004387563 0.001928872 0.004089539 0.001730190
#> PIK3CA 0.0083363688 0.036648565 0.077701248 0.032873605
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0004387563 0.001928872 0.004089539 0.001730190
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0008775125 0.003857744 0.008179079 0.003460379
#> SMAD4 0.0030712938 0.013502103 0.028626776 0.012111328
#> SMARCA4 0.0013162688 0.005786615 0.012268618 0.005190569
#> STK11 0.0035100500 0.015430975 0.032716315 0.013841518
#> TP53 0.0557220438 0.244966721 0.519371502 0.219734097
#> U2AF1 0.0052650750 0.023146462 0.049074473 0.020762277
#> TCGA-91-6835-01 TCGA-91-6836-01 TCGA-91-6840-01 TCGA-91-6847-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0023179575 0.012715653 0.003708732 0.0018543660
#> BRAF 0.0185436604 0.101725223 0.029669857 0.0148349283
#> CDKN2A 0.0057948939 0.031789132 0.009271830 0.0046359151
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0069538726 0.038146959 0.011126196 0.0055630981
#> EGFR 0.0173846816 0.095367396 0.027815491 0.0139077453
#> KEAP1 0.0075333620 0.041325872 0.012053379 0.0060266896
#> KRAS 0.0892413656 0.489552634 0.142786185 0.0713930925
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0005794894 0.003178913 0.000927183 0.0004635915
#> PIK3CA 0.0110102984 0.060399351 0.017616477 0.0088082387
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0005794894 0.003178913 0.000927183 0.0004635915
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0011589788 0.006357826 0.001854366 0.0009271830
#> SMAD4 0.0040564257 0.022252392 0.006490281 0.0032451406
#> SMARCA4 0.0017384682 0.009536740 0.002781549 0.0013907745
#> STK11 0.0046359151 0.025431306 0.007417464 0.0037087321
#> TP53 0.0735951522 0.403721978 0.117752243 0.0588761217
#> U2AF1 0.0069538726 0.038146959 0.011126196 0.0055630981
#> TCGA-91-6848-01 TCGA-91-6849-01 TCGA-91-A4BD-01 TCGA-93-7347-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.016060134 0.0029140038 0.0004635915 0.0030464585
#> BRAF 0.128481076 0.0233120302 0.0037087321 0.0243716679
#> CDKN2A 0.040150336 0.0072850094 0.0011589788 0.0076161462
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.048180403 0.0087420113 0.0013907745 0.0091393755
#> EGFR 0.120451008 0.0218550283 0.0034769363 0.0228484387
#> KEAP1 0.052195437 0.0094705123 0.0015066724 0.0099009901
#> KRAS 0.618315176 0.1121891453 0.0178482731 0.1172886519
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.004015034 0.0007285009 0.0001158979 0.0007616146
#> PIK3CA 0.076285639 0.0138415179 0.0022020597 0.0144706778
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.004015034 0.0007285009 0.0001158979 0.0007616146
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.008030067 0.0014570019 0.0002317958 0.0015232292
#> SMAD4 0.028105235 0.0050995066 0.0008112851 0.0053313024
#> SMARCA4 0.012045101 0.0021855028 0.0003476936 0.0022848439
#> STK11 0.032120269 0.0058280075 0.0009271830 0.0060929170
#> TP53 0.509909269 0.0925196199 0.0147190304 0.0967250571
#> U2AF1 0.048180403 0.0087420113 0.0013907745 0.0091393755
#> TCGA-93-7348-01 TCGA-93-8067-01 TCGA-93-A4JN-01 TCGA-93-A4JO-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0029802311 0.012914335 0.0019868208 0.0014570019
#> BRAF 0.0238418491 0.103314679 0.0158945660 0.0116560151
#> CDKN2A 0.0074505778 0.032285837 0.0049670519 0.0036425047
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0089406934 0.038743005 0.0059604623 0.0043710057
#> EGFR 0.0223517335 0.096857512 0.0149011557 0.0109275142
#> KEAP1 0.0096857512 0.041971588 0.0064571675 0.0047352561
#> KRAS 0.1147388986 0.497201894 0.0764925991 0.0560945727
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0007450578 0.003228584 0.0004967052 0.0003642505
#> PIK3CA 0.0141560979 0.061343091 0.0094373986 0.0069207590
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0007450578 0.003228584 0.0004967052 0.0003642505
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0014901156 0.006457167 0.0009934104 0.0007285009
#> SMAD4 0.0052154045 0.022600086 0.0034769363 0.0025497533
#> SMARCA4 0.0022351734 0.009685751 0.0014901156 0.0010927514
#> STK11 0.0059604623 0.025828670 0.0039736415 0.0029140038
#> TP53 0.0946223385 0.410030133 0.0630815590 0.0462598099
#> U2AF1 0.0089406934 0.038743005 0.0059604623 0.0043710057
#> TCGA-93-A4JP-01 TCGA-95-7039-01 TCGA-95-7043-01 TCGA-95-7562-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0015232292 0.033775953 0.028411537 0.010331468
#> BRAF 0.0121858340 0.270207623 0.227292294 0.082651743
#> CDKN2A 0.0038080731 0.084439882 0.071028842 0.025828670
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0045696877 0.101327859 0.085234610 0.030994404
#> EGFR 0.0114242193 0.253319646 0.213086526 0.077486009
#> KEAP1 0.0049504950 0.109771847 0.092337495 0.033577271
#> KRAS 0.0586443260 1.000000000 1.000000000 0.397761515
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003808073 0.008443988 0.007102884 0.002582867
#> PIK3CA 0.0072353389 0.160435776 0.134954800 0.049074473
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003808073 0.008443988 0.007102884 0.002582867
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0007616146 0.016887976 0.014205768 0.005165734
#> SMAD4 0.0026656512 0.059107917 0.049720189 0.018080069
#> SMARCA4 0.0011424219 0.025331965 0.021308653 0.007748601
#> STK11 0.0030464585 0.067551906 0.056823074 0.020662936
#> TP53 0.0483625286 1.000000000 0.902066294 0.328024107
#> U2AF1 0.0045696877 0.101327859 0.085234610 0.030994404
#> TCGA-95-7567-01 TCGA-95-7944-01 TCGA-95-7947-01 TCGA-95-7948-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.023411371 0.006092917 0.013742177 0.004106096
#> BRAF 0.187290970 0.048743336 0.109937415 0.032848770
#> CDKN2A 0.058528428 0.015232292 0.034355442 0.010265241
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.070234114 0.018278751 0.041226531 0.012318289
#> EGFR 0.175585284 0.045696877 0.103066327 0.030795722
#> KEAP1 0.076086957 0.019801980 0.044662075 0.013344813
#> KRAS 0.901337793 0.234577304 0.529073810 0.158084705
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.005852843 0.001523229 0.003435544 0.001026524
#> PIK3CA 0.111204013 0.028941356 0.065275340 0.019503957
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.005852843 0.001523229 0.003435544 0.001026524
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.011705686 0.003046458 0.006871088 0.002053048
#> SMAD4 0.040969900 0.010662605 0.024048810 0.007185668
#> SMARCA4 0.017558528 0.004569688 0.010306633 0.003079572
#> STK11 0.046822742 0.012185834 0.027484354 0.008212192
#> TP53 0.743311037 0.193450114 0.436314116 0.130368555
#> U2AF1 0.070234114 0.018278751 0.041226531 0.012318289
#> TCGA-95-A4VK-01 TCGA-95-A4VN-01 TCGA-95-A4VP-01 TCGA-97-7546-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.006390940 0.011788470 0.0032782542 0.007053214
#> BRAF 0.051127521 0.094307759 0.0262260340 0.056425709
#> CDKN2A 0.015977350 0.029471175 0.0081956356 0.017633034
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.019172820 0.035365409 0.0098347627 0.021159641
#> EGFR 0.047932051 0.088413524 0.0245869069 0.052899103
#> KEAP1 0.020770555 0.038312527 0.0106543263 0.022922944
#> KRAS 0.246051194 0.453856088 0.1262127885 0.271548727
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001597735 0.002947117 0.0008195636 0.001763303
#> PIK3CA 0.030356965 0.055995232 0.0155717077 0.033502765
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001597735 0.002947117 0.0008195636 0.001763303
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003195470 0.005894235 0.0016391271 0.003526607
#> SMAD4 0.011184145 0.020629822 0.0057369449 0.012343124
#> SMARCA4 0.004793205 0.008841352 0.0024586907 0.005289910
#> STK11 0.012781880 0.023576940 0.0065565085 0.014106427
#> TP53 0.202912348 0.374283917 0.1040845723 0.223939534
#> U2AF1 0.019172820 0.035365409 0.0098347627 0.021159641
#> TCGA-97-7553-01 TCGA-97-7554-01 TCGA-97-7937-01 TCGA-97-7938-01
#> ARID1A 0.0000000000 0.000000000 0.00000000 0.000000000
#> ATM 0.0009602967 0.011821583 0.01215272 0.010331468
#> BRAF 0.0076823736 0.094572668 0.09722176 0.082651743
#> CDKN2A 0.0024007417 0.029553959 0.03038180 0.025828670
#> CMTR2 0.0000000000 0.000000000 0.00000000 0.000000000
#> CTNNB1 0.0028808901 0.035464750 0.03645816 0.030994404
#> EGFR 0.0072022252 0.088661876 0.09114540 0.077486009
#> KEAP1 0.0031209643 0.038420146 0.03949634 0.033577271
#> KRAS 0.0369714229 0.455130965 0.46787973 0.397761515
#> MGA 0.0000000000 0.000000000 0.00000000 0.000000000
#> NF1 0.0002400742 0.002955396 0.00303818 0.002582867
#> PIK3CA 0.0045614093 0.056152522 0.05772542 0.049074473
#> PTPRD 0.0000000000 0.000000000 0.00000000 0.000000000
#> PTPRT 0.0002400742 0.002955396 0.00303818 0.002582867
#> RB1 0.0000000000 0.000000000 0.00000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.00000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.00000000 0.000000000
#> SETD2 0.0004801483 0.005910792 0.00607636 0.005165734
#> SMAD4 0.0016805192 0.020687771 0.02126726 0.018080069
#> SMARCA4 0.0007202225 0.008866188 0.00911454 0.007748601
#> STK11 0.0019205934 0.023643167 0.02430544 0.020662936
#> TP53 0.0304894202 0.375335276 0.38584887 0.328024107
#> U2AF1 0.0028808901 0.035464750 0.03645816 0.030994404
#> TCGA-97-7941-01 TCGA-97-8171-01 TCGA-97-8174-01 TCGA-97-8175-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0023510712 0.0016225703 0.004404119 0.0007616146
#> BRAF 0.0188085698 0.0129805623 0.035232955 0.0060929170
#> CDKN2A 0.0058776781 0.0040564257 0.011010298 0.0019040366
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0070532137 0.0048677109 0.013212358 0.0022848439
#> EGFR 0.0176330342 0.0121692771 0.033030895 0.0057121097
#> KEAP1 0.0076409815 0.0052733534 0.014313388 0.0024752475
#> KRAS 0.0905162423 0.0624689559 0.169558595 0.0293221630
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0005877678 0.0004056426 0.001101030 0.0001904037
#> PIK3CA 0.0111675883 0.0077072088 0.020919567 0.0036176695
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0005877678 0.0004056426 0.001101030 0.0001904037
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0011755356 0.0008112851 0.002202060 0.0003808073
#> SMAD4 0.0041143746 0.0028394980 0.007707209 0.0013328256
#> SMARCA4 0.0017633034 0.0012169277 0.003303090 0.0005712110
#> STK11 0.0047021425 0.0032451406 0.008808239 0.0015232292
#> TP53 0.0746465115 0.0515166065 0.139830789 0.0241812643
#> U2AF1 0.0070532137 0.0048677109 0.013212358 0.0022848439
#> TCGA-97-8176-01 TCGA-97-8177-01 TCGA-97-8179-01 TCGA-97-8547-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0036756184 0.0009602967 0.004106096 0.0014570019
#> BRAF 0.0294049472 0.0076823736 0.032848770 0.0116560151
#> CDKN2A 0.0091890460 0.0024007417 0.010265241 0.0036425047
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0110268552 0.0028808901 0.012318289 0.0043710057
#> EGFR 0.0275671380 0.0072022252 0.030795722 0.0109275142
#> KEAP1 0.0119457598 0.0031209643 0.013344813 0.0047352561
#> KRAS 0.1415113083 0.0369714229 0.158084705 0.0560945727
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0009189046 0.0002400742 0.001026524 0.0003642505
#> PIK3CA 0.0174591874 0.0045614093 0.019503957 0.0069207590
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0009189046 0.0002400742 0.001026524 0.0003642505
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0018378092 0.0004801483 0.002053048 0.0007285009
#> SMAD4 0.0064323322 0.0016805192 0.007185668 0.0025497533
#> SMARCA4 0.0027567138 0.0007202225 0.003079572 0.0010927514
#> STK11 0.0073512368 0.0019205934 0.008212192 0.0029140038
#> TP53 0.1167008841 0.0304894202 0.130368555 0.0462598099
#> U2AF1 0.0110268552 0.0028808901 0.012318289 0.0043710057
#> TCGA-97-A4LX-01 TCGA-97-A4M0-01 TCGA-97-A4M1-01 TCGA-97-A4M3-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.004371006 0.009900990 0.0012252061 0.005563098
#> BRAF 0.034968045 0.079207921 0.0098016491 0.044504785
#> CDKN2A 0.010927514 0.024752475 0.0030630153 0.013907745
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.013113017 0.029702970 0.0036756184 0.016689294
#> EGFR 0.032782542 0.074257426 0.0091890460 0.041723236
#> KEAP1 0.014205768 0.032178218 0.0039819199 0.018080069
#> KRAS 0.168283718 0.381188119 0.0471704361 0.214179277
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001092751 0.002475248 0.0003063015 0.001390775
#> PIK3CA 0.020762277 0.047029703 0.0058197291 0.026424716
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001092751 0.002475248 0.0003063015 0.001390775
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.002185503 0.004950495 0.0006126031 0.002781549
#> SMAD4 0.007649260 0.017326733 0.0021441107 0.009735422
#> SMARCA4 0.003278254 0.007425743 0.0009189046 0.004172324
#> STK11 0.008742011 0.019801980 0.0024504123 0.011126196
#> TP53 0.138779430 0.314356436 0.0389002947 0.176628365
#> U2AF1 0.013113017 0.029702970 0.0036756184 0.016689294
#> TCGA-97-A4M5-01 TCGA-97-A4M7-01 TCGA-99-8025-01 TCGA-99-8028-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0038411868 0.007781715 0.012980562 0.011093083
#> BRAF 0.0307294944 0.062253717 0.103844498 0.088744660
#> CDKN2A 0.0096029670 0.019454287 0.032451406 0.027732706
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0115235604 0.023345144 0.038941687 0.033279248
#> EGFR 0.0288089010 0.058362860 0.097354217 0.083198119
#> KEAP1 0.0124838571 0.025290573 0.042186827 0.036052518
#> KRAS 0.1478856916 0.299596013 0.499751647 0.427083678
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0009602967 0.001945429 0.003245141 0.002773271
#> PIK3CA 0.0182456373 0.036963144 0.061657671 0.052692142
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0009602967 0.001945429 0.003245141 0.002773271
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0019205934 0.003890857 0.006490281 0.005546541
#> SMAD4 0.0067220769 0.013618001 0.022715984 0.019412894
#> SMARCA4 0.0028808901 0.005836286 0.009735422 0.008319812
#> STK11 0.0076823736 0.015563429 0.025961125 0.022186165
#> TP53 0.1219576807 0.247069439 0.412132852 0.352205371
#> U2AF1 0.0115235604 0.023345144 0.038941687 0.033279248
#> TCGA-99-8032-01 TCGA-99-8033-01 TCGA-J2-8194-01 TCGA-J2-A4AD-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.009768535 0.004503460 0.004205437 0.008377761
#> BRAF 0.078148283 0.036027683 0.033643498 0.067022087
#> CDKN2A 0.024421338 0.011258651 0.010513593 0.020944402
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.029305606 0.013510381 0.012616312 0.025133283
#> EGFR 0.073264015 0.033775953 0.031540779 0.062833206
#> KEAP1 0.031747740 0.014636246 0.013667671 0.027227723
#> KRAS 0.376088612 0.173383225 0.161909335 0.322543793
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002442134 0.001125865 0.001051359 0.002094440
#> PIK3CA 0.046400543 0.021391437 0.019975827 0.039794364
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002442134 0.001125865 0.001051359 0.002094440
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004884268 0.002251730 0.002102719 0.004188880
#> SMAD4 0.017094937 0.007881056 0.007359515 0.014661081
#> SMARCA4 0.007326402 0.003377595 0.003154078 0.006283321
#> STK11 0.019537071 0.009006921 0.008410875 0.016755522
#> TP53 0.310150998 0.142984867 0.133522633 0.265993907
#> U2AF1 0.029305606 0.013510381 0.012616312 0.025133283
#> TCGA-J2-A4AG-01 TCGA-L4-A4E5-01 TCGA-L9-A443-01 TCGA-L9-A444-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0021855028 0.008212192 0.006457167 0.013940859
#> BRAF 0.0174840226 0.065697540 0.051657340 0.111526872
#> CDKN2A 0.0054637571 0.020530481 0.016142919 0.034852147
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0065565085 0.024636577 0.019371502 0.041822577
#> EGFR 0.0163912712 0.061591443 0.048428756 0.104556442
#> KEAP1 0.0071028842 0.026689625 0.020985794 0.045307792
#> KRAS 0.0841418590 0.316169410 0.248600947 0.536723070
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0005463757 0.002053048 0.001614292 0.003485215
#> PIK3CA 0.0103811384 0.039007914 0.030671545 0.066219080
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0005463757 0.002053048 0.001614292 0.003485215
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0010927514 0.004106096 0.003228584 0.006970429
#> SMAD4 0.0038246300 0.014371337 0.011300043 0.024396503
#> SMARCA4 0.0016391271 0.006159144 0.004842876 0.010455644
#> STK11 0.0043710057 0.016424385 0.012914335 0.027881718
#> TP53 0.0693897149 0.260737111 0.205015067 0.442622272
#> U2AF1 0.0065565085 0.024636577 0.019371502 0.041822577
#> TCGA-L9-A50W-01 TCGA-L9-A5IP-01 TCGA-L9-A743-01 TCGA-L9-A7SV-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0008609557 0.007318123 0.0035100500 0.039802642
#> BRAF 0.0068876453 0.058544985 0.0280804000 0.318421140
#> CDKN2A 0.0021523892 0.018295308 0.0087751250 0.099506606
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0025828670 0.021954369 0.0105301500 0.119407927
#> EGFR 0.0064571675 0.054885923 0.0263253750 0.298519819
#> KEAP1 0.0027981059 0.023783900 0.0114076625 0.129358588
#> KRAS 0.0331467929 0.281747740 0.1351369251 1.000000000
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002152389 0.001829531 0.0008775125 0.009950661
#> PIK3CA 0.0040895394 0.034761085 0.0166727375 0.189062552
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002152389 0.001829531 0.0008775125 0.009950661
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004304778 0.003659062 0.0017550250 0.019901321
#> SMAD4 0.0015066724 0.012806715 0.0061425875 0.069654624
#> SMARCA4 0.0006457167 0.005488592 0.0026325375 0.029851982
#> STK11 0.0017219113 0.014636246 0.0070201000 0.079605285
#> TP53 0.0273353422 0.232350409 0.1114440876 1.000000000
#> U2AF1 0.0025828670 0.021954369 0.0105301500 0.119407927
#> TCGA-L9-A8F4-01 TCGA-MN-A4N1-01 TCGA-MN-A4N4-01 TCGA-MN-A4N5-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.019537071 0.011622901 0.038080731 0.011159310
#> BRAF 0.156296566 0.092983211 0.304645849 0.089274479
#> CDKN2A 0.048842677 0.029057254 0.095201828 0.027898275
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.058611212 0.034868704 0.114242193 0.033477930
#> EGFR 0.146528031 0.087171761 0.285605484 0.083694824
#> KEAP1 0.063495480 0.037774430 0.123762376 0.036267757
#> KRAS 0.752177224 0.447481705 1.000000000 0.429633432
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.004884268 0.002905725 0.009520183 0.002789827
#> PIK3CA 0.092801086 0.055208782 0.180883473 0.053006722
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.004884268 0.002905725 0.009520183 0.002789827
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.009768535 0.005811451 0.019040366 0.005579655
#> SMAD4 0.034189874 0.020340077 0.066641280 0.019528792
#> SMARCA4 0.014652803 0.008717176 0.028560548 0.008369482
#> STK11 0.039074142 0.023245803 0.076161462 0.022318620
#> TP53 0.620301997 0.369027120 1.000000000 0.354308090
#> U2AF1 0.058611212 0.034868704 0.114242193 0.033477930
#> TCGA-MP-A4SV-01 TCGA-MP-A4SW-01 TCGA-MP-A4SY-01 TCGA-MP-A4T4-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008543329 0.0016225703 0.004635915 0.010298354
#> BRAF 0.068346634 0.0129805623 0.037087321 0.082386834
#> CDKN2A 0.021358323 0.0040564257 0.011589788 0.025745886
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.025629988 0.0048677109 0.013907745 0.030895063
#> EGFR 0.064074969 0.0121692771 0.034769363 0.077237657
#> KEAP1 0.027765820 0.0052733534 0.015066724 0.033469651
#> KRAS 0.328918176 0.0624689559 0.178482731 0.396486639
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002135832 0.0004056426 0.001158979 0.002574589
#> PIK3CA 0.040580814 0.0077072088 0.022020597 0.048917183
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002135832 0.0004056426 0.001158979 0.002574589
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004271665 0.0008112851 0.002317958 0.005149177
#> SMAD4 0.014950826 0.0028394980 0.008112851 0.018022120
#> SMARCA4 0.006407497 0.0012169277 0.003476936 0.007723766
#> STK11 0.017086658 0.0032451406 0.009271830 0.020596709
#> TP53 0.271250704 0.0515166065 0.147190304 0.326972747
#> U2AF1 0.025629988 0.0048677109 0.013907745 0.030895063
#> TCGA-MP-A4T7-01 TCGA-MP-A4T8-01 TCGA-MP-A4T9-01 TCGA-MP-A4TA-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.0036756184 0.0030133448 0.0008609557 0.008576443
#> BRAF 0.0294049472 0.0241067585 0.0068876453 0.068611543
#> CDKN2A 0.0091890460 0.0075333620 0.0021523892 0.021441107
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.0110268552 0.0090400344 0.0025828670 0.025729329
#> EGFR 0.0275671380 0.0226000861 0.0064571675 0.064323322
#> KEAP1 0.0119457598 0.0097933706 0.0027981059 0.027873440
#> KRAS 0.1415113083 0.1160137753 0.0331467929 0.330193053
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.0009189046 0.0007533362 0.0002152389 0.002144111
#> PIK3CA 0.0174591874 0.0143133879 0.0040895394 0.040738104
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.0009189046 0.0007533362 0.0002152389 0.002144111
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.0018378092 0.0015066724 0.0004304778 0.004288221
#> SMAD4 0.0064323322 0.0052733534 0.0015066724 0.015008775
#> SMARCA4 0.0027567138 0.0022600086 0.0006457167 0.006432332
#> STK11 0.0073512368 0.0060266896 0.0017219113 0.017152886
#> TP53 0.1167008841 0.0956736978 0.0273353422 0.272302063
#> U2AF1 0.0110268552 0.0090400344 0.0025828670 0.025729329
#> TCGA-MP-A4TD-01 TCGA-MP-A4TE-01 TCGA-MP-A4TF-01 TCGA-MP-A4TI-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0019537071 0.0035431637 0.010761946 0.005993576
#> BRAF 0.0156296566 0.0283453094 0.086095566 0.047948608
#> CDKN2A 0.0048842677 0.0088579092 0.026904864 0.014983940
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0058611212 0.0106294910 0.032285837 0.017980728
#> EGFR 0.0146528031 0.0265737276 0.080714593 0.044951820
#> KEAP1 0.0063495480 0.0115152820 0.034976324 0.019479122
#> KRAS 0.0752177224 0.1364118017 0.414334912 0.230752674
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0004884268 0.0008857909 0.002690486 0.001498394
#> PIK3CA 0.0092801086 0.0168300275 0.051119242 0.028469486
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0004884268 0.0008857909 0.002690486 0.001498394
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0009768535 0.0017715818 0.005380973 0.002996788
#> SMAD4 0.0034189874 0.0062005364 0.018833405 0.010488758
#> SMARCA4 0.0014652803 0.0026573728 0.008071459 0.004495182
#> STK11 0.0039074142 0.0070863274 0.021523892 0.011987152
#> TP53 0.0620301997 0.1124954469 0.341691778 0.190296036
#> U2AF1 0.0058611212 0.0106294910 0.032285837 0.017980728
#> TCGA-MP-A4TK-01 TCGA-NJ-A4YG-01 TCGA-NJ-A4YI-01 TCGA-NJ-A4YP-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008874466 0.0038411868 0.010861287 0.012814994
#> BRAF 0.070995728 0.0307294944 0.086890294 0.102519951
#> CDKN2A 0.022186165 0.0096029670 0.027153217 0.032037485
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.026623398 0.0115235604 0.032583860 0.038444982
#> EGFR 0.066558495 0.0288089010 0.081459651 0.096112454
#> KEAP1 0.028842015 0.0124838571 0.035299182 0.041648730
#> KRAS 0.341666943 0.1478856916 0.418159542 0.493377264
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002218617 0.0009602967 0.002715322 0.003203748
#> PIK3CA 0.042153714 0.0182456373 0.051591112 0.060871221
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002218617 0.0009602967 0.002715322 0.003203748
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004437233 0.0019205934 0.005430643 0.006407497
#> SMAD4 0.015530316 0.0067220769 0.019007252 0.022426239
#> SMARCA4 0.006655850 0.0028808901 0.008145965 0.009611245
#> STK11 0.017748932 0.0076823736 0.021722574 0.025629988
#> TP53 0.281764297 0.1219576807 0.344845856 0.406876055
#> U2AF1 0.026623398 0.0115235604 0.032583860 0.038444982
#> TCGA-NJ-A4YQ-01 TCGA-NJ-A55O-01 TCGA-NJ-A55R-01 TCGA-05-4398-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.027914832 0.0035431637 0.006324713 0.018676115
#> BRAF 0.223318653 0.0283453094 0.050597702 0.149408921
#> CDKN2A 0.069787079 0.0088579092 0.015811782 0.046690288
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.083744495 0.0106294910 0.018974138 0.056028345
#> EGFR 0.209361237 0.0265737276 0.047435346 0.140070863
#> KEAP1 0.090723203 0.0115152820 0.020555316 0.060697374
#> KRAS 1.000000000 0.1364118017 0.243501440 0.719030431
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.006978708 0.0008857909 0.001581178 0.004669029
#> PIK3CA 0.132595450 0.0168300275 0.030042386 0.088711547
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.006978708 0.0008857909 0.001581178 0.004669029
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.013957416 0.0017715818 0.003162356 0.009338058
#> SMAD4 0.048850955 0.0062005364 0.011068247 0.032683201
#> SMARCA4 0.020936124 0.0026573728 0.004743535 0.014007086
#> STK11 0.055829663 0.0070863274 0.012649425 0.037352230
#> TP53 0.886295904 0.1124954469 0.200809629 0.592966655
#> U2AF1 0.083744495 0.0106294910 0.018974138 0.056028345
#> TCGA-05-4402-01 TCGA-05-4424-01 TCGA-05-4426-01 TCGA-05-4434-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0033444816 0.019239048 0.0012252061 0.0010927514
#> BRAF 0.0267558528 0.153912381 0.0098016491 0.0087420113
#> CDKN2A 0.0083612040 0.048097619 0.0030630153 0.0027318785
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0100334448 0.057717143 0.0036756184 0.0032782542
#> EGFR 0.0250836120 0.144292857 0.0091890460 0.0081956356
#> KEAP1 0.0108695652 0.062526905 0.0039819199 0.0035514421
#> KRAS 0.1287625418 0.740703335 0.0471704361 0.0420709295
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0008361204 0.004809762 0.0003063015 0.0002731879
#> PIK3CA 0.0158862876 0.091385476 0.0058197291 0.0051905692
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0008361204 0.004809762 0.0003063015 0.0002731879
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0016722408 0.009619524 0.0006126031 0.0005463757
#> SMAD4 0.0058528428 0.033668333 0.0021441107 0.0019123150
#> SMARCA4 0.0025083612 0.014429286 0.0009189046 0.0008195636
#> STK11 0.0066889632 0.038478095 0.0024504123 0.0021855028
#> TP53 0.1061872910 0.610839763 0.0389002947 0.0346948574
#> U2AF1 0.0100334448 0.057717143 0.0036756184 0.0032782542
#> TCGA-05-5715-01 TCGA-38-4626-01 TCGA-38-4628-01 TCGA-38-7271-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0029140038 0.006688963 0.0032120269 0.002284844
#> BRAF 0.0233120302 0.053511706 0.0256962151 0.018278751
#> CDKN2A 0.0072850094 0.016722408 0.0080300672 0.005712110
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0087420113 0.020066890 0.0096360807 0.006854532
#> EGFR 0.0218550283 0.050167224 0.0240902017 0.017136329
#> KEAP1 0.0094705123 0.021739130 0.0104390874 0.007425743
#> KRAS 0.1121891453 0.257525084 0.1236630352 0.087966489
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0007285009 0.001672241 0.0008030067 0.000571211
#> PIK3CA 0.0138415179 0.031772575 0.0152571277 0.010853008
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0007285009 0.001672241 0.0008030067 0.000571211
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0014570019 0.003344482 0.0016060134 0.001142422
#> SMAD4 0.0050995066 0.011705686 0.0056210471 0.003998477
#> SMARCA4 0.0021855028 0.005016722 0.0024090202 0.001713633
#> STK11 0.0058280075 0.013377926 0.0064240538 0.004569688
#> TP53 0.0925196199 0.212374582 0.1019818537 0.072543793
#> U2AF1 0.0087420113 0.020066890 0.0096360807 0.006854532
#> TCGA-38-A44F-01 TCGA-44-2655-01 TCGA-44-2659-01 TCGA-44-3398-01
#> ARID1A 0.000000e+00 0.000000000 0.000000000 0.000000000
#> ATM 2.980231e-04 0.004669029 0.010828173 0.004933938
#> BRAF 2.384185e-03 0.037352230 0.086625385 0.039471506
#> CDKN2A 7.450578e-04 0.011672572 0.027070433 0.012334846
#> CMTR2 0.000000e+00 0.000000000 0.000000000 0.000000000
#> CTNNB1 8.940693e-04 0.014007086 0.032484519 0.014801815
#> EGFR 2.235173e-03 0.035017716 0.081211298 0.037004537
#> KEAP1 9.685751e-04 0.015174344 0.035191563 0.016035299
#> KRAS 1.147389e-02 0.179757608 0.416884665 0.189956621
#> MGA 0.000000e+00 0.000000000 0.000000000 0.000000000
#> NF1 7.450578e-05 0.001167257 0.002707043 0.001233485
#> PIK3CA 1.415610e-03 0.022177887 0.051433822 0.023436206
#> PTPRD 0.000000e+00 0.000000000 0.000000000 0.000000000
#> PTPRT 7.450578e-05 0.001167257 0.002707043 0.001233485
#> RB1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000e+00 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> SETD2 1.490116e-04 0.002334514 0.005414087 0.002466969
#> SMAD4 5.215404e-04 0.008170800 0.018949303 0.008634392
#> SMARCA4 2.235173e-04 0.003501772 0.008121130 0.003700454
#> STK11 5.960462e-04 0.009338058 0.021656346 0.009867876
#> TP53 9.462234e-03 0.148241664 0.343794497 0.156652538
#> U2AF1 8.940693e-04 0.014007086 0.032484519 0.014801815
#> TCGA-44-3918-01 TCGA-44-3919-01 TCGA-44-4112-01 TCGA-44-5644-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.024901487 0.0014901156 0.011788470 0.025497533
#> BRAF 0.199211894 0.0119209245 0.094307759 0.203980264
#> CDKN2A 0.062253717 0.0037252889 0.029471175 0.063743833
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.074704460 0.0044703467 0.035365409 0.076492599
#> EGFR 0.186761151 0.0111758668 0.088413524 0.191231498
#> KEAP1 0.080929832 0.0048428756 0.038312527 0.082866982
#> KRAS 0.958707242 0.0573694493 0.453856088 0.981655022
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.006225372 0.0003725289 0.002947117 0.006374383
#> PIK3CA 0.118282062 0.0070780489 0.055995232 0.121113282
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.006225372 0.0003725289 0.002947117 0.006374383
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.012450743 0.0007450578 0.005894235 0.012748767
#> SMAD4 0.043577602 0.0026077022 0.020629822 0.044620683
#> SMARCA4 0.018676115 0.0011175867 0.008841352 0.019123150
#> STK11 0.049802974 0.0029802311 0.023576940 0.050995066
#> TP53 0.790622206 0.0473111692 0.374283917 0.809546674
#> U2AF1 0.074704460 0.0044703467 0.035365409 0.076492599
#> TCGA-44-6148-01 TCGA-44-6778-01 TCGA-44-6779-01 TCGA-44-7660-01
#> ARID1A 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> ATM 1.986821e-04 0.010331468 0.0026159807 0.009503626
#> BRAF 1.589457e-03 0.082651743 0.0209278453 0.076029008
#> CDKN2A 4.967052e-04 0.025828670 0.0065399517 0.023759065
#> CMTR2 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> CTNNB1 5.960462e-04 0.030994404 0.0078479420 0.028510878
#> EGFR 1.490116e-03 0.077486009 0.0196198550 0.071277195
#> KEAP1 6.457167e-04 0.033577271 0.0085019372 0.030886784
#> KRAS 7.649260e-03 0.397761515 0.1007152555 0.365889599
#> MGA 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> NF1 4.967052e-05 0.002582867 0.0006539952 0.002375906
#> PIK3CA 9.437399e-04 0.049074473 0.0124259081 0.045142223
#> PTPRD 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> PTPRT 4.967052e-05 0.002582867 0.0006539952 0.002375906
#> RB1 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> SETD2 9.934104e-05 0.005165734 0.0013079903 0.004751813
#> SMAD4 3.476936e-04 0.018080069 0.0045779662 0.016631345
#> SMARCA4 1.490116e-04 0.007748601 0.0019619855 0.007127719
#> STK11 3.973642e-04 0.020662936 0.0052319613 0.019007252
#> TP53 6.308156e-03 0.328024107 0.0830573860 0.301740124
#> U2AF1 5.960462e-04 0.030994404 0.0078479420 0.028510878
#> TCGA-44-7667-01 TCGA-44-7669-01 TCGA-44-A479-01 TCGA-44-A47B-01
#> ARID1A 0.00000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.01215272 0.011622901 0.008212192 0.0010927514
#> BRAF 0.09722176 0.092983211 0.065697540 0.0087420113
#> CDKN2A 0.03038180 0.029057254 0.020530481 0.0027318785
#> CMTR2 0.00000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.03645816 0.034868704 0.024636577 0.0032782542
#> EGFR 0.09114540 0.087171761 0.061591443 0.0081956356
#> KEAP1 0.03949634 0.037774430 0.026689625 0.0035514421
#> KRAS 0.46787973 0.447481705 0.316169410 0.0420709295
#> MGA 0.00000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.00303818 0.002905725 0.002053048 0.0002731879
#> PIK3CA 0.05772542 0.055208782 0.039007914 0.0051905692
#> PTPRD 0.00000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.00303818 0.002905725 0.002053048 0.0002731879
#> RB1 0.00000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.00000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.00000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.00607636 0.005811451 0.004106096 0.0005463757
#> SMAD4 0.02126726 0.020340077 0.014371337 0.0019123150
#> SMARCA4 0.00911454 0.008717176 0.006159144 0.0008195636
#> STK11 0.02430544 0.023245803 0.016424385 0.0021855028
#> TP53 0.38584887 0.369027120 0.260737111 0.0346948574
#> U2AF1 0.03645816 0.034868704 0.024636577 0.0032782542
#> TCGA-49-4487-01 TCGA-49-4501-01 TCGA-49-4512-01 TCGA-49-6742-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.009636081 0.0013576608 0.0010596377 0.006920759
#> BRAF 0.077088645 0.0108612868 0.0084771019 0.055366072
#> CDKN2A 0.024090202 0.0033941521 0.0026490943 0.017301897
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.028908242 0.0040729825 0.0031789132 0.020762277
#> EGFR 0.072270605 0.0101824564 0.0079472830 0.051905692
#> KEAP1 0.031317262 0.0044123978 0.0034438226 0.022492467
#> KRAS 0.370989106 0.0522699427 0.0407960528 0.266449220
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.002409020 0.0003394152 0.0002649094 0.001730190
#> PIK3CA 0.045771383 0.0064488890 0.0050332792 0.032873605
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.002409020 0.0003394152 0.0002649094 0.001730190
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.004818040 0.0006788304 0.0005298189 0.003460379
#> SMAD4 0.016863141 0.0023759065 0.0018543660 0.012111328
#> SMARCA4 0.007227060 0.0010182456 0.0007947283 0.005190569
#> STK11 0.019272161 0.0027153217 0.0021192755 0.013841518
#> TP53 0.305945561 0.0431057320 0.0336434981 0.219734097
#> U2AF1 0.028908242 0.0040729825 0.0031789132 0.020762277
#> TCGA-49-6743-01 TCGA-49-6761-01 TCGA-49-6767-01 TCGA-49-AAR0-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.019537071 0.007583033 0.011920925 0.0035431637
#> BRAF 0.156296566 0.060664260 0.095367396 0.0283453094
#> CDKN2A 0.048842677 0.018957581 0.029802311 0.0088579092
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.058611212 0.022749098 0.035762774 0.0106294910
#> EGFR 0.146528031 0.056872744 0.089406934 0.0265737276
#> KEAP1 0.063495480 0.024644856 0.038743005 0.0115152820
#> KRAS 0.752177224 0.291946753 0.458955595 0.1364118017
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.004884268 0.001895758 0.002980231 0.0008857909
#> PIK3CA 0.092801086 0.036019405 0.056624392 0.0168300275
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.004884268 0.001895758 0.002980231 0.0008857909
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.009768535 0.003791516 0.005960462 0.0017715818
#> SMAD4 0.034189874 0.013270307 0.020861618 0.0062005364
#> SMARCA4 0.014652803 0.005687274 0.008940693 0.0026573728
#> STK11 0.039074142 0.015166065 0.023841849 0.0070863274
#> TP53 0.620301997 0.240761283 0.378489354 0.1124954469
#> U2AF1 0.058611212 0.022749098 0.035762774 0.0106294910
#> TCGA-49-AAR2-01 TCGA-49-AAR3-01 TCGA-49-AAR4-01 TCGA-49-AARR-01
#> ARID1A 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> ATM 0.010165900 0.0038743005 0.01529852 6.622736e-05
#> BRAF 0.081327196 0.0309944038 0.12238816 5.298189e-04
#> CDKN2A 0.025414749 0.0096857512 0.03824630 1.655684e-04
#> CMTR2 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> CTNNB1 0.030497699 0.0116229014 0.04589556 1.986821e-04
#> EGFR 0.076244246 0.0290572536 0.11473890 4.967052e-04
#> KEAP1 0.033039173 0.0125914765 0.04972019 2.152389e-04
#> KRAS 0.391387132 0.1491605682 0.58899301 2.549753e-03
#> MGA 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> NF1 0.002541475 0.0009685751 0.00382463 1.655684e-05
#> PIK3CA 0.048288023 0.0184029272 0.07266797 3.145800e-04
#> PTPRD 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> PTPRT 0.002541475 0.0009685751 0.00382463 1.655684e-05
#> RB1 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> RBM10 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> SETBP1 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> SETD2 0.005082950 0.0019371502 0.00764926 3.311368e-05
#> SMAD4 0.017790324 0.0067800258 0.02677241 1.158979e-04
#> SMARCA4 0.007624425 0.0029057254 0.01147389 4.967052e-05
#> STK11 0.020331799 0.0077486009 0.03059704 1.324547e-04
#> TP53 0.322767310 0.1230090400 0.48572800 2.102719e-03
#> U2AF1 0.030497699 0.0116229014 0.04589556 1.986821e-04
#> TCGA-50-5045-01 TCGA-50-5049-01 TCGA-50-5055-01 TCGA-50-5072-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.008212192 0.021126527 0.0006291599 0.004172324
#> BRAF 0.065697540 0.169012219 0.0050332792 0.033378589
#> CDKN2A 0.020530481 0.052816318 0.0015728998 0.010430809
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.024636577 0.063379582 0.0018874797 0.012516971
#> EGFR 0.061591443 0.158448955 0.0047186993 0.031292427
#> KEAP1 0.026689625 0.068661214 0.0020447697 0.013560052
#> KRAS 0.316169410 0.813371304 0.0242226564 0.160634458
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.002053048 0.005281632 0.0001572900 0.001043081
#> PIK3CA 0.039007914 0.100351005 0.0029885096 0.019818537
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.002053048 0.005281632 0.0001572900 0.001043081
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.004106096 0.010563264 0.0003145800 0.002086162
#> SMAD4 0.014371337 0.036971423 0.0011010298 0.007301566
#> SMARCA4 0.006159144 0.015844896 0.0004718699 0.003129243
#> STK11 0.016424385 0.042253055 0.0012583198 0.008344647
#> TP53 0.260737111 0.670767244 0.0199758270 0.132471274
#> U2AF1 0.024636577 0.063379582 0.0018874797 0.012516971
#> TCGA-50-5931-01 TCGA-50-5935-01 TCGA-50-6590-01 TCGA-50-6597-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.007814828 0.002682208 0.023974304 0.0013907745
#> BRAF 0.062518626 0.021457664 0.191794430 0.0111261962
#> CDKN2A 0.019537071 0.006705520 0.059935759 0.0034769363
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.023444485 0.008046624 0.071922911 0.0041723236
#> EGFR 0.058611212 0.020116560 0.179807278 0.0104308090
#> KEAP1 0.025398192 0.008717176 0.077916487 0.0045200172
#> KRAS 0.300870890 0.103265009 0.923010696 0.0535448194
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001953707 0.000670552 0.005993576 0.0003476936
#> PIK3CA 0.037120434 0.012740488 0.113877943 0.0066061790
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001953707 0.000670552 0.005993576 0.0003476936
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003907414 0.001341104 0.011987152 0.0006953873
#> SMAD4 0.013675950 0.004693864 0.041955032 0.0024338554
#> SMARCA4 0.005861121 0.002011656 0.017980728 0.0010430809
#> STK11 0.015629657 0.005364416 0.047948608 0.0027815491
#> TP53 0.248120799 0.085160105 0.761184145 0.0441570913
#> U2AF1 0.023444485 0.008046624 0.071922911 0.0041723236
#> TCGA-50-8457-01 TCGA-53-7624-01 TCGA-55-1594-01 TCGA-55-5899-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0013576608 0.021225868 0.004834597 0.011258651
#> BRAF 0.0108612868 0.169806947 0.038676777 0.090069208
#> CDKN2A 0.0033941521 0.053064671 0.012086493 0.028146627
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0040729825 0.063677605 0.014503792 0.033775953
#> EGFR 0.0101824564 0.159194013 0.036259479 0.084439882
#> KEAP1 0.0044123978 0.068984072 0.015712441 0.036590616
#> KRAS 0.0522699427 0.817195934 0.186131991 0.433458062
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003394152 0.005306467 0.001208649 0.002814663
#> PIK3CA 0.0064488890 0.100822875 0.022964337 0.053478592
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003394152 0.005306467 0.001208649 0.002814663
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0006788304 0.010612934 0.002417299 0.005629325
#> SMAD4 0.0023759065 0.037145270 0.008460545 0.019702639
#> SMARCA4 0.0010182456 0.015919401 0.003625948 0.008443988
#> STK11 0.0027153217 0.042451737 0.009669194 0.022517302
#> TP53 0.0431057320 0.673921322 0.153498460 0.357462168
#> U2AF1 0.0040729825 0.063677605 0.014503792 0.033775953
#> TCGA-55-6543-01 TCGA-55-6712-01 TCGA-55-6971-01 TCGA-55-6972-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0006291599 0.0033444816 0.005728667 0.007417464
#> BRAF 0.0050332792 0.0267558528 0.045829332 0.059339713
#> CDKN2A 0.0015728998 0.0083612040 0.014321666 0.018543660
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0018874797 0.0100334448 0.017186000 0.022252392
#> EGFR 0.0047186993 0.0250836120 0.042964999 0.055630981
#> KEAP1 0.0020447697 0.0108695652 0.018618166 0.024106759
#> KRAS 0.0242226564 0.1287625418 0.220553661 0.285572370
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0001572900 0.0008361204 0.001432167 0.001854366
#> PIK3CA 0.0029885096 0.0158862876 0.027211166 0.035232955
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0001572900 0.0008361204 0.001432167 0.001854366
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0003145800 0.0016722408 0.002864333 0.003708732
#> SMAD4 0.0011010298 0.0058528428 0.010025166 0.012980562
#> SMARCA4 0.0004718699 0.0025083612 0.004296500 0.005563098
#> STK11 0.0012583198 0.0066889632 0.011457333 0.014834928
#> TP53 0.0199758270 0.1061872910 0.181885162 0.235504487
#> U2AF1 0.0018874797 0.0100334448 0.017186000 0.022252392
#> TCGA-55-6978-01 TCGA-55-6980-01 TCGA-55-6982-01 TCGA-55-6985-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0014901156 0.0008609557 0.006225372 0.012550084
#> BRAF 0.0119209245 0.0068876453 0.049802974 0.100400676
#> CDKN2A 0.0037252889 0.0021523892 0.015563429 0.031375211
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0044703467 0.0025828670 0.018676115 0.037650253
#> EGFR 0.0111758668 0.0064571675 0.046690288 0.094125633
#> KEAP1 0.0048428756 0.0027981059 0.020232458 0.040787774
#> KRAS 0.0573694493 0.0331467929 0.239676810 0.483178251
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0003725289 0.0002152389 0.001556343 0.003137521
#> PIK3CA 0.0070780489 0.0040895394 0.029570516 0.059612901
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0003725289 0.0002152389 0.001556343 0.003137521
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0007450578 0.0004304778 0.003112686 0.006275042
#> SMAD4 0.0026077022 0.0015066724 0.010894400 0.021962648
#> SMARCA4 0.0011175867 0.0006457167 0.004669029 0.009412563
#> STK11 0.0029802311 0.0017219113 0.012450743 0.025100169
#> TP53 0.0473111692 0.0273353422 0.197655552 0.398465181
#> U2AF1 0.0044703467 0.0025828670 0.018676115 0.037650253
#> TCGA-55-6986-01 TCGA-55-6987-01 TCGA-55-7574-01 TCGA-55-8087-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0006291599 0.006059803 0.007218782 0.0009271830
#> BRAF 0.0050332792 0.048478426 0.057750257 0.0074174642
#> CDKN2A 0.0015728998 0.015149508 0.018046955 0.0023179575
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0018874797 0.018179410 0.021656346 0.0027815491
#> EGFR 0.0047186993 0.045448525 0.054140866 0.0069538726
#> KEAP1 0.0020447697 0.019694361 0.023461042 0.0030133448
#> KRAS 0.0242226564 0.233302427 0.277923110 0.0356965462
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0001572900 0.001514951 0.001804696 0.0002317958
#> PIK3CA 0.0029885096 0.028784066 0.034289215 0.0044041193
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0001572900 0.001514951 0.001804696 0.0002317958
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0003145800 0.003029902 0.003609391 0.0004635915
#> SMAD4 0.0011010298 0.010604656 0.012632869 0.0016225703
#> SMARCA4 0.0004718699 0.004544852 0.005414087 0.0006953873
#> STK11 0.0012583198 0.012119607 0.014437564 0.0018543660
#> TP53 0.0199758270 0.192398755 0.229196331 0.0294380609
#> U2AF1 0.0018874797 0.018179410 0.021656346 0.0027815491
#> TCGA-55-8091-01 TCGA-55-8204-01 TCGA-55-8206-01 TCGA-55-8507-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0009602967 0.005563098 0.0007285009 0.025133283
#> BRAF 0.0076823736 0.044504785 0.0058280075 0.201066260
#> CDKN2A 0.0024007417 0.013907745 0.0018212524 0.062833206
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0028808901 0.016689294 0.0021855028 0.075399848
#> EGFR 0.0072022252 0.041723236 0.0054637571 0.188499619
#> KEAP1 0.0031209643 0.018080069 0.0023676281 0.081683168
#> KRAS 0.0369714229 0.214179277 0.0280472863 0.967631379
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002400742 0.001390775 0.0001821252 0.006283321
#> PIK3CA 0.0045614093 0.026424716 0.0034603795 0.119383092
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002400742 0.001390775 0.0001821252 0.006283321
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004801483 0.002781549 0.0003642505 0.012566641
#> SMAD4 0.0016805192 0.009735422 0.0012748767 0.043983244
#> SMARCA4 0.0007202225 0.004172324 0.0005463757 0.018849962
#> STK11 0.0019205934 0.011126196 0.0014570019 0.050266565
#> TP53 0.0304894202 0.176628365 0.0231299050 0.797981721
#> U2AF1 0.0028808901 0.016689294 0.0021855028 0.075399848
#> TCGA-55-8510-01 TCGA-55-8513-01 TCGA-55-8619-01 TCGA-55-8621-01
#> ARID1A 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> ATM 0.007781715 1.986821e-04 0.0005960462 0.0019537071
#> BRAF 0.062253717 1.589457e-03 0.0047683698 0.0156296566
#> CDKN2A 0.019454287 4.967052e-04 0.0014901156 0.0048842677
#> CMTR2 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> CTNNB1 0.023345144 5.960462e-04 0.0017881387 0.0058611212
#> EGFR 0.058362860 1.490116e-03 0.0044703467 0.0146528031
#> KEAP1 0.025290573 6.457167e-04 0.0019371502 0.0063495480
#> KRAS 0.299596013 7.649260e-03 0.0229477797 0.0752177224
#> MGA 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> NF1 0.001945429 4.967052e-05 0.0001490116 0.0004884268
#> PIK3CA 0.036963144 9.437399e-04 0.0028312196 0.0092801086
#> PTPRD 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> PTPRT 0.001945429 4.967052e-05 0.0001490116 0.0004884268
#> RB1 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> SETD2 0.003890857 9.934104e-05 0.0002980231 0.0009768535
#> SMAD4 0.013618001 3.476936e-04 0.0010430809 0.0034189874
#> SMARCA4 0.005836286 1.490116e-04 0.0004470347 0.0014652803
#> STK11 0.015563429 3.973642e-04 0.0011920925 0.0039074142
#> TP53 0.247069439 6.308156e-03 0.0189244677 0.0620301997
#> U2AF1 0.023345144 5.960462e-04 0.0017881387 0.0058611212
#> TCGA-55-A4DF-01 TCGA-62-8397-01 TCGA-62-A46O-01 TCGA-62-A46P-01
#> ARID1A 0.00000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.01907348 0.0005960462 0.022252392 0.007218782
#> BRAF 0.15258783 0.0047683698 0.178019140 0.057750257
#> CDKN2A 0.04768370 0.0014901156 0.055630981 0.018046955
#> CMTR2 0.00000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.05722044 0.0017881387 0.066757177 0.021656346
#> EGFR 0.14305109 0.0044703467 0.166892943 0.054140866
#> KEAP1 0.06198881 0.0019371502 0.072320276 0.023461042
#> KRAS 0.73432895 0.0229477797 0.856717110 0.277923110
#> MGA 0.00000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.00476837 0.0001490116 0.005563098 0.001804696
#> PIK3CA 0.09059903 0.0028312196 0.105698864 0.034289215
#> PTPRD 0.00000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.00476837 0.0001490116 0.005563098 0.001804696
#> RB1 0.00000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.00000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.00000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.00953674 0.0002980231 0.011126196 0.003609391
#> SMAD4 0.03337859 0.0010430809 0.038941687 0.012632869
#> SMARCA4 0.01430511 0.0004470347 0.016689294 0.005414087
#> STK11 0.03814696 0.0011920925 0.044504785 0.014437564
#> TP53 0.60558297 0.0189244677 0.706513461 0.229196331
#> U2AF1 0.05722044 0.0017881387 0.066757177 0.021656346
#> TCGA-62-A46Y-01 TCGA-64-5779-01 TCGA-64-5781-01 TCGA-69-7760-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0008609557 0.009271830 0.028477764 0.0016887976
#> BRAF 0.0068876453 0.074174642 0.227822113 0.0135103811
#> CDKN2A 0.0021523892 0.023179575 0.071194410 0.0042219941
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0025828670 0.027815491 0.085433292 0.0050663929
#> EGFR 0.0064571675 0.069538726 0.213583231 0.0126659823
#> KEAP1 0.0027981059 0.030133448 0.092552734 0.0054885923
#> KRAS 0.0331467929 0.356965462 1.000000000 0.0650187092
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0002152389 0.002317958 0.007119441 0.0004221994
#> PIK3CA 0.0040895394 0.044041193 0.135269380 0.0080217888
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0002152389 0.002317958 0.007119441 0.0004221994
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0004304778 0.004635915 0.014238882 0.0008443988
#> SMAD4 0.0015066724 0.016225703 0.049836087 0.0029553959
#> SMARCA4 0.0006457167 0.006953873 0.021358323 0.0012665982
#> STK11 0.0017219113 0.018543660 0.056955528 0.0033775953
#> TP53 0.0273353422 0.294380609 0.904169012 0.0536193251
#> U2AF1 0.0025828670 0.027815491 0.085433292 0.0050663929
#> TCGA-69-7761-01 TCGA-69-7763-01 TCGA-69-7764-01 TCGA-69-7979-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> ATM 0.0007285009 0.0018543660 0.0023179575 0.03708732
#> BRAF 0.0058280075 0.0148349283 0.0185436604 0.29669857
#> CDKN2A 0.0018212524 0.0046359151 0.0057948939 0.09271830
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> CTNNB1 0.0021855028 0.0055630981 0.0069538726 0.11126196
#> EGFR 0.0054637571 0.0139077453 0.0173846816 0.27815491
#> KEAP1 0.0023676281 0.0060266896 0.0075333620 0.12053379
#> KRAS 0.0280472863 0.0713930925 0.0892413656 1.00000000
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> NF1 0.0001821252 0.0004635915 0.0005794894 0.00927183
#> PIK3CA 0.0034603795 0.0088082387 0.0110102984 0.17616477
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> PTPRT 0.0001821252 0.0004635915 0.0005794894 0.00927183
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETD2 0.0003642505 0.0009271830 0.0011589788 0.01854366
#> SMAD4 0.0012748767 0.0032451406 0.0040564257 0.06490281
#> SMARCA4 0.0005463757 0.0013907745 0.0017384682 0.02781549
#> STK11 0.0014570019 0.0037087321 0.0046359151 0.07417464
#> TP53 0.0231299050 0.0588761217 0.0735951522 1.00000000
#> U2AF1 0.0021855028 0.0055630981 0.0069538726 0.11126196
#> TCGA-69-8255-01 TCGA-69-A59K-01 TCGA-71-6725-01 TCGA-73-4659-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.007417464 0.012285175 0.0015894566 0.005231961
#> BRAF 0.059339713 0.098281400 0.0127156528 0.041855691
#> CDKN2A 0.018543660 0.030712938 0.0039736415 0.013079903
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.022252392 0.036855525 0.0047683698 0.015695884
#> EGFR 0.055630981 0.092138813 0.0119209245 0.039239710
#> KEAP1 0.024106759 0.039926819 0.0051657340 0.017003874
#> KRAS 0.285572370 0.472979238 0.0611940793 0.201430511
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001854366 0.003071294 0.0003973642 0.001307990
#> PIK3CA 0.035232955 0.058354581 0.0075499189 0.024851816
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001854366 0.003071294 0.0003973642 0.001307990
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003708732 0.006142588 0.0007947283 0.002615981
#> SMAD4 0.012980562 0.021499056 0.0027815491 0.009155932
#> SMARCA4 0.005563098 0.009213881 0.0011920925 0.003923971
#> STK11 0.014834928 0.024570350 0.0031789132 0.010463923
#> TP53 0.235504487 0.390054306 0.0504652472 0.166114772
#> U2AF1 0.022252392 0.036855525 0.0047683698 0.015695884
#> TCGA-73-4668-01 TCGA-73-4675-01 TCGA-75-5122-01 TCGA-75-5125-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.013212358 0.0015563429 0.0034107090 0.004503460
#> BRAF 0.105698864 0.0124507434 0.0272856717 0.036027683
#> CDKN2A 0.033030895 0.0038908573 0.0085267724 0.011258651
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.039637074 0.0046690288 0.0102321269 0.013510381
#> EGFR 0.099092685 0.0116725719 0.0255803172 0.033775953
#> KEAP1 0.042940164 0.0050581145 0.0110848041 0.014636246
#> KRAS 0.508675784 0.0599192026 0.1313122951 0.173383225
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.003303090 0.0003890857 0.0008526772 0.001125865
#> PIK3CA 0.062758701 0.0073926289 0.0162008676 0.021391437
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.003303090 0.0003890857 0.0008526772 0.001125865
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.006606179 0.0007781715 0.0017053545 0.002251730
#> SMAD4 0.023121627 0.0027236001 0.0059687407 0.007881056
#> SMARCA4 0.009909269 0.0011672572 0.0025580317 0.003377595
#> STK11 0.026424716 0.0031126859 0.0068214179 0.009006921
#> TP53 0.419492367 0.0494138879 0.1082900096 0.142984867
#> U2AF1 0.039637074 0.0046690288 0.0102321269 0.013510381
#> TCGA-75-6203-01 TCGA-75-6205-01 TCGA-75-6207-01 TCGA-75-6212-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0003311368 0.0014238882 0.0017219113 0.0005298189
#> BRAF 0.0026490943 0.0113911057 0.0137752906 0.0042385509
#> CDKN2A 0.0008278420 0.0035597205 0.0043047783 0.0013245472
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0009934104 0.0042716646 0.0051657340 0.0015894566
#> EGFR 0.0024835259 0.0106791616 0.0129143349 0.0039736415
#> KEAP1 0.0010761946 0.0046276367 0.0055962118 0.0017219113
#> KRAS 0.0127487665 0.0548196960 0.0662935859 0.0203980264
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0000827842 0.0003559721 0.0004304778 0.0001324547
#> PIK3CA 0.0015728998 0.0067634690 0.0081790788 0.0025166396
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0000827842 0.0003559721 0.0004304778 0.0001324547
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0001655684 0.0007119441 0.0008609557 0.0002649094
#> SMAD4 0.0005794894 0.0024918044 0.0030133448 0.0009271830
#> SMARCA4 0.0002483526 0.0010679162 0.0012914335 0.0003973642
#> STK11 0.0006622736 0.0028477764 0.0034438226 0.0010596377
#> TP53 0.0105135932 0.0452084506 0.0546706845 0.0168217491
#> U2AF1 0.0009934104 0.0042716646 0.0051657340 0.0015894566
#> TCGA-75-7025-01 TCGA-75-7031-01 TCGA-78-7154-01 TCGA-78-7156-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0008278420 0.005132620 0.006026690 0.008377761
#> BRAF 0.0066227359 0.041060962 0.048213517 0.067022087
#> CDKN2A 0.0020696050 0.012831551 0.015066724 0.020944402
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0024835259 0.015397861 0.018080069 0.025133283
#> EGFR 0.0062088149 0.038494652 0.045200172 0.062833206
#> KEAP1 0.0026904864 0.016681016 0.019586741 0.027227723
#> KRAS 0.0318719163 0.197605881 0.232027551 0.322543793
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0002069605 0.001283155 0.001506672 0.002094440
#> PIK3CA 0.0039322494 0.024379946 0.028626776 0.039794364
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0002069605 0.001283155 0.001506672 0.002094440
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0004139210 0.002566310 0.003013345 0.004188880
#> SMAD4 0.0014487235 0.008982085 0.010546707 0.014661081
#> SMARCA4 0.0006208815 0.003849465 0.004520017 0.006283321
#> STK11 0.0016556840 0.010265241 0.012053379 0.016755522
#> TP53 0.0262839829 0.162960694 0.191347396 0.265993907
#> U2AF1 0.0024835259 0.015397861 0.018080069 0.025133283
#> TCGA-78-7162-01 TCGA-78-7163-01 TCGA-78-7535-01 TCGA-78-7536-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0022186165 0.0012914335 0.004304778 0.016722408
#> BRAF 0.0177489321 0.0103314679 0.034438226 0.133779264
#> CDKN2A 0.0055465413 0.0032285837 0.010761946 0.041806020
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0066558495 0.0038743005 0.012914335 0.050167224
#> EGFR 0.0166396238 0.0096857512 0.032285837 0.125418060
#> KEAP1 0.0072105037 0.0041971588 0.013990529 0.054347826
#> KRAS 0.0854167357 0.0497201894 0.165733965 0.643812709
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0005546541 0.0003228584 0.001076195 0.004180602
#> PIK3CA 0.0105384284 0.0061343091 0.020447697 0.079431438
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0005546541 0.0003228584 0.001076195 0.004180602
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0011093083 0.0006457167 0.002152389 0.008361204
#> SMAD4 0.0038825789 0.0022600086 0.007533362 0.029264214
#> SMARCA4 0.0016639624 0.0009685751 0.003228584 0.012541806
#> STK11 0.0044372330 0.0025828670 0.008609557 0.033444816
#> TP53 0.0704410742 0.0410030133 0.136676711 0.530936455
#> U2AF1 0.0066558495 0.0038743005 0.012914335 0.050167224
#> TCGA-78-7542-01 TCGA-78-8648-01 TCGA-80-5611-01 TCGA-86-6562-01
#> ARID1A 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> ATM 0.009338058 3.973642e-04 0.005496871 0.0015232292
#> BRAF 0.074704460 3.178913e-03 0.043974966 0.0121858340
#> CDKN2A 0.023345144 9.934104e-04 0.013742177 0.0038080731
#> CMTR2 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> CTNNB1 0.028014173 1.192092e-03 0.016490612 0.0045696877
#> EGFR 0.070035432 2.980231e-03 0.041226531 0.0114242193
#> KEAP1 0.030348687 1.291433e-03 0.017864830 0.0049504950
#> KRAS 0.359515216 1.529852e-02 0.211629524 0.0586443260
#> MGA 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> NF1 0.002334514 9.934104e-05 0.001374218 0.0003808073
#> PIK3CA 0.044355773 1.887480e-03 0.026110136 0.0072353389
#> PTPRD 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> PTPRT 0.002334514 9.934104e-05 0.001374218 0.0003808073
#> RB1 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> SETD2 0.004669029 1.986821e-04 0.002748435 0.0007616146
#> SMAD4 0.016341601 6.953873e-04 0.009619524 0.0026656512
#> SMARCA4 0.007003543 2.980231e-04 0.004122653 0.0011424219
#> STK11 0.018676115 7.947283e-04 0.010993742 0.0030464585
#> TP53 0.296483327 1.261631e-02 0.174525647 0.0483625286
#> U2AF1 0.028014173 1.192092e-03 0.016490612 0.0045696877
#> TCGA-86-7701-01 TCGA-86-7955-01 TCGA-86-8073-01 TCGA-86-8358-01
#> ARID1A 0.000000000 0.000000000 0.00000000 0.000000000
#> ATM 0.010331468 0.007881056 0.03834564 0.026855194
#> BRAF 0.082651743 0.063048445 0.30676512 0.214841551
#> CDKN2A 0.025828670 0.019702639 0.09586410 0.067137985
#> CMTR2 0.000000000 0.000000000 0.00000000 0.000000000
#> CTNNB1 0.030994404 0.023643167 0.11503692 0.080565582
#> EGFR 0.077486009 0.059107917 0.28759230 0.201413954
#> KEAP1 0.033577271 0.025613431 0.12462333 0.087279380
#> KRAS 0.397761515 0.303420643 1.00000000 1.000000000
#> MGA 0.000000000 0.000000000 0.00000000 0.000000000
#> NF1 0.002582867 0.001970264 0.00958641 0.006713798
#> PIK3CA 0.049074473 0.037435014 0.18214179 0.127562171
#> PTPRD 0.000000000 0.000000000 0.00000000 0.000000000
#> PTPRT 0.002582867 0.001970264 0.00958641 0.006713798
#> RB1 0.000000000 0.000000000 0.00000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.00000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.00000000 0.000000000
#> SETD2 0.005165734 0.003940528 0.01917282 0.013427597
#> SMAD4 0.018080069 0.013791847 0.06710487 0.046996589
#> SMARCA4 0.007748601 0.005910792 0.02875923 0.020141395
#> STK11 0.020662936 0.015762111 0.07669128 0.053710388
#> TP53 0.328024107 0.250223517 1.00000000 0.852652406
#> U2AF1 0.030994404 0.023643167 0.11503692 0.080565582
#> TCGA-86-8669-01 TCGA-86-8671-01 TCGA-86-8672-01 TCGA-86-A4P8-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0
#> ATM 0.0032782542 0.001026524 0.007251896 0
#> BRAF 0.0262260340 0.008212192 0.058015166 0
#> CDKN2A 0.0081956356 0.002566310 0.018129739 0
#> CMTR2 0.0000000000 0.000000000 0.000000000 0
#> CTNNB1 0.0098347627 0.003079572 0.021755687 0
#> EGFR 0.0245869069 0.007698930 0.054389218 0
#> KEAP1 0.0106543263 0.003336203 0.023568661 0
#> KRAS 0.1262127885 0.039521176 0.279197987 0
#> MGA 0.0000000000 0.000000000 0.000000000 0
#> NF1 0.0008195636 0.000256631 0.001812974 0
#> PIK3CA 0.0155717077 0.004875989 0.034446505 0
#> PTPRD 0.0000000000 0.000000000 0.000000000 0
#> PTPRT 0.0008195636 0.000256631 0.001812974 0
#> RB1 0.0000000000 0.000000000 0.000000000 0
#> RBM10 0.0000000000 0.000000000 0.000000000 0
#> SETBP1 0.0000000000 0.000000000 0.000000000 0
#> SETD2 0.0016391271 0.000513262 0.003625948 0
#> SMAD4 0.0057369449 0.001796417 0.012690818 0
#> SMARCA4 0.0024586907 0.000769893 0.005438922 0
#> STK11 0.0065565085 0.002053048 0.014503792 0
#> TP53 0.1040845723 0.032592139 0.230247690 0
#> U2AF1 0.0098347627 0.003079572 0.021755687 0
#> TCGA-91-6831-01 TCGA-91-7771-01 TCGA-91-8496-01 TCGA-91-8497-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.007417464 0.005463757 0.0007947283 0.0011258651
#> BRAF 0.059339713 0.043710057 0.0063578264 0.0090069208
#> CDKN2A 0.018543660 0.013659393 0.0019868208 0.0028146627
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.022252392 0.016391271 0.0023841849 0.0033775953
#> EGFR 0.055630981 0.040978178 0.0059604623 0.0084439882
#> KEAP1 0.024106759 0.017757211 0.0025828670 0.0036590616
#> KRAS 0.285572370 0.210354648 0.0305970396 0.0433458062
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.001854366 0.001365939 0.0001986821 0.0002814663
#> PIK3CA 0.035232955 0.025952846 0.0037749594 0.0053478592
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.001854366 0.001365939 0.0001986821 0.0002814663
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.003708732 0.002731879 0.0003973642 0.0005629325
#> SMAD4 0.012980562 0.009561575 0.0013907745 0.0019702639
#> SMARCA4 0.005563098 0.004097818 0.0005960462 0.0008443988
#> STK11 0.014834928 0.010927514 0.0015894566 0.0022517302
#> TP53 0.235504487 0.173474287 0.0252326236 0.0357462168
#> U2AF1 0.022252392 0.016391271 0.0023841849 0.0033775953
#> TCGA-91-8499-01 TCGA-91-A4BC-01 TCGA-93-A4JQ-01 TCGA-95-8039-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.007781715 0.011391106 0.0031457995 0.0024504123
#> BRAF 0.062253717 0.091128845 0.0251663962 0.0196032981
#> CDKN2A 0.019454287 0.028477764 0.0078644988 0.0061260307
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.023345144 0.034173317 0.0094373986 0.0073512368
#> EGFR 0.058362860 0.085433292 0.0235934965 0.0183780920
#> KEAP1 0.025290573 0.037021093 0.0102238485 0.0079638399
#> KRAS 0.299596013 0.438557568 0.1211132819 0.0943408722
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.001945429 0.002847776 0.0007864499 0.0006126031
#> PIK3CA 0.036963144 0.054107752 0.0149425478 0.0116394583
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.001945429 0.002847776 0.0007864499 0.0006126031
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.003890857 0.005695553 0.0015728998 0.0012252061
#> SMAD4 0.013618001 0.019934435 0.0055051492 0.0042882215
#> SMARCA4 0.005836286 0.008543329 0.0023593496 0.0018378092
#> STK11 0.015563429 0.022782211 0.0062915991 0.0049008245
#> TP53 0.247069439 0.361667605 0.0998791351 0.0778005894
#> U2AF1 0.023345144 0.034173317 0.0094373986 0.0073512368
#> TCGA-95-8494-01 TCGA-97-7547-01 TCGA-97-7552-01 TCGA-97-8172-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0025497533 0.004536574 0.0009271830 0.006556508
#> BRAF 0.0203980264 0.036292592 0.0074174642 0.052452068
#> CDKN2A 0.0063743833 0.011341435 0.0023179575 0.016391271
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0076492599 0.013609722 0.0027815491 0.019669525
#> EGFR 0.0191231498 0.034024305 0.0069538726 0.049173814
#> KEAP1 0.0082866982 0.014743866 0.0030133448 0.021308653
#> KRAS 0.0981655022 0.174658101 0.0356965462 0.252425577
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0006374383 0.001134144 0.0002317958 0.001639127
#> PIK3CA 0.0121113282 0.021548727 0.0044041193 0.031143415
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0006374383 0.001134144 0.0002317958 0.001639127
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0012748767 0.002268287 0.0004635915 0.003278254
#> SMAD4 0.0044620683 0.007939005 0.0016225703 0.011473890
#> SMARCA4 0.0019123150 0.003402431 0.0006953873 0.004917381
#> STK11 0.0050995066 0.009073148 0.0018543660 0.013113017
#> TP53 0.0809546674 0.144036226 0.0294380609 0.208169145
#> U2AF1 0.0076492599 0.013609722 0.0027815491 0.019669525
#> TCGA-97-8552-01 TCGA-97-A4M2-01 TCGA-97-A4M6-01 TCGA-99-7458-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> ATM 0.0005629325 0.0008278420 0.0007616146 0.01215272
#> BRAF 0.0045034604 0.0066227359 0.0060929170 0.09722176
#> CDKN2A 0.0014073314 0.0020696050 0.0019040366 0.03038180
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> CTNNB1 0.0016887976 0.0024835259 0.0022848439 0.03645816
#> EGFR 0.0042219941 0.0062088149 0.0057121097 0.09114540
#> KEAP1 0.0018295308 0.0026904864 0.0024752475 0.03949634
#> KRAS 0.0216729031 0.0318719163 0.0293221630 0.46787973
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> NF1 0.0001407331 0.0002069605 0.0001904037 0.00303818
#> PIK3CA 0.0026739296 0.0039322494 0.0036176695 0.05772542
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> PTPRT 0.0001407331 0.0002069605 0.0001904037 0.00303818
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETD2 0.0002814663 0.0004139210 0.0003808073 0.00607636
#> SMAD4 0.0009851320 0.0014487235 0.0013328256 0.02126726
#> SMARCA4 0.0004221994 0.0006208815 0.0005712110 0.00911454
#> STK11 0.0011258651 0.0016556840 0.0015232292 0.02430544
#> TP53 0.0178731084 0.0262839829 0.0241812643 0.38584887
#> U2AF1 0.0016887976 0.0024835259 0.0022848439 0.03645816
#> TCGA-99-AA5R-01 TCGA-J2-8192-01 TCGA-J2-A4AE-01 TCGA-L4-A4E6-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0014570019 0.0018874797 0.0011920925 0.0003311368
#> BRAF 0.0116560151 0.0150998377 0.0095367396 0.0026490943
#> CDKN2A 0.0036425047 0.0047186993 0.0029802311 0.0008278420
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0043710057 0.0056624392 0.0035762774 0.0009934104
#> EGFR 0.0109275142 0.0141560979 0.0089406934 0.0024835259
#> KEAP1 0.0047352561 0.0061343091 0.0038743005 0.0010761946
#> KRAS 0.0560945727 0.0726679691 0.0458955595 0.0127487665
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0003642505 0.0004718699 0.0002980231 0.0000827842
#> PIK3CA 0.0069207590 0.0089655287 0.0056624392 0.0015728998
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003642505 0.0004718699 0.0002980231 0.0000827842
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0007285009 0.0009437399 0.0005960462 0.0001655684
#> SMAD4 0.0025497533 0.0033030895 0.0020861618 0.0005794894
#> SMARCA4 0.0010927514 0.0014156098 0.0008940693 0.0002483526
#> STK11 0.0029140038 0.0037749594 0.0023841849 0.0006622736
#> TP53 0.0462598099 0.0599274810 0.0378489354 0.0105135932
#> U2AF1 0.0043710057 0.0056624392 0.0035762774 0.0009934104
#> TCGA-MP-A4T6-01 TCGA-MP-A4TC-01 TCGA-MP-A4TH-01 TCGA-MP-A4TJ-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0017219113 0.006324713 0.0028477764 0.0024504123
#> BRAF 0.0137752906 0.050597702 0.0227822113 0.0196032981
#> CDKN2A 0.0043047783 0.015811782 0.0071194410 0.0061260307
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0051657340 0.018974138 0.0085433292 0.0073512368
#> EGFR 0.0129143349 0.047435346 0.0213583231 0.0183780920
#> KEAP1 0.0055962118 0.020555316 0.0092552734 0.0079638399
#> KRAS 0.0662935859 0.243501440 0.1096393920 0.0943408722
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0004304778 0.001581178 0.0007119441 0.0006126031
#> PIK3CA 0.0081790788 0.030042386 0.0135269380 0.0116394583
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0004304778 0.001581178 0.0007119441 0.0006126031
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0008609557 0.003162356 0.0014238882 0.0012252061
#> SMAD4 0.0030133448 0.011068247 0.0049836087 0.0042882215
#> SMARCA4 0.0012914335 0.004743535 0.0021358323 0.0018378092
#> STK11 0.0034438226 0.012649425 0.0056955528 0.0049008245
#> TP53 0.0546706845 0.200809629 0.0904169012 0.0778005894
#> U2AF1 0.0051657340 0.018974138 0.0085433292 0.0073512368
#> TCGA-MP-A5C7-01 TCGA-NJ-A4YF-01 TCGA-NJ-A55A-01 TCGA-NJ-A7XG-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0015894566 0.015000497 0.0030464585 0.0007285009
#> BRAF 0.0127156528 0.120003974 0.0243716679 0.0058280075
#> CDKN2A 0.0039736415 0.037501242 0.0076161462 0.0018212524
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0047683698 0.045001490 0.0091393755 0.0021855028
#> EGFR 0.0119209245 0.112503725 0.0228484387 0.0054637571
#> KEAP1 0.0051657340 0.048751614 0.0099009901 0.0023676281
#> KRAS 0.0611940793 0.577519123 0.1172886519 0.0280472863
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0003973642 0.003750124 0.0007616146 0.0001821252
#> PIK3CA 0.0075499189 0.071252359 0.0144706778 0.0034603795
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003973642 0.003750124 0.0007616146 0.0001821252
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0007947283 0.007500248 0.0015232292 0.0003642505
#> SMAD4 0.0027815491 0.026250869 0.0053313024 0.0012748767
#> SMARCA4 0.0011920925 0.011250373 0.0022848439 0.0005463757
#> STK11 0.0031789132 0.030000993 0.0060929170 0.0014570019
#> TP53 0.0504652472 0.476265770 0.0967250571 0.0231299050
#> U2AF1 0.0047683698 0.045001490 0.0091393755 0.0021855028
#> TCGA-O1-A52J-01 TCGA-S2-AA1A-01
#> ARID1A 0.000000000 0.0000000000
#> ATM 0.004304778 0.0029471175
#> BRAF 0.034438226 0.0235769396
#> CDKN2A 0.010761946 0.0073677936
#> CMTR2 0.000000000 0.0000000000
#> CTNNB1 0.012914335 0.0088413524
#> EGFR 0.032285837 0.0221033809
#> KEAP1 0.013990529 0.0095781317
#> KRAS 0.165733965 0.1134640220
#> MGA 0.000000000 0.0000000000
#> NF1 0.001076195 0.0007367794
#> PIK3CA 0.020447697 0.0139988079
#> PTPRD 0.000000000 0.0000000000
#> PTPRT 0.001076195 0.0007367794
#> RB1 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000
#> SETD2 0.002152389 0.0014735587
#> SMAD4 0.007533362 0.0051574555
#> SMARCA4 0.003228584 0.0022103381
#> STK11 0.008609557 0.0058942349
#> TP53 0.136676711 0.0935709792
#> U2AF1 0.012914335 0.0088413524
#>
#> $template.obj$missense$LUAD_weight
#> [1] 0.677389980 1.051408987 1.122057022 5.518858240 0.415576675 0.777128382
#> [7] 1.820225835 0.818686049 4.567187655 2.609821517 0.432199742 1.292443458
#> [13] 3.640451671 0.669078446 0.980760952 0.889334084 0.897645617 0.124673002
#> [19] 0.141296069 3.362015299 0.964137885 1.853471969 0.120517236 0.494536243
#> [25] 1.890873870 1.205172357 0.108049935 0.365707474 1.059720521 0.872711017
#> [31] 1.354779960 1.882562337 0.099738402 2.339696679 1.753733567 0.220255638
#> [37] 2.626444584 1.350624193 0.673234213 0.153763370 0.145451836 1.088810888
#> [43] 0.652455379 0.390642074 0.112205702 1.043097454 0.124673002 0.968293652
#> [49] 0.211944104 0.669078446 1.267508858 0.490380476 0.989072486 1.965677671
#> [55] 3.544869035 0.689857280 0.548561211 2.381254346 2.086194907 1.870095036
#> [61] 0.727259181 0.270124839 1.595814431 0.494536243 0.527782377 0.939203285
#> [67] 0.191165270 0.615053479 0.681545747 0.382330541 0.664922680 0.203632571
#> [73] 1.038941687 0.772972615 0.440511275 0.257657538 2.028014173 4.309530117
#> [79] 2.568263850 1.919964237 2.289827478 0.461290109 0.461290109 0.374019007
#> [85] 0.955826352 0.319994040 3.652918971 0.236878705 1.782823935 0.394797841
#> [91] 0.257657538 1.304910759 0.203632571 0.195321037 2.082039140 0.195321037
#> [97] 0.935047518 1.014007086 1.637372098 0.349084407 0.282592139 0.856087950
#> [103] 0.270124839 0.108049935 3.607205537 0.465445876 1.599970198 1.828537369
#> [109] 1.047253220 0.615053479 0.415576675 1.662306699 1.541789463 0.594274645
#> [115] 0.286747906 1.949054604 0.748038015 0.369863241 0.108049935 1.566724064
#> [121] 0.748038015 0.149607603 1.255041558 0.170386437 1.354779960 0.768816848
#> [127] 0.382330541 0.378174774 0.810374516 0.307526739 0.469601642 0.490380476
#> [133] 3.740190073 1.034785920 0.743882248 1.126212789 0.598430412 4.903804762
#> [139] 2.219179443 0.793751449 3.943822643 0.274280605 1.762045101 1.404649161
#> [145] 0.473757409 0.361551707 1.429583761 1.645683632 1.005695553 1.159458922
#> [151] 0.723103414 0.901801384 2.181777542 0.103894169 5.311069903 0.556872744
#> [157] 1.816070069 0.128828769 0.851932183 0.735570714 0.361551707 1.525166396
#> [163] 1.479452962 1.292443458 1.130368555 0.149607603 4.184857114 1.201016590
#> [169] 0.905957151 0.847776416 0.760505315 2.227490977 0.141296069 0.440511275
#> [175] 0.249346005 0.270124839 1.666462466 0.145451836 0.577651578 0.398953608
#> [181] 0.149607603 0.178697970 0.353240174 0.328305573 0.178697970 1.936587304
#> [187] 0.718947647 1.678929766 0.191165270 0.261813305 0.452978575 1.462829895
#> [193] 1.525166396 0.511159310 3.303834564 0.207788337 0.344928640 0.340772873
#> [199] 0.876866784 0.398953608 0.116361469 0.635832312 1.973989205 0.826997583
#> [205] 1.712175900 1.928275771 2.568263850 0.486224709 0.241034471 1.117901255
#> [211] 0.731414948 1.242574257 1.130368555 0.286747906 0.826997583 0.349084407
#> [217] 0.249346005 2.971373224 2.086194907 0.598430412 0.137140303 0.299215206
#> [223] 1.205172357 2.335540912 0.760505315 0.054024968 0.648299613 1.263353091
#> [229] 1.068032054 0.772972615 0.494536243 1.300754992 0.652455379 0.407265141
#> [235] 4.995231630 0.868555250 1.047253220 0.162074903 0.635832312 0.685701513
#> [241] 0.353240174 2.584886917 0.444667042 1.550100997 0.752193781 0.511159310
#> [247] 2.289827478 0.332461340 0.781284148 3.623828604 0.378174774 1.151147389
#> [253] 0.735570714 2.967217458 0.706480347 0.519470843 0.245190238 0.182853737
#> [259] 0.677389980 0.723103414 0.170386437 0.968293652 0.220255638 0.174542203
#> [265] 0.245190238 0.336617107 1.633216332 0.174542203 0.781284148 0.511159310
#> [271] 1.886718103 0.116361469 1.516854863 0.905957151 1.167770456 4.118364847
#> [277] 0.220255638 0.968293652 2.052948773 0.868555250 0.290903672 1.595814431
#> [283] 0.465445876 0.232722938 2.015546872 0.365707474 0.058180734 0.382330541
#> [289] 0.374019007 1.620749031 0.249346005 0.182853737 0.191165270 4.238882082
#> [295] 3.565647869 1.296599225 2.938127090 0.764661081 1.724643200 0.515315077
#> [301] 0.802062982 1.479452962 0.411420908 0.885178317 0.120517236 1.483608729
#> [307] 1.525166396 1.296599225 0.295059439 0.203632571 0.552716977 0.095582635
#> [313] 0.461290109 0.120517236 0.515315077 0.182853737 0.548561211 1.242574257
#> [319] 0.153763370 0.698168814 0.482068943 0.976605186 1.629060565 1.392181860
#> [325] 1.225951190 0.565184278 0.527782377 1.051408987 0.274280605 1.030630153
#> [331] 0.810374516 1.749577801 0.108049935 0.918424451 0.440511275 4.995231630
#> [337] 2.451902381 1.458674128 4.779131759 1.400493394 1.072187821 0.203632571
#> [343] 0.581807345 1.292443458 0.461290109 0.378174774 0.108049935 1.076343588
#> [349] 0.245190238 0.444667042 1.350624193 0.752193781 1.113745488 0.482068943
#> [355] 1.363091493 1.608281731 3.503311368 0.444667042 0.793751449 2.343852445
#> [361] 0.419732441 2.414500480 0.153763370 0.137140303 0.365707474 0.839464883
#> [367] 0.403109374 0.286747906 0.037401901 0.585963111 1.358935726 0.619209245
#> [373] 3.125136594 0.187009504 1.479452962 3.199940395 0.024934600 1.296599225
#> [379] 0.328305573 1.192705056 1.525166396 1.458674128 1.030630153 0.137140303
#> [385] 1.209328123 0.170386437 0.132984536 0.868555250 2.451902381 0.951670585
#> [391] 1.496076029 0.444667042 1.275820391 0.486224709 1.919964237 0.008311533
#> [397] 1.030630153 2.651379185 0.078959568 0.523626610 0.980760952 0.336617107
#> [403] 3.008775125 0.174542203 0.170386437 2.663846485 0.606741945 1.412960694
#> [409] 0.078959568 0.419732441 0.718947647 0.930891751 0.187009504 0.108049935
#> [415] 0.781284148 1.575035597 0.078959568 0.760505315 0.905957151 0.116361469
#> [421] 0.120517236 0.698168814 0.091426868 3.154226961 0.976605186 0.024934600
#> [427] 0.074803801 0.245190238 2.393721646 0.074803801 2.792675254 0.905957151
#> [433] 0.108049935 1.163614689 3.573959403 0.211944104 0.091426868 0.232722938
#> [439] 0.290903672 4.654458757 0.930891751 1.541789463 0.199476804 0.656611146
#> [445] 1.658150932 0.195321037 0.428043975 0.565184278 0.041557667 0.178697970
#> [451] 0.216099871 0.066492268 0.103894169 0.644143846 0.756349548 1.051408987
#> [457] 0.278436372 0.162074903 0.540249677 2.098662207 1.171926223 0.049869201
#> [463] 0.689857280 0.191165270 1.296599225 0.989072486 4.812377893 3.370326832
#> [469] 0.411420908 0.128828769 0.910112918 0.000000000 0.930891751 0.685701513
#> [475] 0.099738402 0.141296069 0.976605186 1.429583761 0.394797841 0.307526739
#> [481] 0.319994040 0.569340044 0.116361469 0.822841816 0.070648035 0.103894169
#> [487] 0.095582635 1.525166396 0.182853737 0.236878705 0.149607603 0.041557667
#> [493] 0.216099871 0.793751449 0.357395940 0.307526739 0.199476804 1.882562337
#> [499] 0.382330541 0.091426868 0.540249677 0.369863241
#>
#>
#> $template.obj$truncating
#> $template.obj$truncating$LUAD
#> TCGA-05-4244-01 TCGA-05-4249-01 TCGA-05-4250-01 TCGA-05-4382-01
#> ARID1A 0.022116418 0.041468284 0.036860697 0.18983259
#> ATM 0.022116418 0.041468284 0.036860697 0.18983259
#> BRAF 0.004914760 0.009215174 0.008191266 0.04218502
#> CDKN2A 0.008600829 0.016126555 0.014334716 0.07382379
#> CMTR2 0.020887728 0.039164491 0.034812881 0.17928634
#> CTNNB1 0.001228690 0.002303794 0.002047817 0.01054626
#> EGFR 0.036860697 0.069113807 0.061434495 0.31638765
#> KEAP1 0.024573798 0.046075872 0.040956330 0.21092510
#> KRAS 0.001228690 0.002303794 0.002047817 0.01054626
#> MGA 0.030717248 0.057594840 0.051195413 0.26365638
#> NF1 0.038089387 0.071417601 0.063482312 0.32693391
#> PIK3CA 0.001228690 0.002303794 0.002047817 0.01054626
#> PTPRD 0.017201659 0.032253110 0.028669431 0.14764757
#> PTPRT 0.014744279 0.027645523 0.024573798 0.12655506
#> RB1 0.023345108 0.043772078 0.038908514 0.20037885
#> RBM10 0.035632007 0.066810014 0.059386679 0.30584140
#> SETBP1 0.013515589 0.025341729 0.022525982 0.11600881
#> SETD2 0.025802488 0.048379665 0.043004147 0.22147136
#> SMAD4 0.008600829 0.016126555 0.014334716 0.07382379
#> SMARCA4 0.025802488 0.048379665 0.043004147 0.22147136
#> STK11 0.062663185 0.117493473 0.104438642 0.53785901
#> TP53 0.119182921 0.223467977 0.198638202 1.00000000
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-05-4384-01 TCGA-05-4389-01 TCGA-05-4390-01 TCGA-05-4395-01
#> ARID1A 0.015665796 0.0165873138 0.067270773 0.028567040
#> ATM 0.015665796 0.0165873138 0.067270773 0.028567040
#> BRAF 0.003481288 0.0036860697 0.014949061 0.006348231
#> CDKN2A 0.006092254 0.0064506220 0.026160856 0.011109405
#> CMTR2 0.014795474 0.0156657963 0.063533507 0.026979983
#> CTNNB1 0.000870322 0.0009215174 0.003737265 0.001587058
#> EGFR 0.026109661 0.0276455230 0.112117954 0.047611734
#> KEAP1 0.017406440 0.0184303486 0.074745303 0.031741156
#> KRAS 0.000870322 0.0009215174 0.003737265 0.001587058
#> MGA 0.021758050 0.0230379358 0.093431629 0.039676445
#> NF1 0.026979983 0.0285670404 0.115855219 0.049198792
#> PIK3CA 0.000870322 0.0009215174 0.003737265 0.001587058
#> PTPRD 0.012184508 0.0129012440 0.052321712 0.022218809
#> PTPRT 0.010443864 0.0110582092 0.044847182 0.019044694
#> RB1 0.016536118 0.0175088312 0.071008038 0.030154098
#> RBM10 0.025239339 0.0267240055 0.108380689 0.046024676
#> SETBP1 0.009573542 0.0101366918 0.041109917 0.017457636
#> SETD2 0.018276762 0.0193518661 0.078482568 0.033328214
#> SMAD4 0.006092254 0.0064506220 0.026160856 0.011109405
#> SMARCA4 0.018276762 0.0193518661 0.078482568 0.033328214
#> STK11 0.044386423 0.0469973890 0.190600522 0.080939948
#> TP53 0.084421236 0.0893871909 0.362514719 0.153944607
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-05-4396-01 TCGA-05-4397-01 TCGA-05-4403-01 TCGA-05-4405-01
#> ARID1A 0.162187068 0.099523883 0.018430349 0.045154354
#> ATM 0.162187068 0.099523883 0.018430349 0.045154354
#> BRAF 0.036041571 0.022116418 0.004095633 0.010034301
#> CDKN2A 0.063072749 0.038703732 0.007167358 0.017560027
#> CMTR2 0.153176675 0.093994778 0.017406440 0.042645779
#> CTNNB1 0.009010393 0.005529105 0.001023908 0.002508575
#> EGFR 0.270311780 0.165873138 0.030717248 0.075257257
#> KEAP1 0.180207853 0.110582092 0.020478165 0.050171505
#> KRAS 0.009010393 0.005529105 0.001023908 0.002508575
#> MGA 0.225259817 0.138227615 0.025597706 0.062714381
#> NF1 0.279322173 0.171402242 0.031741156 0.077765832
#> PIK3CA 0.009010393 0.005529105 0.001023908 0.002508575
#> PTPRD 0.126145497 0.077407464 0.014334716 0.035120053
#> PTPRT 0.108124712 0.066349255 0.012286899 0.030102903
#> RB1 0.171197461 0.105052987 0.019454257 0.047662929
#> RBM10 0.261301387 0.160344033 0.029693339 0.072748682
#> SETBP1 0.099114319 0.060820151 0.011262991 0.027594328
#> SETD2 0.189218246 0.116111196 0.021502073 0.052680080
#> SMAD4 0.063072749 0.038703732 0.007167358 0.017560027
#> SMARCA4 0.189218246 0.116111196 0.021502073 0.052680080
#> STK11 0.459530026 0.281984334 0.052219321 0.127937337
#> TP53 0.874008089 0.536323145 0.099319101 0.243331797
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-05-4410-01 TCGA-05-4415-01 TCGA-05-4417-01 TCGA-05-4418-01
#> ARID1A 0.117954231 0.020273384 0.040546767 0.023959453
#> ATM 0.117954231 0.020273384 0.040546767 0.023959453
#> BRAF 0.026212051 0.004505196 0.009010393 0.005324323
#> CDKN2A 0.045871090 0.007884094 0.015768187 0.009317565
#> CMTR2 0.111401218 0.019147084 0.038294169 0.022628372
#> CTNNB1 0.006553013 0.001126299 0.002252598 0.001331081
#> EGFR 0.196590386 0.033788973 0.067577945 0.039932422
#> KEAP1 0.131060257 0.022525982 0.045051963 0.026621615
#> KRAS 0.006553013 0.001126299 0.002252598 0.001331081
#> MGA 0.163825321 0.028157477 0.056314954 0.033277018
#> NF1 0.203143398 0.034915272 0.069830543 0.041263503
#> PIK3CA 0.006553013 0.001126299 0.002252598 0.001331081
#> PTPRD 0.091742180 0.015768187 0.031536374 0.018635130
#> PTPRT 0.078636154 0.013515589 0.027031178 0.015972969
#> RB1 0.124507244 0.021399683 0.042799365 0.025290534
#> RBM10 0.190037373 0.032662673 0.065325347 0.038601341
#> SETBP1 0.072083141 0.012389290 0.024778580 0.014641888
#> SETD2 0.137613270 0.023652281 0.047304562 0.027952695
#> SMAD4 0.045871090 0.007884094 0.015768187 0.009317565
#> SMARCA4 0.137613270 0.023652281 0.047304562 0.027952695
#> STK11 0.334203655 0.057441253 0.114882507 0.067885117
#> TP53 0.635642246 0.109251011 0.218502022 0.129114831
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-05-4420-01 TCGA-05-4422-01 TCGA-05-4425-01 TCGA-05-4427-01
#> ARID1A 0.033174628 0.0092151743 0.0055291046 0.115189679
#> ATM 0.033174628 0.0092151743 0.0055291046 0.115189679
#> BRAF 0.007372139 0.0020478165 0.0012286899 0.025597706
#> CDKN2A 0.012901244 0.0035836789 0.0021502073 0.044795986
#> CMTR2 0.031331593 0.0087032202 0.0052219321 0.108790252
#> CTNNB1 0.001843035 0.0005119541 0.0003071725 0.006399427
#> EGFR 0.055291046 0.0153586239 0.0092151743 0.191982798
#> KEAP1 0.036860697 0.0102390826 0.0061434495 0.127988532
#> KRAS 0.001843035 0.0005119541 0.0003071725 0.006399427
#> MGA 0.046075872 0.0127988532 0.0076793119 0.159985665
#> NF1 0.057134081 0.0158705780 0.0095223468 0.198382225
#> PIK3CA 0.001843035 0.0005119541 0.0003071725 0.006399427
#> PTPRD 0.025802488 0.0071673578 0.0043004147 0.089591973
#> PTPRT 0.022116418 0.0061434495 0.0036860697 0.076793119
#> RB1 0.035017662 0.0097271284 0.0058362771 0.121589106
#> RBM10 0.053448011 0.0148466697 0.0089080018 0.185583372
#> SETBP1 0.020273384 0.0056314954 0.0033788973 0.070393693
#> SETD2 0.038703732 0.0107510367 0.0064506220 0.134387959
#> SMAD4 0.012901244 0.0035836789 0.0021502073 0.044795986
#> SMARCA4 0.038703732 0.0107510367 0.0064506220 0.134387959
#> STK11 0.093994778 0.0261096606 0.0156657963 0.326370757
#> TP53 0.178774382 0.0496595505 0.0297957303 0.620744381
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-05-4430-01 TCGA-05-4432-01 TCGA-05-4433-01 TCGA-05-5423-01
#> ARID1A 0.025802488 0.074642912 0.0027645523 0.0165873138
#> ATM 0.025802488 0.074642912 0.0027645523 0.0165873138
#> BRAF 0.005733886 0.016587314 0.0006143450 0.0036860697
#> CDKN2A 0.010034301 0.029027799 0.0010751037 0.0064506220
#> CMTR2 0.024369017 0.070496084 0.0026109661 0.0156657963
#> CTNNB1 0.001433472 0.004146828 0.0001535862 0.0009215174
#> EGFR 0.043004147 0.124404853 0.0046075872 0.0276455230
#> KEAP1 0.028669431 0.082936569 0.0030717248 0.0184303486
#> KRAS 0.001433472 0.004146828 0.0001535862 0.0009215174
#> MGA 0.035836789 0.103670711 0.0038396560 0.0230379358
#> NF1 0.044437618 0.128551682 0.0047611734 0.0285670404
#> PIK3CA 0.001433472 0.004146828 0.0001535862 0.0009215174
#> PTPRD 0.020068602 0.058055598 0.0021502073 0.0129012440
#> PTPRT 0.017201659 0.049761941 0.0018430349 0.0110582092
#> RB1 0.027235960 0.078789740 0.0029181385 0.0175088312
#> RBM10 0.041570675 0.120258025 0.0044540009 0.0267240055
#> SETBP1 0.015768187 0.045615113 0.0016894486 0.0101366918
#> SETD2 0.030102903 0.087083397 0.0032253110 0.0193518661
#> SMAD4 0.010034301 0.029027799 0.0010751037 0.0064506220
#> SMARCA4 0.030102903 0.087083397 0.0032253110 0.0193518661
#> STK11 0.073107050 0.211488251 0.0078328982 0.0469973890
#> TP53 0.139046741 0.402242359 0.0148978652 0.0893871909
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-05-5425-01 TCGA-05-5428-01 TCGA-05-5429-01 TCGA-35-3615-01
#> ARID1A 0.073721395 0.046075872 0.0073721395 0.0129012440
#> ATM 0.073721395 0.046075872 0.0073721395 0.0129012440
#> BRAF 0.016382532 0.010239083 0.0016382532 0.0028669431
#> CDKN2A 0.028669431 0.017918395 0.0028669431 0.0050171505
#> CMTR2 0.069625762 0.043516101 0.0069625762 0.0121845083
#> CTNNB1 0.004095633 0.002559771 0.0004095633 0.0007167358
#> EGFR 0.122868991 0.076793119 0.0122868991 0.0215020734
#> KEAP1 0.081912661 0.051195413 0.0081912661 0.0143347156
#> KRAS 0.004095633 0.002559771 0.0004095633 0.0007167358
#> MGA 0.102390826 0.063994266 0.0102390826 0.0179183945
#> NF1 0.126964624 0.079352890 0.0126964624 0.0222188092
#> PIK3CA 0.004095633 0.002559771 0.0004095633 0.0007167358
#> PTPRD 0.057338862 0.035836789 0.0057338862 0.0100343009
#> PTPRT 0.049147596 0.030717248 0.0049147596 0.0086008294
#> RB1 0.077817028 0.048635642 0.0077817028 0.0136179798
#> RBM10 0.118773358 0.074233349 0.0118773358 0.0207853376
#> SETBP1 0.045051963 0.028157477 0.0045051963 0.0078840936
#> SETD2 0.086008294 0.053755184 0.0086008294 0.0150514514
#> SMAD4 0.028669431 0.017918395 0.0028669431 0.0050171505
#> SMARCA4 0.086008294 0.053755184 0.0086008294 0.0150514514
#> STK11 0.208877285 0.130548303 0.0208877285 0.0365535248
#> TP53 0.397276404 0.248297753 0.0397276404 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-35-4122-01 TCGA-35-4123-01 TCGA-35-5375-01 TCGA-38-4625-01
#> ARID1A 0.032253110 0.030410075 0.051604976 0.070035325
#> ATM 0.032253110 0.030410075 0.051604976 0.070035325
#> BRAF 0.007167358 0.006757795 0.011467772 0.015563406
#> CDKN2A 0.012542876 0.011826140 0.020068602 0.027235960
#> CMTR2 0.030461271 0.028720627 0.048738033 0.066144473
#> CTNNB1 0.001791839 0.001689449 0.002866943 0.003890851
#> EGFR 0.053755184 0.050683459 0.086008294 0.116725541
#> KEAP1 0.035836789 0.033788973 0.057338862 0.077817028
#> KRAS 0.001791839 0.001689449 0.002866943 0.003890851
#> MGA 0.044795986 0.042236216 0.071673578 0.097271284
#> NF1 0.055547023 0.052372907 0.088875237 0.120616393
#> PIK3CA 0.001791839 0.001689449 0.002866943 0.003890851
#> PTPRD 0.025085752 0.023652281 0.040137204 0.054471919
#> PTPRT 0.021502073 0.020273384 0.034403317 0.046690217
#> RB1 0.034044950 0.032099524 0.054471919 0.073926176
#> RBM10 0.051963344 0.048994010 0.083141351 0.112834690
#> SETBP1 0.019710234 0.018583935 0.031536374 0.042799365
#> SETD2 0.037628628 0.035478421 0.060205806 0.081707879
#> SMAD4 0.012542876 0.011826140 0.020068602 0.027235960
#> SMARCA4 0.037628628 0.035478421 0.060205806 0.081707879
#> STK11 0.091383812 0.086161880 0.146214099 0.198433420
#> TP53 0.173808427 0.163876517 0.278093483 0.377412584
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-38-4627-01 TCGA-38-4631-01 TCGA-38-4632-01 TCGA-38-6178-01
#> ARID1A 0.0046075872 0.105974505 0.068192290 0.0119797266
#> ATM 0.0046075872 0.105974505 0.068192290 0.0119797266
#> BRAF 0.0010239083 0.023549890 0.015153842 0.0026621615
#> CDKN2A 0.0017918395 0.041212307 0.026519224 0.0046587826
#> CMTR2 0.0043516101 0.100087032 0.064403829 0.0113141862
#> CTNNB1 0.0002559771 0.005887472 0.003788461 0.0006655404
#> EGFR 0.0076793119 0.176624174 0.113653817 0.0199662110
#> KEAP1 0.0051195413 0.117749450 0.075769211 0.0133108074
#> KRAS 0.0002559771 0.005887472 0.003788461 0.0006655404
#> MGA 0.0063994266 0.147186812 0.094711514 0.0166385092
#> NF1 0.0079352890 0.182511647 0.117442277 0.0206317514
#> PIK3CA 0.0002559771 0.005887472 0.003788461 0.0006655404
#> PTPRD 0.0035836789 0.082424615 0.053038448 0.0093175651
#> PTPRT 0.0030717248 0.070649670 0.045461527 0.0079864844
#> RB1 0.0048635642 0.111861977 0.071980751 0.0126452670
#> RBM10 0.0074233349 0.170736702 0.109865356 0.0193006707
#> SETBP1 0.0028157477 0.064762197 0.041673066 0.0073209440
#> SETD2 0.0053755184 0.123636922 0.079557672 0.0139763477
#> SMAD4 0.0017918395 0.041212307 0.026519224 0.0046587826
#> SMARCA4 0.0053755184 0.123636922 0.079557672 0.0139763477
#> STK11 0.0130548303 0.300261097 0.193211488 0.0339425587
#> TP53 0.0248297753 0.571084831 0.367480674 0.0645574157
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-2656-01 TCGA-44-2657-01 TCGA-44-2662-01 TCGA-44-2665-01
#> ARID1A 0.109660574 0.036860697 0.020273384 0.0036860697
#> ATM 0.109660574 0.036860697 0.020273384 0.0036860697
#> BRAF 0.024369017 0.008191266 0.004505196 0.0008191266
#> CDKN2A 0.042645779 0.014334716 0.007884094 0.0014334716
#> CMTR2 0.103568320 0.034812881 0.019147084 0.0034812881
#> CTNNB1 0.006092254 0.002047817 0.001126299 0.0002047817
#> EGFR 0.182767624 0.061434495 0.033788973 0.0061434495
#> KEAP1 0.121845083 0.040956330 0.022525982 0.0040956330
#> KRAS 0.006092254 0.002047817 0.001126299 0.0002047817
#> MGA 0.152306353 0.051195413 0.028157477 0.0051195413
#> NF1 0.188859878 0.063482312 0.034915272 0.0063482312
#> PIK3CA 0.006092254 0.002047817 0.001126299 0.0002047817
#> PTPRD 0.085291558 0.028669431 0.015768187 0.0028669431
#> PTPRT 0.073107050 0.024573798 0.013515589 0.0024573798
#> RB1 0.115752829 0.038908514 0.021399683 0.0038908514
#> RBM10 0.176675370 0.059386679 0.032662673 0.0059386679
#> SETBP1 0.067014795 0.022525982 0.012389290 0.0022525982
#> SETD2 0.127937337 0.043004147 0.023652281 0.0043004147
#> SMAD4 0.042645779 0.014334716 0.007884094 0.0014334716
#> SMARCA4 0.127937337 0.043004147 0.023652281 0.0043004147
#> STK11 0.310704961 0.104438642 0.057441253 0.0104438642
#> TP53 0.590948651 0.198638202 0.109251011 0.0198638202
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-2666-01 TCGA-44-2668-01 TCGA-44-3396-01 TCGA-44-5643-01
#> ARID1A 9.215174e-04 0.052526494 0.022116418 0.018430349
#> ATM 9.215174e-04 0.052526494 0.022116418 0.018430349
#> BRAF 2.047817e-04 0.011672554 0.004914760 0.004095633
#> CDKN2A 3.583679e-04 0.020426970 0.008600829 0.007167358
#> CMTR2 8.703220e-04 0.049608355 0.020887728 0.017406440
#> CTNNB1 5.119541e-05 0.002918139 0.001228690 0.001023908
#> EGFR 1.535862e-03 0.087544156 0.036860697 0.030717248
#> KEAP1 1.023908e-03 0.058362771 0.024573798 0.020478165
#> KRAS 5.119541e-05 0.002918139 0.001228690 0.001023908
#> MGA 1.279885e-03 0.072953463 0.030717248 0.025597706
#> NF1 1.587058e-03 0.090462295 0.038089387 0.031741156
#> PIK3CA 5.119541e-05 0.002918139 0.001228690 0.001023908
#> PTPRD 7.167358e-04 0.040853939 0.017201659 0.014334716
#> PTPRT 6.143450e-04 0.035017662 0.014744279 0.012286899
#> RB1 9.727128e-04 0.055444632 0.023345108 0.019454257
#> RBM10 1.484667e-03 0.084626018 0.035632007 0.029693339
#> SETBP1 5.631495e-04 0.032099524 0.013515589 0.011262991
#> SETD2 1.075104e-03 0.061280909 0.025802488 0.021502073
#> SMAD4 3.583679e-04 0.020426970 0.008600829 0.007167358
#> SMARCA4 1.075104e-03 0.061280909 0.025802488 0.021502073
#> STK11 2.610966e-03 0.148825065 0.062663185 0.052219321
#> TP53 4.965955e-03 0.283059438 0.119182921 0.099319101
#> U2AF1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> TCGA-44-5645-01 TCGA-44-6145-01 TCGA-44-6146-01 TCGA-44-6774-01
#> ARID1A 0.0082936569 0.037782215 0.0073721395 0.040546767
#> ATM 0.0082936569 0.037782215 0.0073721395 0.040546767
#> BRAF 0.0018430349 0.008396048 0.0016382532 0.009010393
#> CDKN2A 0.0032253110 0.014693083 0.0028669431 0.015768187
#> CMTR2 0.0078328982 0.035683203 0.0069625762 0.038294169
#> CTNNB1 0.0004607587 0.002099012 0.0004095633 0.002252598
#> EGFR 0.0138227615 0.062970358 0.0122868991 0.067577945
#> KEAP1 0.0092151743 0.041980239 0.0081912661 0.045051963
#> KRAS 0.0004607587 0.002099012 0.0004095633 0.002252598
#> MGA 0.0115189679 0.052475298 0.0102390826 0.056314954
#> NF1 0.0142835202 0.065069370 0.0126964624 0.069830543
#> PIK3CA 0.0004607587 0.002099012 0.0004095633 0.002252598
#> PTPRD 0.0064506220 0.029386167 0.0057338862 0.031536374
#> PTPRT 0.0055291046 0.025188143 0.0049147596 0.027031178
#> RB1 0.0087544156 0.039881227 0.0077817028 0.042799365
#> RBM10 0.0133620028 0.060871346 0.0118773358 0.065325347
#> SETBP1 0.0050683459 0.023089131 0.0045051963 0.024778580
#> SETD2 0.0096759330 0.044079250 0.0086008294 0.047304562
#> SMAD4 0.0032253110 0.014693083 0.0028669431 0.015768187
#> SMARCA4 0.0096759330 0.044079250 0.0086008294 0.047304562
#> STK11 0.0234986945 0.107049608 0.0208877285 0.114882507
#> TP53 0.0446935955 0.203604157 0.0397276404 0.218502022
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-44-6775-01 TCGA-44-6776-01 TCGA-44-6777-01 TCGA-44-7659-01
#> ARID1A 0.0101366918 0.022116418 0.043311319 0.0175088312
#> ATM 0.0101366918 0.022116418 0.043311319 0.0175088312
#> BRAF 0.0022525982 0.004914760 0.009624738 0.0038908514
#> CDKN2A 0.0039420468 0.008600829 0.016843291 0.0068089899
#> CMTR2 0.0095735422 0.020887728 0.040905135 0.0165361184
#> CTNNB1 0.0005631495 0.001228690 0.002406184 0.0009727128
#> EGFR 0.0168944863 0.036860697 0.072185532 0.0291813853
#> KEAP1 0.0112629908 0.024573798 0.048123688 0.0194542569
#> KRAS 0.0005631495 0.001228690 0.002406184 0.0009727128
#> MGA 0.0140787385 0.030717248 0.060154610 0.0243178211
#> NF1 0.0174576358 0.038089387 0.074591717 0.0301540982
#> PIK3CA 0.0005631495 0.001228690 0.002406184 0.0009727128
#> PTPRD 0.0078840936 0.017201659 0.033686582 0.0136179798
#> PTPRT 0.0067577945 0.014744279 0.028874213 0.0116725541
#> RB1 0.0106998413 0.023345108 0.045717504 0.0184815441
#> RBM10 0.0163313367 0.035632007 0.069779348 0.0282086725
#> SETBP1 0.0061946450 0.013515589 0.026468028 0.0106998413
#> SETD2 0.0118261404 0.025802488 0.050529873 0.0204269697
#> SMAD4 0.0039420468 0.008600829 0.016843291 0.0068089899
#> SMARCA4 0.0118261404 0.025802488 0.050529873 0.0204269697
#> STK11 0.0287206266 0.062663185 0.122715405 0.0496083551
#> TP53 0.0546255056 0.119182921 0.233399887 0.0943531460
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-7661-01 TCGA-44-7662-01 TCGA-44-7670-01 TCGA-44-7671-01
#> ARID1A 0.032253110 0.05621256 0.13454155 0.029488558
#> ATM 0.032253110 0.05621256 0.13454155 0.029488558
#> BRAF 0.007167358 0.01249168 0.02989812 0.006553013
#> CDKN2A 0.012542876 0.02186044 0.05232171 0.011467772
#> CMTR2 0.030461271 0.05308964 0.12706701 0.027850305
#> CTNNB1 0.001791839 0.00312292 0.00747453 0.001638253
#> EGFR 0.053755184 0.09368761 0.22423591 0.049147596
#> KEAP1 0.035836789 0.06245840 0.14949061 0.032765064
#> KRAS 0.001791839 0.00312292 0.00747453 0.001638253
#> MGA 0.044795986 0.07807300 0.18686326 0.040956330
#> NF1 0.055547023 0.09681053 0.23171044 0.050785850
#> PIK3CA 0.001791839 0.00312292 0.00747453 0.001638253
#> PTPRD 0.025085752 0.04372088 0.10464342 0.022935545
#> PTPRT 0.021502073 0.03747504 0.08969436 0.019659039
#> RB1 0.034044950 0.05933548 0.14201608 0.031126811
#> RBM10 0.051963344 0.09056469 0.21676138 0.047509343
#> SETBP1 0.019710234 0.03435212 0.08221983 0.018020785
#> SETD2 0.037628628 0.06558132 0.15696514 0.034403317
#> SMAD4 0.012542876 0.02186044 0.05232171 0.011467772
#> SMARCA4 0.037628628 0.06558132 0.15696514 0.034403317
#> STK11 0.091383812 0.15926893 0.38120104 0.083550914
#> TP53 0.173808427 0.30292326 0.72502944 0.158910562
#> U2AF1 0.000000000 0.00000000 0.00000000 0.000000000
#> TCGA-44-7672-01 TCGA-44-8117-01 TCGA-44-8119-01 TCGA-44-8120-01
#> ARID1A 0.021194901 0.08846567 0.059898633 0.077407464
#> ATM 0.021194901 0.08846567 0.059898633 0.077407464
#> BRAF 0.004709978 0.01965904 0.013310807 0.017201659
#> CDKN2A 0.008242461 0.03440332 0.023293913 0.030102903
#> CMTR2 0.020017406 0.08355091 0.056570931 0.073107050
#> CTNNB1 0.001177494 0.00491476 0.003327702 0.004300415
#> EGFR 0.035324835 0.14744279 0.099831055 0.129012440
#> KEAP1 0.023549890 0.09829519 0.066554037 0.086008294
#> KRAS 0.001177494 0.00491476 0.003327702 0.004300415
#> MGA 0.029437362 0.12286899 0.083192546 0.107510367
#> NF1 0.036502329 0.15235755 0.103158757 0.133312855
#> PIK3CA 0.001177494 0.00491476 0.003327702 0.004300415
#> PTPRD 0.016484923 0.06880663 0.046587826 0.060205806
#> PTPRT 0.014129934 0.05897712 0.039932422 0.051604976
#> RB1 0.022372395 0.09338043 0.063226335 0.081707879
#> RBM10 0.034147340 0.14252803 0.096503353 0.124712026
#> SETBP1 0.012952439 0.05406236 0.036604720 0.047304562
#> SETD2 0.024727384 0.10320995 0.069881739 0.090308708
#> SMAD4 0.008242461 0.03440332 0.023293913 0.030102903
#> SMARCA4 0.024727384 0.10320995 0.069881739 0.090308708
#> STK11 0.060052219 0.25065274 0.169712794 0.219321149
#> TP53 0.114216966 0.47673168 0.322787078 0.417140224
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-44-A47A-01 TCGA-44-A47G-01 TCGA-44-A4SS-01 TCGA-44-A4SU-01
#> ARID1A 0.028567040 0.011058209 0.052526494 0.0119797266
#> ATM 0.028567040 0.011058209 0.052526494 0.0119797266
#> BRAF 0.006348231 0.002457380 0.011672554 0.0026621615
#> CDKN2A 0.011109405 0.004300415 0.020426970 0.0046587826
#> CMTR2 0.026979983 0.010443864 0.049608355 0.0113141862
#> CTNNB1 0.001587058 0.000614345 0.002918139 0.0006655404
#> EGFR 0.047611734 0.018430349 0.087544156 0.0199662110
#> KEAP1 0.031741156 0.012286899 0.058362771 0.0133108074
#> KRAS 0.001587058 0.000614345 0.002918139 0.0006655404
#> MGA 0.039676445 0.015358624 0.072953463 0.0166385092
#> NF1 0.049198792 0.019044694 0.090462295 0.0206317514
#> PIK3CA 0.001587058 0.000614345 0.002918139 0.0006655404
#> PTPRD 0.022218809 0.008600829 0.040853939 0.0093175651
#> PTPRT 0.019044694 0.007372139 0.035017662 0.0079864844
#> RB1 0.030154098 0.011672554 0.055444632 0.0126452670
#> RBM10 0.046024676 0.017816004 0.084626018 0.0193006707
#> SETBP1 0.017457636 0.006757795 0.032099524 0.0073209440
#> SETD2 0.033328214 0.012901244 0.061280909 0.0139763477
#> SMAD4 0.011109405 0.004300415 0.020426970 0.0046587826
#> SMARCA4 0.033328214 0.012901244 0.061280909 0.0139763477
#> STK11 0.080939948 0.031331593 0.148825065 0.0339425587
#> TP53 0.153944607 0.059591461 0.283059438 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4486-01 TCGA-49-4488-01 TCGA-49-4490-01 TCGA-49-4494-01
#> ARID1A 0.0147442789 0.038703732 0.0018430349 0.019351866
#> ATM 0.0147442789 0.038703732 0.0018430349 0.019351866
#> BRAF 0.0032765064 0.008600829 0.0004095633 0.004300415
#> CDKN2A 0.0057338862 0.015051451 0.0007167358 0.007525726
#> CMTR2 0.0139251523 0.036553525 0.0017406440 0.018276762
#> CTNNB1 0.0008191266 0.002150207 0.0001023908 0.001075104
#> EGFR 0.0245737982 0.064506220 0.0030717248 0.032253110
#> KEAP1 0.0163825321 0.043004147 0.0020478165 0.021502073
#> KRAS 0.0008191266 0.002150207 0.0001023908 0.001075104
#> MGA 0.0204781652 0.053755184 0.0025597706 0.026877592
#> NF1 0.0253929248 0.066656428 0.0031741156 0.033328214
#> PIK3CA 0.0008191266 0.002150207 0.0001023908 0.001075104
#> PTPRD 0.0114677725 0.030102903 0.0014334716 0.015051451
#> PTPRT 0.0098295193 0.025802488 0.0012286899 0.012901244
#> RB1 0.0155634055 0.040853939 0.0019454257 0.020426970
#> RBM10 0.0237546716 0.062356013 0.0029693339 0.031178006
#> SETBP1 0.0090103927 0.023652281 0.0011262991 0.011826140
#> SETD2 0.0172016587 0.045154354 0.0021502073 0.022577177
#> SMAD4 0.0057338862 0.015051451 0.0007167358 0.007525726
#> SMARCA4 0.0172016587 0.045154354 0.0021502073 0.022577177
#> STK11 0.0417754569 0.109660574 0.0052219321 0.054830287
#> TP53 0.0794552808 0.208570112 0.0099319101 0.104285056
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-49-4505-01 TCGA-49-4506-01 TCGA-49-4507-01 TCGA-49-4510-01
#> ARID1A 0.020273384 0.021194901 0.018430349 0.0082936569
#> ATM 0.020273384 0.021194901 0.018430349 0.0082936569
#> BRAF 0.004505196 0.004709978 0.004095633 0.0018430349
#> CDKN2A 0.007884094 0.008242461 0.007167358 0.0032253110
#> CMTR2 0.019147084 0.020017406 0.017406440 0.0078328982
#> CTNNB1 0.001126299 0.001177494 0.001023908 0.0004607587
#> EGFR 0.033788973 0.035324835 0.030717248 0.0138227615
#> KEAP1 0.022525982 0.023549890 0.020478165 0.0092151743
#> KRAS 0.001126299 0.001177494 0.001023908 0.0004607587
#> MGA 0.028157477 0.029437362 0.025597706 0.0115189679
#> NF1 0.034915272 0.036502329 0.031741156 0.0142835202
#> PIK3CA 0.001126299 0.001177494 0.001023908 0.0004607587
#> PTPRD 0.015768187 0.016484923 0.014334716 0.0064506220
#> PTPRT 0.013515589 0.014129934 0.012286899 0.0055291046
#> RB1 0.021399683 0.022372395 0.019454257 0.0087544156
#> RBM10 0.032662673 0.034147340 0.029693339 0.0133620028
#> SETBP1 0.012389290 0.012952439 0.011262991 0.0050683459
#> SETD2 0.023652281 0.024727384 0.021502073 0.0096759330
#> SMAD4 0.007884094 0.008242461 0.007167358 0.0032253110
#> SMARCA4 0.023652281 0.024727384 0.021502073 0.0096759330
#> STK11 0.057441253 0.060052219 0.052219321 0.0234986945
#> TP53 0.109251011 0.114216966 0.099319101 0.0446935955
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4514-01 TCGA-49-6744-01 TCGA-49-6745-01 TCGA-49-AAQV-01
#> ARID1A 0.037782215 0.031331593 0.0165873138 0.0046075872
#> ATM 0.037782215 0.031331593 0.0165873138 0.0046075872
#> BRAF 0.008396048 0.006962576 0.0036860697 0.0010239083
#> CDKN2A 0.014693083 0.012184508 0.0064506220 0.0017918395
#> CMTR2 0.035683203 0.029590949 0.0156657963 0.0043516101
#> CTNNB1 0.002099012 0.001740644 0.0009215174 0.0002559771
#> EGFR 0.062970358 0.052219321 0.0276455230 0.0076793119
#> KEAP1 0.041980239 0.034812881 0.0184303486 0.0051195413
#> KRAS 0.002099012 0.001740644 0.0009215174 0.0002559771
#> MGA 0.052475298 0.043516101 0.0230379358 0.0063994266
#> NF1 0.065069370 0.053959965 0.0285670404 0.0079352890
#> PIK3CA 0.002099012 0.001740644 0.0009215174 0.0002559771
#> PTPRD 0.029386167 0.024369017 0.0129012440 0.0035836789
#> PTPRT 0.025188143 0.020887728 0.0110582092 0.0030717248
#> RB1 0.039881227 0.033072237 0.0175088312 0.0048635642
#> RBM10 0.060871346 0.050478677 0.0267240055 0.0074233349
#> SETBP1 0.023089131 0.019147084 0.0101366918 0.0028157477
#> SETD2 0.044079250 0.036553525 0.0193518661 0.0053755184
#> SMAD4 0.014693083 0.012184508 0.0064506220 0.0017918395
#> SMARCA4 0.044079250 0.036553525 0.0193518661 0.0053755184
#> STK11 0.107049608 0.088772846 0.0469973890 0.0130548303
#> TP53 0.203604157 0.168842472 0.0893871909 0.0248297753
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-49-AAR9-01 TCGA-49-AARE-01 TCGA-49-AARN-01 TCGA-49-AARO-01
#> ARID1A 0.063584703 0.136384580 0.064506220 0.06634926
#> ATM 0.063584703 0.136384580 0.064506220 0.06634926
#> BRAF 0.014129934 0.030307684 0.014334716 0.01474428
#> CDKN2A 0.024727384 0.053038448 0.025085752 0.02580249
#> CMTR2 0.060052219 0.128807659 0.060922541 0.06266319
#> CTNNB1 0.003532483 0.007576921 0.003583679 0.00368607
#> EGFR 0.105974505 0.227307633 0.107510367 0.11058209
#> KEAP1 0.070649670 0.151538422 0.071673578 0.07372139
#> KRAS 0.003532483 0.007576921 0.003583679 0.00368607
#> MGA 0.088312087 0.189423028 0.089591973 0.09215174
#> NF1 0.109506988 0.234884554 0.111094046 0.11426816
#> PIK3CA 0.003532483 0.007576921 0.003583679 0.00368607
#> PTPRD 0.049454769 0.106076896 0.050171505 0.05160498
#> PTPRT 0.042389802 0.090923053 0.043004147 0.04423284
#> RB1 0.067117186 0.143961501 0.068089899 0.07003532
#> RBM10 0.102442021 0.219730712 0.103926688 0.10689602
#> SETBP1 0.038857318 0.083346132 0.039420468 0.04054677
#> SETD2 0.074182153 0.159115343 0.075257257 0.07740746
#> SMAD4 0.024727384 0.053038448 0.025085752 0.02580249
#> SMARCA4 0.074182153 0.159115343 0.075257257 0.07740746
#> STK11 0.180156658 0.386422977 0.182767624 0.18798956
#> TP53 0.342650898 0.734961347 0.347616854 0.35754876
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-49-AARQ-01 TCGA-4B-A93V-01 TCGA-50-5044-01 TCGA-50-5051-01
#> ARID1A 0.077407464 0.011058209 0.0101366918 0.0119797266
#> ATM 0.077407464 0.011058209 0.0101366918 0.0119797266
#> BRAF 0.017201659 0.002457380 0.0022525982 0.0026621615
#> CDKN2A 0.030102903 0.004300415 0.0039420468 0.0046587826
#> CMTR2 0.073107050 0.010443864 0.0095735422 0.0113141862
#> CTNNB1 0.004300415 0.000614345 0.0005631495 0.0006655404
#> EGFR 0.129012440 0.018430349 0.0168944863 0.0199662110
#> KEAP1 0.086008294 0.012286899 0.0112629908 0.0133108074
#> KRAS 0.004300415 0.000614345 0.0005631495 0.0006655404
#> MGA 0.107510367 0.015358624 0.0140787385 0.0166385092
#> NF1 0.133312855 0.019044694 0.0174576358 0.0206317514
#> PIK3CA 0.004300415 0.000614345 0.0005631495 0.0006655404
#> PTPRD 0.060205806 0.008600829 0.0078840936 0.0093175651
#> PTPRT 0.051604976 0.007372139 0.0067577945 0.0079864844
#> RB1 0.081707879 0.011672554 0.0106998413 0.0126452670
#> RBM10 0.124712026 0.017816004 0.0163313367 0.0193006707
#> SETBP1 0.047304562 0.006757795 0.0061946450 0.0073209440
#> SETD2 0.090308708 0.012901244 0.0118261404 0.0139763477
#> SMAD4 0.030102903 0.004300415 0.0039420468 0.0046587826
#> SMARCA4 0.090308708 0.012901244 0.0118261404 0.0139763477
#> STK11 0.219321149 0.031331593 0.0287206266 0.0339425587
#> TP53 0.417140224 0.059591461 0.0546255056 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-50-5066-01 TCGA-50-5068-01 TCGA-50-5930-01 TCGA-50-5932-01
#> ARID1A 0.026724006 0.0082936569 0.130855475 0.011058209
#> ATM 0.026724006 0.0082936569 0.130855475 0.011058209
#> BRAF 0.005938668 0.0018430349 0.029078995 0.002457380
#> CDKN2A 0.010392669 0.0032253110 0.050888240 0.004300415
#> CMTR2 0.025239339 0.0078328982 0.123585727 0.010443864
#> CTNNB1 0.001484667 0.0004607587 0.007269749 0.000614345
#> EGFR 0.044540009 0.0138227615 0.218092459 0.018430349
#> KEAP1 0.029693339 0.0092151743 0.145394973 0.012286899
#> KRAS 0.001484667 0.0004607587 0.007269749 0.000614345
#> MGA 0.037116674 0.0115189679 0.181743716 0.015358624
#> NF1 0.046024676 0.0142835202 0.225362208 0.019044694
#> PIK3CA 0.001484667 0.0004607587 0.007269749 0.000614345
#> PTPRD 0.020785338 0.0064506220 0.101776481 0.008600829
#> PTPRT 0.017816004 0.0055291046 0.087236984 0.007372139
#> RB1 0.028208673 0.0087544156 0.138125224 0.011672554
#> RBM10 0.043055342 0.0133620028 0.210822710 0.017816004
#> SETBP1 0.016331337 0.0050683459 0.079967235 0.006757795
#> SETD2 0.031178006 0.0096759330 0.152664721 0.012901244
#> SMAD4 0.010392669 0.0032253110 0.050888240 0.004300415
#> SMARCA4 0.031178006 0.0096759330 0.152664721 0.012901244
#> STK11 0.075718016 0.0234986945 0.370757180 0.031331593
#> TP53 0.144012696 0.0446935955 0.705165617 0.059591461
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-50-5933-01 TCGA-50-5936-01 TCGA-50-5939-01 TCGA-50-5941-01
#> ARID1A 0.050683459 0.0101366918 0.0101366918 0.045154354
#> ATM 0.050683459 0.0101366918 0.0101366918 0.045154354
#> BRAF 0.011262991 0.0022525982 0.0022525982 0.010034301
#> CDKN2A 0.019710234 0.0039420468 0.0039420468 0.017560027
#> CMTR2 0.047867711 0.0095735422 0.0095735422 0.042645779
#> CTNNB1 0.002815748 0.0005631495 0.0005631495 0.002508575
#> EGFR 0.084472431 0.0168944863 0.0168944863 0.075257257
#> KEAP1 0.056314954 0.0112629908 0.0112629908 0.050171505
#> KRAS 0.002815748 0.0005631495 0.0005631495 0.002508575
#> MGA 0.070393693 0.0140787385 0.0140787385 0.062714381
#> NF1 0.087288179 0.0174576358 0.0174576358 0.077765832
#> PIK3CA 0.002815748 0.0005631495 0.0005631495 0.002508575
#> PTPRD 0.039420468 0.0078840936 0.0078840936 0.035120053
#> PTPRT 0.033788973 0.0067577945 0.0067577945 0.030102903
#> RB1 0.053499206 0.0106998413 0.0106998413 0.047662929
#> RBM10 0.081656684 0.0163313367 0.0163313367 0.072748682
#> SETBP1 0.030973225 0.0061946450 0.0061946450 0.027594328
#> SETD2 0.059130702 0.0118261404 0.0118261404 0.052680080
#> SMAD4 0.019710234 0.0039420468 0.0039420468 0.017560027
#> SMARCA4 0.059130702 0.0118261404 0.0118261404 0.052680080
#> STK11 0.143603133 0.0287206266 0.0287206266 0.127937337
#> TP53 0.273127528 0.0546255056 0.0546255056 0.243331797
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-50-5942-01 TCGA-50-5944-01 TCGA-50-5946-01 TCGA-50-6591-01
#> ARID1A 0.0092151743 0.0055291046 0.075564429 0.0082936569
#> ATM 0.0092151743 0.0055291046 0.075564429 0.0082936569
#> BRAF 0.0020478165 0.0012286899 0.016792095 0.0018430349
#> CDKN2A 0.0035836789 0.0021502073 0.029386167 0.0032253110
#> CMTR2 0.0087032202 0.0052219321 0.071366406 0.0078328982
#> CTNNB1 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> EGFR 0.0153586239 0.0092151743 0.125940716 0.0138227615
#> KEAP1 0.0102390826 0.0061434495 0.083960477 0.0092151743
#> KRAS 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> MGA 0.0127988532 0.0076793119 0.104950596 0.0115189679
#> NF1 0.0158705780 0.0095223468 0.130138740 0.0142835202
#> PIK3CA 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> PTPRD 0.0071673578 0.0043004147 0.058772334 0.0064506220
#> PTPRT 0.0061434495 0.0036860697 0.050376286 0.0055291046
#> RB1 0.0097271284 0.0058362771 0.079762453 0.0087544156
#> RBM10 0.0148466697 0.0089080018 0.121742692 0.0133620028
#> SETBP1 0.0056314954 0.0033788973 0.046178262 0.0050683459
#> SETD2 0.0107510367 0.0064506220 0.088158501 0.0096759330
#> SMAD4 0.0035836789 0.0021502073 0.029386167 0.0032253110
#> SMARCA4 0.0107510367 0.0064506220 0.088158501 0.0096759330
#> STK11 0.0261096606 0.0156657963 0.214099217 0.0234986945
#> TP53 0.0496595505 0.0297957303 0.407208314 0.0446935955
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-50-6592-01 TCGA-50-6593-01 TCGA-50-6594-01 TCGA-50-6595-01
#> ARID1A 0.035017662 0.034096145 0.081093534 0.0092151743
#> ATM 0.035017662 0.034096145 0.081093534 0.0092151743
#> BRAF 0.007781703 0.007576921 0.018020785 0.0020478165
#> CDKN2A 0.013617980 0.013259612 0.031536374 0.0035836789
#> CMTR2 0.033072237 0.032201915 0.076588338 0.0087032202
#> CTNNB1 0.001945426 0.001894230 0.004505196 0.0005119541
#> EGFR 0.058362771 0.056826908 0.135155890 0.0153586239
#> KEAP1 0.038908514 0.037884606 0.090103927 0.0102390826
#> KRAS 0.001945426 0.001894230 0.004505196 0.0005119541
#> MGA 0.048635642 0.047355757 0.112629908 0.0127988532
#> NF1 0.060308196 0.058721139 0.139661086 0.0158705780
#> PIK3CA 0.001945426 0.001894230 0.004505196 0.0005119541
#> PTPRD 0.027235960 0.026519224 0.063072749 0.0071673578
#> PTPRT 0.023345108 0.022730763 0.054062356 0.0061434495
#> RB1 0.036963088 0.035990375 0.085598730 0.0097271284
#> RBM10 0.056417345 0.054932678 0.130650694 0.0148466697
#> SETBP1 0.021399683 0.020836533 0.049557160 0.0056314954
#> SETD2 0.040853939 0.039778836 0.094609123 0.0107510367
#> SMAD4 0.013617980 0.013259612 0.031536374 0.0035836789
#> SMARCA4 0.040853939 0.039778836 0.094609123 0.0107510367
#> STK11 0.099216710 0.096605744 0.229765013 0.0261096606
#> TP53 0.188706292 0.183740337 0.437004044 0.0496595505
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-50-6673-01 TCGA-50-7109-01 TCGA-50-8459-01 TCGA-50-8460-01
#> ARID1A 0.0138227615 0.027645523 0.0101366918 0.0036860697
#> ATM 0.0138227615 0.027645523 0.0101366918 0.0036860697
#> BRAF 0.0030717248 0.006143450 0.0022525982 0.0008191266
#> CDKN2A 0.0053755184 0.010751037 0.0039420468 0.0014334716
#> CMTR2 0.0130548303 0.026109661 0.0095735422 0.0034812881
#> CTNNB1 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> EGFR 0.0230379358 0.046075872 0.0168944863 0.0061434495
#> KEAP1 0.0153586239 0.030717248 0.0112629908 0.0040956330
#> KRAS 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> MGA 0.0191982798 0.038396560 0.0140787385 0.0051195413
#> NF1 0.0238058670 0.047611734 0.0174576358 0.0063482312
#> PIK3CA 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> PTPRD 0.0107510367 0.021502073 0.0078840936 0.0028669431
#> PTPRT 0.0092151743 0.018430349 0.0067577945 0.0024573798
#> RB1 0.0145906927 0.029181385 0.0106998413 0.0038908514
#> RBM10 0.0222700046 0.044540009 0.0163313367 0.0059386679
#> SETBP1 0.0084472431 0.016894486 0.0061946450 0.0022525982
#> SETD2 0.0161265551 0.032253110 0.0118261404 0.0043004147
#> SMAD4 0.0053755184 0.010751037 0.0039420468 0.0014334716
#> SMARCA4 0.0161265551 0.032253110 0.0118261404 0.0043004147
#> STK11 0.0391644909 0.078328982 0.0287206266 0.0104438642
#> TP53 0.0744893258 0.148978652 0.0546255056 0.0198638202
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-53-7626-01 TCGA-53-7813-01 TCGA-53-A4EZ-01 TCGA-55-1592-01
#> ARID1A 0.155736446 0.028567040 0.054369528 0.041468284
#> ATM 0.155736446 0.028567040 0.054369528 0.041468284
#> BRAF 0.034608099 0.006348231 0.012082117 0.009215174
#> CDKN2A 0.060564173 0.011109405 0.021143706 0.016126555
#> CMTR2 0.147084421 0.026979983 0.051348999 0.039164491
#> CTNNB1 0.008652025 0.001587058 0.003020529 0.002303794
#> EGFR 0.259560743 0.047611734 0.090615881 0.069113807
#> KEAP1 0.173040496 0.031741156 0.060410587 0.046075872
#> KRAS 0.008652025 0.001587058 0.003020529 0.002303794
#> MGA 0.216300619 0.039676445 0.075513234 0.057594840
#> NF1 0.268212768 0.049198792 0.093636410 0.071417601
#> PIK3CA 0.008652025 0.001587058 0.003020529 0.002303794
#> PTPRD 0.121128347 0.022218809 0.042287411 0.032253110
#> PTPRT 0.103824297 0.019044694 0.036246352 0.027645523
#> RB1 0.164388471 0.030154098 0.057390058 0.043772078
#> RBM10 0.250908719 0.046024676 0.087595351 0.066810014
#> SETBP1 0.095172273 0.017457636 0.033225823 0.025341729
#> SETD2 0.181692520 0.033328214 0.063431117 0.048379665
#> SMAD4 0.060564173 0.011109405 0.021143706 0.016126555
#> SMARCA4 0.181692520 0.033328214 0.063431117 0.048379665
#> STK11 0.441253264 0.080939948 0.154046997 0.117493473
#> TP53 0.839246404 0.153944607 0.292991348 0.223467977
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-1595-01 TCGA-55-1596-01 TCGA-55-6642-01 TCGA-55-6968-01
#> ARID1A 0.038703732 0.021194901 0.019351866 0.052526494
#> ATM 0.038703732 0.021194901 0.019351866 0.052526494
#> BRAF 0.008600829 0.004709978 0.004300415 0.011672554
#> CDKN2A 0.015051451 0.008242461 0.007525726 0.020426970
#> CMTR2 0.036553525 0.020017406 0.018276762 0.049608355
#> CTNNB1 0.002150207 0.001177494 0.001075104 0.002918139
#> EGFR 0.064506220 0.035324835 0.032253110 0.087544156
#> KEAP1 0.043004147 0.023549890 0.021502073 0.058362771
#> KRAS 0.002150207 0.001177494 0.001075104 0.002918139
#> MGA 0.053755184 0.029437362 0.026877592 0.072953463
#> NF1 0.066656428 0.036502329 0.033328214 0.090462295
#> PIK3CA 0.002150207 0.001177494 0.001075104 0.002918139
#> PTPRD 0.030102903 0.016484923 0.015051451 0.040853939
#> PTPRT 0.025802488 0.014129934 0.012901244 0.035017662
#> RB1 0.040853939 0.022372395 0.020426970 0.055444632
#> RBM10 0.062356013 0.034147340 0.031178006 0.084626018
#> SETBP1 0.023652281 0.012952439 0.011826140 0.032099524
#> SETD2 0.045154354 0.024727384 0.022577177 0.061280909
#> SMAD4 0.015051451 0.008242461 0.007525726 0.020426970
#> SMARCA4 0.045154354 0.024727384 0.022577177 0.061280909
#> STK11 0.109660574 0.060052219 0.054830287 0.148825065
#> TP53 0.208570112 0.114216966 0.104285056 0.283059438
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-6969-01 TCGA-55-6970-01 TCGA-55-6975-01 TCGA-55-6979-01
#> ARID1A 0.051604976 0.028567040 0.0129012440 0.048840424
#> ATM 0.051604976 0.028567040 0.0129012440 0.048840424
#> BRAF 0.011467772 0.006348231 0.0028669431 0.010853428
#> CDKN2A 0.020068602 0.011109405 0.0050171505 0.018993498
#> CMTR2 0.048738033 0.026979983 0.0121845083 0.046127067
#> CTNNB1 0.002866943 0.001587058 0.0007167358 0.002713357
#> EGFR 0.086008294 0.047611734 0.0215020734 0.081400706
#> KEAP1 0.057338862 0.031741156 0.0143347156 0.054267138
#> KRAS 0.002866943 0.001587058 0.0007167358 0.002713357
#> MGA 0.071673578 0.039676445 0.0179183945 0.067833922
#> NF1 0.088875237 0.049198792 0.0222188092 0.084114063
#> PIK3CA 0.002866943 0.001587058 0.0007167358 0.002713357
#> PTPRD 0.040137204 0.022218809 0.0100343009 0.037986996
#> PTPRT 0.034403317 0.019044694 0.0086008294 0.032560283
#> RB1 0.054471919 0.030154098 0.0136179798 0.051553781
#> RBM10 0.083141351 0.046024676 0.0207853376 0.078687350
#> SETBP1 0.031536374 0.017457636 0.0078840936 0.029846926
#> SETD2 0.060205806 0.033328214 0.0150514514 0.056980495
#> SMAD4 0.020068602 0.011109405 0.0050171505 0.018993498
#> SMARCA4 0.060205806 0.033328214 0.0150514514 0.056980495
#> STK11 0.146214099 0.080939948 0.0365535248 0.138381201
#> TP53 0.278093483 0.153944607 0.0695233707 0.263195618
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-55-6981-01 TCGA-55-6983-01 TCGA-55-6984-01 TCGA-55-7281-01
#> ARID1A 0.0165873138 0.0147442789 0.0055291046 0.054369528
#> ATM 0.0165873138 0.0147442789 0.0055291046 0.054369528
#> BRAF 0.0036860697 0.0032765064 0.0012286899 0.012082117
#> CDKN2A 0.0064506220 0.0057338862 0.0021502073 0.021143706
#> CMTR2 0.0156657963 0.0139251523 0.0052219321 0.051348999
#> CTNNB1 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> EGFR 0.0276455230 0.0245737982 0.0092151743 0.090615881
#> KEAP1 0.0184303486 0.0163825321 0.0061434495 0.060410587
#> KRAS 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> MGA 0.0230379358 0.0204781652 0.0076793119 0.075513234
#> NF1 0.0285670404 0.0253929248 0.0095223468 0.093636410
#> PIK3CA 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> PTPRD 0.0129012440 0.0114677725 0.0043004147 0.042287411
#> PTPRT 0.0110582092 0.0098295193 0.0036860697 0.036246352
#> RB1 0.0175088312 0.0155634055 0.0058362771 0.057390058
#> RBM10 0.0267240055 0.0237546716 0.0089080018 0.087595351
#> SETBP1 0.0101366918 0.0090103927 0.0033788973 0.033225823
#> SETD2 0.0193518661 0.0172016587 0.0064506220 0.063431117
#> SMAD4 0.0064506220 0.0057338862 0.0021502073 0.021143706
#> SMARCA4 0.0193518661 0.0172016587 0.0064506220 0.063431117
#> STK11 0.0469973890 0.0417754569 0.0156657963 0.154046997
#> TP53 0.0893871909 0.0794552808 0.0297957303 0.292991348
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-55-7283-01 TCGA-55-7284-01 TCGA-55-7570-01 TCGA-55-7573-01
#> ARID1A 0.026724006 0.0036860697 0.044232837 0.0082936569
#> ATM 0.026724006 0.0036860697 0.044232837 0.0082936569
#> BRAF 0.005938668 0.0008191266 0.009829519 0.0018430349
#> CDKN2A 0.010392669 0.0014334716 0.017201659 0.0032253110
#> CMTR2 0.025239339 0.0034812881 0.041775457 0.0078328982
#> CTNNB1 0.001484667 0.0002047817 0.002457380 0.0004607587
#> EGFR 0.044540009 0.0061434495 0.073721395 0.0138227615
#> KEAP1 0.029693339 0.0040956330 0.049147596 0.0092151743
#> KRAS 0.001484667 0.0002047817 0.002457380 0.0004607587
#> MGA 0.037116674 0.0051195413 0.061434495 0.0115189679
#> NF1 0.046024676 0.0063482312 0.076178774 0.0142835202
#> PIK3CA 0.001484667 0.0002047817 0.002457380 0.0004607587
#> PTPRD 0.020785338 0.0028669431 0.034403317 0.0064506220
#> PTPRT 0.017816004 0.0024573798 0.029488558 0.0055291046
#> RB1 0.028208673 0.0038908514 0.046690217 0.0087544156
#> RBM10 0.043055342 0.0059386679 0.071264015 0.0133620028
#> SETBP1 0.016331337 0.0022525982 0.027031178 0.0050683459
#> SETD2 0.031178006 0.0043004147 0.051604976 0.0096759330
#> SMAD4 0.010392669 0.0014334716 0.017201659 0.0032253110
#> SMARCA4 0.031178006 0.0043004147 0.051604976 0.0096759330
#> STK11 0.075718016 0.0104438642 0.125326371 0.0234986945
#> TP53 0.144012696 0.0198638202 0.238365842 0.0446935955
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-55-7576-01 TCGA-55-7724-01 TCGA-55-7725-01 TCGA-55-7726-01
#> ARID1A 0.037782215 0.026724006 0.020273384 0.015665796
#> ATM 0.037782215 0.026724006 0.020273384 0.015665796
#> BRAF 0.008396048 0.005938668 0.004505196 0.003481288
#> CDKN2A 0.014693083 0.010392669 0.007884094 0.006092254
#> CMTR2 0.035683203 0.025239339 0.019147084 0.014795474
#> CTNNB1 0.002099012 0.001484667 0.001126299 0.000870322
#> EGFR 0.062970358 0.044540009 0.033788973 0.026109661
#> KEAP1 0.041980239 0.029693339 0.022525982 0.017406440
#> KRAS 0.002099012 0.001484667 0.001126299 0.000870322
#> MGA 0.052475298 0.037116674 0.028157477 0.021758050
#> NF1 0.065069370 0.046024676 0.034915272 0.026979983
#> PIK3CA 0.002099012 0.001484667 0.001126299 0.000870322
#> PTPRD 0.029386167 0.020785338 0.015768187 0.012184508
#> PTPRT 0.025188143 0.017816004 0.013515589 0.010443864
#> RB1 0.039881227 0.028208673 0.021399683 0.016536118
#> RBM10 0.060871346 0.043055342 0.032662673 0.025239339
#> SETBP1 0.023089131 0.016331337 0.012389290 0.009573542
#> SETD2 0.044079250 0.031178006 0.023652281 0.018276762
#> SMAD4 0.014693083 0.010392669 0.007884094 0.006092254
#> SMARCA4 0.044079250 0.031178006 0.023652281 0.018276762
#> STK11 0.107049608 0.075718016 0.057441253 0.044386423
#> TP53 0.203604157 0.144012696 0.109251011 0.084421236
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-7727-01 TCGA-55-7728-01 TCGA-55-7815-01 TCGA-55-7903-01
#> ARID1A 0.021194901 0.011058209 0.0101366918 0.0175088312
#> ATM 0.021194901 0.011058209 0.0101366918 0.0175088312
#> BRAF 0.004709978 0.002457380 0.0022525982 0.0038908514
#> CDKN2A 0.008242461 0.004300415 0.0039420468 0.0068089899
#> CMTR2 0.020017406 0.010443864 0.0095735422 0.0165361184
#> CTNNB1 0.001177494 0.000614345 0.0005631495 0.0009727128
#> EGFR 0.035324835 0.018430349 0.0168944863 0.0291813853
#> KEAP1 0.023549890 0.012286899 0.0112629908 0.0194542569
#> KRAS 0.001177494 0.000614345 0.0005631495 0.0009727128
#> MGA 0.029437362 0.015358624 0.0140787385 0.0243178211
#> NF1 0.036502329 0.019044694 0.0174576358 0.0301540982
#> PIK3CA 0.001177494 0.000614345 0.0005631495 0.0009727128
#> PTPRD 0.016484923 0.008600829 0.0078840936 0.0136179798
#> PTPRT 0.014129934 0.007372139 0.0067577945 0.0116725541
#> RB1 0.022372395 0.011672554 0.0106998413 0.0184815441
#> RBM10 0.034147340 0.017816004 0.0163313367 0.0282086725
#> SETBP1 0.012952439 0.006757795 0.0061946450 0.0106998413
#> SETD2 0.024727384 0.012901244 0.0118261404 0.0204269697
#> SMAD4 0.008242461 0.004300415 0.0039420468 0.0068089899
#> SMARCA4 0.024727384 0.012901244 0.0118261404 0.0204269697
#> STK11 0.060052219 0.031331593 0.0287206266 0.0496083551
#> TP53 0.114216966 0.059591461 0.0546255056 0.0943531460
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-55-7907-01 TCGA-55-7910-01 TCGA-55-7911-01 TCGA-55-7913-01
#> ARID1A 0.136384580 0.033174628 0.023959453 0.029488558
#> ATM 0.136384580 0.033174628 0.023959453 0.029488558
#> BRAF 0.030307684 0.007372139 0.005324323 0.006553013
#> CDKN2A 0.053038448 0.012901244 0.009317565 0.011467772
#> CMTR2 0.128807659 0.031331593 0.022628372 0.027850305
#> CTNNB1 0.007576921 0.001843035 0.001331081 0.001638253
#> EGFR 0.227307633 0.055291046 0.039932422 0.049147596
#> KEAP1 0.151538422 0.036860697 0.026621615 0.032765064
#> KRAS 0.007576921 0.001843035 0.001331081 0.001638253
#> MGA 0.189423028 0.046075872 0.033277018 0.040956330
#> NF1 0.234884554 0.057134081 0.041263503 0.050785850
#> PIK3CA 0.007576921 0.001843035 0.001331081 0.001638253
#> PTPRD 0.106076896 0.025802488 0.018635130 0.022935545
#> PTPRT 0.090923053 0.022116418 0.015972969 0.019659039
#> RB1 0.143961501 0.035017662 0.025290534 0.031126811
#> RBM10 0.219730712 0.053448011 0.038601341 0.047509343
#> SETBP1 0.083346132 0.020273384 0.014641888 0.018020785
#> SETD2 0.159115343 0.038703732 0.027952695 0.034403317
#> SMAD4 0.053038448 0.012901244 0.009317565 0.011467772
#> SMARCA4 0.159115343 0.038703732 0.027952695 0.034403317
#> STK11 0.386422977 0.093994778 0.067885117 0.083550914
#> TP53 0.734961347 0.178774382 0.129114831 0.158910562
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-7914-01 TCGA-55-7994-01 TCGA-55-7995-01 TCGA-55-8085-01
#> ARID1A 0.015665796 0.18246045 0.05621256 0.027645523
#> ATM 0.015665796 0.18246045 0.05621256 0.027645523
#> BRAF 0.003481288 0.04054677 0.01249168 0.006143450
#> CDKN2A 0.006092254 0.07095684 0.02186044 0.010751037
#> CMTR2 0.014795474 0.17232376 0.05308964 0.026109661
#> CTNNB1 0.000870322 0.01013669 0.00312292 0.001535862
#> EGFR 0.026109661 0.30410075 0.09368761 0.046075872
#> KEAP1 0.017406440 0.20273384 0.06245840 0.030717248
#> KRAS 0.000870322 0.01013669 0.00312292 0.001535862
#> MGA 0.021758050 0.25341729 0.07807300 0.038396560
#> NF1 0.026979983 0.31423744 0.09681053 0.047611734
#> PIK3CA 0.000870322 0.01013669 0.00312292 0.001535862
#> PTPRD 0.012184508 0.14191368 0.04372088 0.021502073
#> PTPRT 0.010443864 0.12164030 0.03747504 0.018430349
#> RB1 0.016536118 0.19259714 0.05933548 0.029181385
#> RBM10 0.025239339 0.29396406 0.09056469 0.044540009
#> SETBP1 0.009573542 0.11150361 0.03435212 0.016894486
#> SETD2 0.018276762 0.21287053 0.06558132 0.032253110
#> SMAD4 0.006092254 0.07095684 0.02186044 0.010751037
#> SMARCA4 0.018276762 0.21287053 0.06558132 0.032253110
#> STK11 0.044386423 0.51697128 0.15926893 0.078328982
#> TP53 0.084421236 0.98325910 0.30292326 0.148978652
#> U2AF1 0.000000000 0.00000000 0.00000000 0.000000000
#> TCGA-55-8089-01 TCGA-55-8090-01 TCGA-55-8092-01 TCGA-55-8094-01
#> ARID1A 0.111503609 0.0101366918 0.052526494 0.051604976
#> ATM 0.111503609 0.0101366918 0.052526494 0.051604976
#> BRAF 0.024778580 0.0022525982 0.011672554 0.011467772
#> CDKN2A 0.043362515 0.0039420468 0.020426970 0.020068602
#> CMTR2 0.105308964 0.0095735422 0.049608355 0.048738033
#> CTNNB1 0.006194645 0.0005631495 0.002918139 0.002866943
#> EGFR 0.185839349 0.0168944863 0.087544156 0.086008294
#> KEAP1 0.123892899 0.0112629908 0.058362771 0.057338862
#> KRAS 0.006194645 0.0005631495 0.002918139 0.002866943
#> MGA 0.154866124 0.0140787385 0.072953463 0.071673578
#> NF1 0.192033994 0.0174576358 0.090462295 0.088875237
#> PIK3CA 0.006194645 0.0005631495 0.002918139 0.002866943
#> PTPRD 0.086725029 0.0078840936 0.040853939 0.040137204
#> PTPRT 0.074335740 0.0067577945 0.035017662 0.034403317
#> RB1 0.117698254 0.0106998413 0.055444632 0.054471919
#> RBM10 0.179644704 0.0163313367 0.084626018 0.083141351
#> SETBP1 0.068141095 0.0061946450 0.032099524 0.031536374
#> SETD2 0.130087544 0.0118261404 0.061280909 0.060205806
#> SMAD4 0.043362515 0.0039420468 0.020426970 0.020068602
#> SMARCA4 0.130087544 0.0118261404 0.061280909 0.060205806
#> STK11 0.315926893 0.0287206266 0.148825065 0.146214099
#> TP53 0.600880561 0.0546255056 0.283059438 0.278093483
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-8096-01 TCGA-55-8097-01 TCGA-55-8203-01 TCGA-55-8205-01
#> ARID1A 0.0165873138 0.0101366918 0.035017662 0.06634926
#> ATM 0.0165873138 0.0101366918 0.035017662 0.06634926
#> BRAF 0.0036860697 0.0022525982 0.007781703 0.01474428
#> CDKN2A 0.0064506220 0.0039420468 0.013617980 0.02580249
#> CMTR2 0.0156657963 0.0095735422 0.033072237 0.06266319
#> CTNNB1 0.0009215174 0.0005631495 0.001945426 0.00368607
#> EGFR 0.0276455230 0.0168944863 0.058362771 0.11058209
#> KEAP1 0.0184303486 0.0112629908 0.038908514 0.07372139
#> KRAS 0.0009215174 0.0005631495 0.001945426 0.00368607
#> MGA 0.0230379358 0.0140787385 0.048635642 0.09215174
#> NF1 0.0285670404 0.0174576358 0.060308196 0.11426816
#> PIK3CA 0.0009215174 0.0005631495 0.001945426 0.00368607
#> PTPRD 0.0129012440 0.0078840936 0.027235960 0.05160498
#> PTPRT 0.0110582092 0.0067577945 0.023345108 0.04423284
#> RB1 0.0175088312 0.0106998413 0.036963088 0.07003532
#> RBM10 0.0267240055 0.0163313367 0.056417345 0.10689602
#> SETBP1 0.0101366918 0.0061946450 0.021399683 0.04054677
#> SETD2 0.0193518661 0.0118261404 0.040853939 0.07740746
#> SMAD4 0.0064506220 0.0039420468 0.013617980 0.02580249
#> SMARCA4 0.0193518661 0.0118261404 0.040853939 0.07740746
#> STK11 0.0469973890 0.0287206266 0.099216710 0.18798956
#> TP53 0.0893871909 0.0546255056 0.188706292 0.35754876
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.00000000
#> TCGA-55-8207-01 TCGA-55-8208-01 TCGA-55-8299-01 TCGA-55-8301-01
#> ARID1A 0.031331593 0.031331593 0.018430349 0.038703732
#> ATM 0.031331593 0.031331593 0.018430349 0.038703732
#> BRAF 0.006962576 0.006962576 0.004095633 0.008600829
#> CDKN2A 0.012184508 0.012184508 0.007167358 0.015051451
#> CMTR2 0.029590949 0.029590949 0.017406440 0.036553525
#> CTNNB1 0.001740644 0.001740644 0.001023908 0.002150207
#> EGFR 0.052219321 0.052219321 0.030717248 0.064506220
#> KEAP1 0.034812881 0.034812881 0.020478165 0.043004147
#> KRAS 0.001740644 0.001740644 0.001023908 0.002150207
#> MGA 0.043516101 0.043516101 0.025597706 0.053755184
#> NF1 0.053959965 0.053959965 0.031741156 0.066656428
#> PIK3CA 0.001740644 0.001740644 0.001023908 0.002150207
#> PTPRD 0.024369017 0.024369017 0.014334716 0.030102903
#> PTPRT 0.020887728 0.020887728 0.012286899 0.025802488
#> RB1 0.033072237 0.033072237 0.019454257 0.040853939
#> RBM10 0.050478677 0.050478677 0.029693339 0.062356013
#> SETBP1 0.019147084 0.019147084 0.011262991 0.023652281
#> SETD2 0.036553525 0.036553525 0.021502073 0.045154354
#> SMAD4 0.012184508 0.012184508 0.007167358 0.015051451
#> SMARCA4 0.036553525 0.036553525 0.021502073 0.045154354
#> STK11 0.088772846 0.088772846 0.052219321 0.109660574
#> TP53 0.168842472 0.168842472 0.099319101 0.208570112
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-8302-01 TCGA-55-8505-01 TCGA-55-8506-01 TCGA-55-8508-01
#> ARID1A 0.081093534 0.0027645523 0.26908309 0.025802488
#> ATM 0.081093534 0.0027645523 0.26908309 0.025802488
#> BRAF 0.018020785 0.0006143450 0.05979624 0.005733886
#> CDKN2A 0.031536374 0.0010751037 0.10464342 0.010034301
#> CMTR2 0.076588338 0.0026109661 0.25413403 0.024369017
#> CTNNB1 0.004505196 0.0001535862 0.01494906 0.001433472
#> EGFR 0.135155890 0.0046075872 0.44847182 0.043004147
#> KEAP1 0.090103927 0.0030717248 0.29898121 0.028669431
#> KRAS 0.004505196 0.0001535862 0.01494906 0.001433472
#> MGA 0.112629908 0.0038396560 0.37372651 0.035836789
#> NF1 0.139661086 0.0047611734 0.46342088 0.044437618
#> PIK3CA 0.004505196 0.0001535862 0.01494906 0.001433472
#> PTPRD 0.063072749 0.0021502073 0.20928685 0.020068602
#> PTPRT 0.054062356 0.0018430349 0.17938873 0.017201659
#> RB1 0.085598730 0.0029181385 0.28403215 0.027235960
#> RBM10 0.130650694 0.0044540009 0.43352276 0.041570675
#> SETBP1 0.049557160 0.0016894486 0.16443967 0.015768187
#> SETD2 0.094609123 0.0032253110 0.31393027 0.030102903
#> SMAD4 0.031536374 0.0010751037 0.10464342 0.010034301
#> SMARCA4 0.094609123 0.0032253110 0.31393027 0.030102903
#> STK11 0.229765013 0.0078328982 0.76240209 0.073107050
#> TP53 0.437004044 0.0148978652 1.00000000 0.139046741
#> U2AF1 0.000000000 0.0000000000 0.00000000 0.000000000
#> TCGA-55-8511-01 TCGA-55-8512-01 TCGA-55-8514-01 TCGA-55-8614-01
#> ARID1A 0.068192290 0.0027645523 0.036860697 0.023959453
#> ATM 0.068192290 0.0027645523 0.036860697 0.023959453
#> BRAF 0.015153842 0.0006143450 0.008191266 0.005324323
#> CDKN2A 0.026519224 0.0010751037 0.014334716 0.009317565
#> CMTR2 0.064403829 0.0026109661 0.034812881 0.022628372
#> CTNNB1 0.003788461 0.0001535862 0.002047817 0.001331081
#> EGFR 0.113653817 0.0046075872 0.061434495 0.039932422
#> KEAP1 0.075769211 0.0030717248 0.040956330 0.026621615
#> KRAS 0.003788461 0.0001535862 0.002047817 0.001331081
#> MGA 0.094711514 0.0038396560 0.051195413 0.033277018
#> NF1 0.117442277 0.0047611734 0.063482312 0.041263503
#> PIK3CA 0.003788461 0.0001535862 0.002047817 0.001331081
#> PTPRD 0.053038448 0.0021502073 0.028669431 0.018635130
#> PTPRT 0.045461527 0.0018430349 0.024573798 0.015972969
#> RB1 0.071980751 0.0029181385 0.038908514 0.025290534
#> RBM10 0.109865356 0.0044540009 0.059386679 0.038601341
#> SETBP1 0.041673066 0.0016894486 0.022525982 0.014641888
#> SETD2 0.079557672 0.0032253110 0.043004147 0.027952695
#> SMAD4 0.026519224 0.0010751037 0.014334716 0.009317565
#> SMARCA4 0.079557672 0.0032253110 0.043004147 0.027952695
#> STK11 0.193211488 0.0078328982 0.104438642 0.067885117
#> TP53 0.367480674 0.0148978652 0.198638202 0.129114831
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-8615-01 TCGA-55-8616-01 TCGA-55-8620-01 TCGA-55-A48X-01
#> ARID1A 0.011058209 0.05621256 0.068192290 0.043311319
#> ATM 0.011058209 0.05621256 0.068192290 0.043311319
#> BRAF 0.002457380 0.01249168 0.015153842 0.009624738
#> CDKN2A 0.004300415 0.02186044 0.026519224 0.016843291
#> CMTR2 0.010443864 0.05308964 0.064403829 0.040905135
#> CTNNB1 0.000614345 0.00312292 0.003788461 0.002406184
#> EGFR 0.018430349 0.09368761 0.113653817 0.072185532
#> KEAP1 0.012286899 0.06245840 0.075769211 0.048123688
#> KRAS 0.000614345 0.00312292 0.003788461 0.002406184
#> MGA 0.015358624 0.07807300 0.094711514 0.060154610
#> NF1 0.019044694 0.09681053 0.117442277 0.074591717
#> PIK3CA 0.000614345 0.00312292 0.003788461 0.002406184
#> PTPRD 0.008600829 0.04372088 0.053038448 0.033686582
#> PTPRT 0.007372139 0.03747504 0.045461527 0.028874213
#> RB1 0.011672554 0.05933548 0.071980751 0.045717504
#> RBM10 0.017816004 0.09056469 0.109865356 0.069779348
#> SETBP1 0.006757795 0.03435212 0.041673066 0.026468028
#> SETD2 0.012901244 0.06558132 0.079557672 0.050529873
#> SMAD4 0.004300415 0.02186044 0.026519224 0.016843291
#> SMARCA4 0.012901244 0.06558132 0.079557672 0.050529873
#> STK11 0.031331593 0.15926893 0.193211488 0.122715405
#> TP53 0.059591461 0.30292326 0.367480674 0.233399887
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-55-A48Y-01 TCGA-55-A48Z-01 TCGA-55-A490-01 TCGA-55-A491-01
#> ARID1A 0.031331593 0.0064506220 0.157579481 0.039625250
#> ATM 0.031331593 0.0064506220 0.157579481 0.039625250
#> BRAF 0.006962576 0.0014334716 0.035017662 0.008805611
#> CDKN2A 0.012184508 0.0025085752 0.061280909 0.015409819
#> CMTR2 0.029590949 0.0060922541 0.148825065 0.037423847
#> CTNNB1 0.001740644 0.0003583679 0.008754416 0.002201403
#> EGFR 0.052219321 0.0107510367 0.262632468 0.066042083
#> KEAP1 0.034812881 0.0071673578 0.175088312 0.044028055
#> KRAS 0.001740644 0.0003583679 0.008754416 0.002201403
#> MGA 0.043516101 0.0089591973 0.218860390 0.055035069
#> NF1 0.053959965 0.0111094046 0.271386884 0.068243485
#> PIK3CA 0.001740644 0.0003583679 0.008754416 0.002201403
#> PTPRD 0.024369017 0.0050171505 0.122561818 0.030819639
#> PTPRT 0.020887728 0.0043004147 0.105052987 0.026416833
#> RB1 0.033072237 0.0068089899 0.166333896 0.041826652
#> RBM10 0.050478677 0.0103926688 0.253878053 0.063840680
#> SETBP1 0.019147084 0.0039420468 0.096298572 0.024215430
#> SETD2 0.036553525 0.0075257257 0.183842728 0.046229458
#> SMAD4 0.012184508 0.0025085752 0.061280909 0.015409819
#> SMARCA4 0.036553525 0.0075257257 0.183842728 0.046229458
#> STK11 0.088772846 0.0182767624 0.446475196 0.112271540
#> TP53 0.168842472 0.0347616854 0.849178314 0.213536067
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-A492-01 TCGA-55-A493-01 TCGA-55-A494-01 TCGA-55-A4DG-01
#> ARID1A 0.035017662 0.026724006 0.023959453 0.082015051
#> ATM 0.035017662 0.026724006 0.023959453 0.082015051
#> BRAF 0.007781703 0.005938668 0.005324323 0.018225567
#> CDKN2A 0.013617980 0.010392669 0.009317565 0.031894742
#> CMTR2 0.033072237 0.025239339 0.022628372 0.077458660
#> CTNNB1 0.001945426 0.001484667 0.001331081 0.004556392
#> EGFR 0.058362771 0.044540009 0.039932422 0.136691752
#> KEAP1 0.038908514 0.029693339 0.026621615 0.091127835
#> KRAS 0.001945426 0.001484667 0.001331081 0.004556392
#> MGA 0.048635642 0.037116674 0.033277018 0.113909794
#> NF1 0.060308196 0.046024676 0.041263503 0.141248144
#> PIK3CA 0.001945426 0.001484667 0.001331081 0.004556392
#> PTPRD 0.027235960 0.020785338 0.018635130 0.063789484
#> PTPRT 0.023345108 0.017816004 0.015972969 0.054676701
#> RB1 0.036963088 0.028208673 0.025290534 0.086571443
#> RBM10 0.056417345 0.043055342 0.038601341 0.132135361
#> SETBP1 0.021399683 0.016331337 0.014641888 0.050120309
#> SETD2 0.040853939 0.031178006 0.027952695 0.095684227
#> SMAD4 0.013617980 0.010392669 0.009317565 0.031894742
#> SMARCA4 0.040853939 0.031178006 0.027952695 0.095684227
#> STK11 0.099216710 0.075718016 0.067885117 0.232375979
#> TP53 0.188706292 0.144012696 0.129114831 0.441969999
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-A57B-01 TCGA-62-8394-01 TCGA-62-8395-01 TCGA-62-8398-01
#> ARID1A 0.0046075872 0.0101366918 0.0119797266 0.0073721395
#> ATM 0.0046075872 0.0101366918 0.0119797266 0.0073721395
#> BRAF 0.0010239083 0.0022525982 0.0026621615 0.0016382532
#> CDKN2A 0.0017918395 0.0039420468 0.0046587826 0.0028669431
#> CMTR2 0.0043516101 0.0095735422 0.0113141862 0.0069625762
#> CTNNB1 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> EGFR 0.0076793119 0.0168944863 0.0199662110 0.0122868991
#> KEAP1 0.0051195413 0.0112629908 0.0133108074 0.0081912661
#> KRAS 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> MGA 0.0063994266 0.0140787385 0.0166385092 0.0102390826
#> NF1 0.0079352890 0.0174576358 0.0206317514 0.0126964624
#> PIK3CA 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> PTPRD 0.0035836789 0.0078840936 0.0093175651 0.0057338862
#> PTPRT 0.0030717248 0.0067577945 0.0079864844 0.0049147596
#> RB1 0.0048635642 0.0106998413 0.0126452670 0.0077817028
#> RBM10 0.0074233349 0.0163313367 0.0193006707 0.0118773358
#> SETBP1 0.0028157477 0.0061946450 0.0073209440 0.0045051963
#> SETD2 0.0053755184 0.0118261404 0.0139763477 0.0086008294
#> SMAD4 0.0017918395 0.0039420468 0.0046587826 0.0028669431
#> SMARCA4 0.0053755184 0.0118261404 0.0139763477 0.0086008294
#> STK11 0.0130548303 0.0287206266 0.0339425587 0.0208877285
#> TP53 0.0248297753 0.0546255056 0.0645574157 0.0397276404
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> TCGA-62-8399-01 TCGA-62-8402-01 TCGA-62-A46R-01 TCGA-62-A46S-01
#> ARID1A 0.054369528 0.0036860697 0.026724006 0.0119797266
#> ATM 0.054369528 0.0036860697 0.026724006 0.0119797266
#> BRAF 0.012082117 0.0008191266 0.005938668 0.0026621615
#> CDKN2A 0.021143706 0.0014334716 0.010392669 0.0046587826
#> CMTR2 0.051348999 0.0034812881 0.025239339 0.0113141862
#> CTNNB1 0.003020529 0.0002047817 0.001484667 0.0006655404
#> EGFR 0.090615881 0.0061434495 0.044540009 0.0199662110
#> KEAP1 0.060410587 0.0040956330 0.029693339 0.0133108074
#> KRAS 0.003020529 0.0002047817 0.001484667 0.0006655404
#> MGA 0.075513234 0.0051195413 0.037116674 0.0166385092
#> NF1 0.093636410 0.0063482312 0.046024676 0.0206317514
#> PIK3CA 0.003020529 0.0002047817 0.001484667 0.0006655404
#> PTPRD 0.042287411 0.0028669431 0.020785338 0.0093175651
#> PTPRT 0.036246352 0.0024573798 0.017816004 0.0079864844
#> RB1 0.057390058 0.0038908514 0.028208673 0.0126452670
#> RBM10 0.087595351 0.0059386679 0.043055342 0.0193006707
#> SETBP1 0.033225823 0.0022525982 0.016331337 0.0073209440
#> SETD2 0.063431117 0.0043004147 0.031178006 0.0139763477
#> SMAD4 0.021143706 0.0014334716 0.010392669 0.0046587826
#> SMARCA4 0.063431117 0.0043004147 0.031178006 0.0139763477
#> STK11 0.154046997 0.0104438642 0.075718016 0.0339425587
#> TP53 0.292991348 0.0198638202 0.144012696 0.0645574157
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-62-A46U-01 TCGA-62-A46V-01 TCGA-62-A470-01 TCGA-62-A471-01
#> ARID1A 0.0027645523 0.0082936569 0.018430349 0.0064506220
#> ATM 0.0027645523 0.0082936569 0.018430349 0.0064506220
#> BRAF 0.0006143450 0.0018430349 0.004095633 0.0014334716
#> CDKN2A 0.0010751037 0.0032253110 0.007167358 0.0025085752
#> CMTR2 0.0026109661 0.0078328982 0.017406440 0.0060922541
#> CTNNB1 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> EGFR 0.0046075872 0.0138227615 0.030717248 0.0107510367
#> KEAP1 0.0030717248 0.0092151743 0.020478165 0.0071673578
#> KRAS 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> MGA 0.0038396560 0.0115189679 0.025597706 0.0089591973
#> NF1 0.0047611734 0.0142835202 0.031741156 0.0111094046
#> PIK3CA 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> PTPRD 0.0021502073 0.0064506220 0.014334716 0.0050171505
#> PTPRT 0.0018430349 0.0055291046 0.012286899 0.0043004147
#> RB1 0.0029181385 0.0087544156 0.019454257 0.0068089899
#> RBM10 0.0044540009 0.0133620028 0.029693339 0.0103926688
#> SETBP1 0.0016894486 0.0050683459 0.011262991 0.0039420468
#> SETD2 0.0032253110 0.0096759330 0.021502073 0.0075257257
#> SMAD4 0.0010751037 0.0032253110 0.007167358 0.0025085752
#> SMARCA4 0.0032253110 0.0096759330 0.021502073 0.0075257257
#> STK11 0.0078328982 0.0234986945 0.052219321 0.0182767624
#> TP53 0.0148978652 0.0446935955 0.099319101 0.0347616854
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-62-A472-01 TCGA-64-1676-01 TCGA-64-1677-01 TCGA-64-1679-01
#> ARID1A 0.0092151743 0.059898633 0.0175088312 0.067270773
#> ATM 0.0092151743 0.059898633 0.0175088312 0.067270773
#> BRAF 0.0020478165 0.013310807 0.0038908514 0.014949061
#> CDKN2A 0.0035836789 0.023293913 0.0068089899 0.026160856
#> CMTR2 0.0087032202 0.056570931 0.0165361184 0.063533507
#> CTNNB1 0.0005119541 0.003327702 0.0009727128 0.003737265
#> EGFR 0.0153586239 0.099831055 0.0291813853 0.112117954
#> KEAP1 0.0102390826 0.066554037 0.0194542569 0.074745303
#> KRAS 0.0005119541 0.003327702 0.0009727128 0.003737265
#> MGA 0.0127988532 0.083192546 0.0243178211 0.093431629
#> NF1 0.0158705780 0.103158757 0.0301540982 0.115855219
#> PIK3CA 0.0005119541 0.003327702 0.0009727128 0.003737265
#> PTPRD 0.0071673578 0.046587826 0.0136179798 0.052321712
#> PTPRT 0.0061434495 0.039932422 0.0116725541 0.044847182
#> RB1 0.0097271284 0.063226335 0.0184815441 0.071008038
#> RBM10 0.0148466697 0.096503353 0.0282086725 0.108380689
#> SETBP1 0.0056314954 0.036604720 0.0106998413 0.041109917
#> SETD2 0.0107510367 0.069881739 0.0204269697 0.078482568
#> SMAD4 0.0035836789 0.023293913 0.0068089899 0.026160856
#> SMARCA4 0.0107510367 0.069881739 0.0204269697 0.078482568
#> STK11 0.0261096606 0.169712794 0.0496083551 0.190600522
#> TP53 0.0496595505 0.322787078 0.0943531460 0.362514719
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-64-1680-01 TCGA-64-1681-01 TCGA-64-5774-01 TCGA-64-5775-01
#> ARID1A 0.0082936569 0.0119797266 0.0138227615 0.065427738
#> ATM 0.0082936569 0.0119797266 0.0138227615 0.065427738
#> BRAF 0.0018430349 0.0026621615 0.0030717248 0.014539497
#> CDKN2A 0.0032253110 0.0046587826 0.0053755184 0.025444120
#> CMTR2 0.0078328982 0.0113141862 0.0130548303 0.061792863
#> CTNNB1 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> EGFR 0.0138227615 0.0199662110 0.0230379358 0.109046229
#> KEAP1 0.0092151743 0.0133108074 0.0153586239 0.072697486
#> KRAS 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> MGA 0.0115189679 0.0166385092 0.0191982798 0.090871858
#> NF1 0.0142835202 0.0206317514 0.0238058670 0.112681104
#> PIK3CA 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> PTPRD 0.0064506220 0.0093175651 0.0107510367 0.050888240
#> PTPRT 0.0055291046 0.0079864844 0.0092151743 0.043618492
#> RB1 0.0087544156 0.0126452670 0.0145906927 0.069062612
#> RBM10 0.0133620028 0.0193006707 0.0222700046 0.105411355
#> SETBP1 0.0050683459 0.0073209440 0.0084472431 0.039983617
#> SETD2 0.0096759330 0.0139763477 0.0161265551 0.076332361
#> SMAD4 0.0032253110 0.0046587826 0.0053755184 0.025444120
#> SMARCA4 0.0096759330 0.0139763477 0.0161265551 0.076332361
#> STK11 0.0234986945 0.0339425587 0.0391644909 0.185378590
#> TP53 0.0446935955 0.0645574157 0.0744893258 0.352582809
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-64-5778-01 TCGA-64-5815-01 TCGA-67-3771-01 TCGA-67-3772-01
#> ARID1A 0.051604976 0.020273384 0.126247888 0.0092151743
#> ATM 0.051604976 0.020273384 0.126247888 0.0092151743
#> BRAF 0.011467772 0.004505196 0.028055086 0.0020478165
#> CDKN2A 0.020068602 0.007884094 0.049096401 0.0035836789
#> CMTR2 0.048738033 0.019147084 0.119234117 0.0087032202
#> CTNNB1 0.002866943 0.001126299 0.007013772 0.0005119541
#> EGFR 0.086008294 0.033788973 0.210413147 0.0153586239
#> KEAP1 0.057338862 0.022525982 0.140275431 0.0102390826
#> KRAS 0.002866943 0.001126299 0.007013772 0.0005119541
#> MGA 0.071673578 0.028157477 0.175344289 0.0127988532
#> NF1 0.088875237 0.034915272 0.217426919 0.0158705780
#> PIK3CA 0.002866943 0.001126299 0.007013772 0.0005119541
#> PTPRD 0.040137204 0.015768187 0.098192802 0.0071673578
#> PTPRT 0.034403317 0.013515589 0.084165259 0.0061434495
#> RB1 0.054471919 0.021399683 0.133261660 0.0097271284
#> RBM10 0.083141351 0.032662673 0.203399375 0.0148466697
#> SETBP1 0.031536374 0.012389290 0.077151487 0.0056314954
#> SETD2 0.060205806 0.023652281 0.147289203 0.0107510367
#> SMAD4 0.020068602 0.007884094 0.049096401 0.0035836789
#> SMARCA4 0.060205806 0.023652281 0.147289203 0.0107510367
#> STK11 0.146214099 0.057441253 0.357702350 0.0261096606
#> TP53 0.278093483 0.109251011 0.680335842 0.0496595505
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-67-3773-01 TCGA-67-3774-01 TCGA-67-4679-01 TCGA-67-6215-01
#> ARID1A 0.0119797266 0.0101366918 0.045154354 0.0046075872
#> ATM 0.0119797266 0.0101366918 0.045154354 0.0046075872
#> BRAF 0.0026621615 0.0022525982 0.010034301 0.0010239083
#> CDKN2A 0.0046587826 0.0039420468 0.017560027 0.0017918395
#> CMTR2 0.0113141862 0.0095735422 0.042645779 0.0043516101
#> CTNNB1 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> EGFR 0.0199662110 0.0168944863 0.075257257 0.0076793119
#> KEAP1 0.0133108074 0.0112629908 0.050171505 0.0051195413
#> KRAS 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> MGA 0.0166385092 0.0140787385 0.062714381 0.0063994266
#> NF1 0.0206317514 0.0174576358 0.077765832 0.0079352890
#> PIK3CA 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> PTPRD 0.0093175651 0.0078840936 0.035120053 0.0035836789
#> PTPRT 0.0079864844 0.0067577945 0.030102903 0.0030717248
#> RB1 0.0126452670 0.0106998413 0.047662929 0.0048635642
#> RBM10 0.0193006707 0.0163313367 0.072748682 0.0074233349
#> SETBP1 0.0073209440 0.0061946450 0.027594328 0.0028157477
#> SETD2 0.0139763477 0.0118261404 0.052680080 0.0053755184
#> SMAD4 0.0046587826 0.0039420468 0.017560027 0.0017918395
#> SMARCA4 0.0139763477 0.0118261404 0.052680080 0.0053755184
#> STK11 0.0339425587 0.0287206266 0.127937337 0.0130548303
#> TP53 0.0645574157 0.0546255056 0.243331797 0.0248297753
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-67-6216-01 TCGA-67-6217-01 TCGA-69-7765-01 TCGA-69-7973-01
#> ARID1A 0.0101366918 0.021194901 0.062663185 0.033174628
#> ATM 0.0101366918 0.021194901 0.062663185 0.033174628
#> BRAF 0.0022525982 0.004709978 0.013925152 0.007372139
#> CDKN2A 0.0039420468 0.008242461 0.024369017 0.012901244
#> CMTR2 0.0095735422 0.020017406 0.059181897 0.031331593
#> CTNNB1 0.0005631495 0.001177494 0.003481288 0.001843035
#> EGFR 0.0168944863 0.035324835 0.104438642 0.055291046
#> KEAP1 0.0112629908 0.023549890 0.069625762 0.036860697
#> KRAS 0.0005631495 0.001177494 0.003481288 0.001843035
#> MGA 0.0140787385 0.029437362 0.087032202 0.046075872
#> NF1 0.0174576358 0.036502329 0.107919930 0.057134081
#> PIK3CA 0.0005631495 0.001177494 0.003481288 0.001843035
#> PTPRD 0.0078840936 0.016484923 0.048738033 0.025802488
#> PTPRT 0.0067577945 0.014129934 0.041775457 0.022116418
#> RB1 0.0106998413 0.022372395 0.066144473 0.035017662
#> RBM10 0.0163313367 0.034147340 0.100957354 0.053448011
#> SETBP1 0.0061946450 0.012952439 0.038294169 0.020273384
#> SETD2 0.0118261404 0.024727384 0.073107050 0.038703732
#> SMAD4 0.0039420468 0.008242461 0.024369017 0.012901244
#> SMARCA4 0.0118261404 0.024727384 0.073107050 0.038703732
#> STK11 0.0287206266 0.060052219 0.177545692 0.093994778
#> TP53 0.0546255056 0.114216966 0.337684943 0.178774382
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-69-7974-01 TCGA-69-7978-01 TCGA-69-7980-01 TCGA-69-8253-01
#> ARID1A 0.059898633 0.067270773 0.1004454 0.0119797266
#> ATM 0.059898633 0.067270773 0.1004454 0.0119797266
#> BRAF 0.013310807 0.014949061 0.0223212 0.0026621615
#> CDKN2A 0.023293913 0.026160856 0.0390621 0.0046587826
#> CMTR2 0.056570931 0.063533507 0.0948651 0.0113141862
#> CTNNB1 0.003327702 0.003737265 0.0055803 0.0006655404
#> EGFR 0.099831055 0.112117954 0.1674090 0.0199662110
#> KEAP1 0.066554037 0.074745303 0.1116060 0.0133108074
#> KRAS 0.003327702 0.003737265 0.0055803 0.0006655404
#> MGA 0.083192546 0.093431629 0.1395075 0.0166385092
#> NF1 0.103158757 0.115855219 0.1729893 0.0206317514
#> PIK3CA 0.003327702 0.003737265 0.0055803 0.0006655404
#> PTPRD 0.046587826 0.052321712 0.0781242 0.0093175651
#> PTPRT 0.039932422 0.044847182 0.0669636 0.0079864844
#> RB1 0.063226335 0.071008038 0.1060257 0.0126452670
#> RBM10 0.096503353 0.108380689 0.1618287 0.0193006707
#> SETBP1 0.036604720 0.041109917 0.0613833 0.0073209440
#> SETD2 0.069881739 0.078482568 0.1171863 0.0139763477
#> SMAD4 0.023293913 0.026160856 0.0390621 0.0046587826
#> SMARCA4 0.069881739 0.078482568 0.1171863 0.0139763477
#> STK11 0.169712794 0.190600522 0.2845953 0.0339425587
#> TP53 0.322787078 0.362514719 0.5412891 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.0000000 0.0000000000
#> TCGA-69-8254-01 TCGA-73-4658-01 TCGA-73-4662-01 TCGA-73-4666-01
#> ARID1A 0.0147442789 0.043311319 0.023959453 0.037782215
#> ATM 0.0147442789 0.043311319 0.023959453 0.037782215
#> BRAF 0.0032765064 0.009624738 0.005324323 0.008396048
#> CDKN2A 0.0057338862 0.016843291 0.009317565 0.014693083
#> CMTR2 0.0139251523 0.040905135 0.022628372 0.035683203
#> CTNNB1 0.0008191266 0.002406184 0.001331081 0.002099012
#> EGFR 0.0245737982 0.072185532 0.039932422 0.062970358
#> KEAP1 0.0163825321 0.048123688 0.026621615 0.041980239
#> KRAS 0.0008191266 0.002406184 0.001331081 0.002099012
#> MGA 0.0204781652 0.060154610 0.033277018 0.052475298
#> NF1 0.0253929248 0.074591717 0.041263503 0.065069370
#> PIK3CA 0.0008191266 0.002406184 0.001331081 0.002099012
#> PTPRD 0.0114677725 0.033686582 0.018635130 0.029386167
#> PTPRT 0.0098295193 0.028874213 0.015972969 0.025188143
#> RB1 0.0155634055 0.045717504 0.025290534 0.039881227
#> RBM10 0.0237546716 0.069779348 0.038601341 0.060871346
#> SETBP1 0.0090103927 0.026468028 0.014641888 0.023089131
#> SETD2 0.0172016587 0.050529873 0.027952695 0.044079250
#> SMAD4 0.0057338862 0.016843291 0.009317565 0.014693083
#> SMARCA4 0.0172016587 0.050529873 0.027952695 0.044079250
#> STK11 0.0417754569 0.122715405 0.067885117 0.107049608
#> TP53 0.0794552808 0.233399887 0.129114831 0.203604157
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-73-4670-01 TCGA-73-4676-01 TCGA-73-4677-01 TCGA-73-7498-01
#> ARID1A 0.046075872 0.0129012440 0.022116418 0.011058209
#> ATM 0.046075872 0.0129012440 0.022116418 0.011058209
#> BRAF 0.010239083 0.0028669431 0.004914760 0.002457380
#> CDKN2A 0.017918395 0.0050171505 0.008600829 0.004300415
#> CMTR2 0.043516101 0.0121845083 0.020887728 0.010443864
#> CTNNB1 0.002559771 0.0007167358 0.001228690 0.000614345
#> EGFR 0.076793119 0.0215020734 0.036860697 0.018430349
#> KEAP1 0.051195413 0.0143347156 0.024573798 0.012286899
#> KRAS 0.002559771 0.0007167358 0.001228690 0.000614345
#> MGA 0.063994266 0.0179183945 0.030717248 0.015358624
#> NF1 0.079352890 0.0222188092 0.038089387 0.019044694
#> PIK3CA 0.002559771 0.0007167358 0.001228690 0.000614345
#> PTPRD 0.035836789 0.0100343009 0.017201659 0.008600829
#> PTPRT 0.030717248 0.0086008294 0.014744279 0.007372139
#> RB1 0.048635642 0.0136179798 0.023345108 0.011672554
#> RBM10 0.074233349 0.0207853376 0.035632007 0.017816004
#> SETBP1 0.028157477 0.0078840936 0.013515589 0.006757795
#> SETD2 0.053755184 0.0150514514 0.025802488 0.012901244
#> SMAD4 0.017918395 0.0050171505 0.008600829 0.004300415
#> SMARCA4 0.053755184 0.0150514514 0.025802488 0.012901244
#> STK11 0.130548303 0.0365535248 0.062663185 0.031331593
#> TP53 0.248297753 0.0695233707 0.119182921 0.059591461
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-73-7499-01 TCGA-73-A9RS-01 TCGA-75-5126-01 TCGA-75-5146-01
#> ARID1A 0.0036860697 0.11058209 0.071878360 0.023037936
#> ATM 0.0036860697 0.11058209 0.071878360 0.023037936
#> BRAF 0.0008191266 0.02457380 0.015972969 0.005119541
#> CDKN2A 0.0014334716 0.04300415 0.027952695 0.008959197
#> CMTR2 0.0034812881 0.10443864 0.067885117 0.021758050
#> CTNNB1 0.0002047817 0.00614345 0.003993242 0.001279885
#> EGFR 0.0061434495 0.18430349 0.119797266 0.038396560
#> KEAP1 0.0040956330 0.12286899 0.079864844 0.025597706
#> KRAS 0.0002047817 0.00614345 0.003993242 0.001279885
#> MGA 0.0051195413 0.15358624 0.099831055 0.031997133
#> NF1 0.0063482312 0.19044694 0.123790508 0.039676445
#> PIK3CA 0.0002047817 0.00614345 0.003993242 0.001279885
#> PTPRD 0.0028669431 0.08600829 0.055905391 0.017918395
#> PTPRT 0.0024573798 0.07372139 0.047918906 0.015358624
#> RB1 0.0038908514 0.11672554 0.075871602 0.024317821
#> RBM10 0.0059386679 0.17816004 0.115804024 0.037116674
#> SETBP1 0.0022525982 0.06757795 0.043925664 0.014078739
#> SETD2 0.0043004147 0.12901244 0.083858086 0.026877592
#> SMAD4 0.0014334716 0.04300415 0.027952695 0.008959197
#> SMARCA4 0.0043004147 0.12901244 0.083858086 0.026877592
#> STK11 0.0104438642 0.31331593 0.203655352 0.065274151
#> TP53 0.0198638202 0.59591461 0.387344494 0.124148876
#> U2AF1 0.0000000000 0.00000000 0.000000000 0.000000000
#> TCGA-75-5147-01 TCGA-75-6206-01 TCGA-75-6211-01 TCGA-75-6214-01
#> ARID1A 0.0055291046 0.0082936569 0.043311319 0.071878360
#> ATM 0.0055291046 0.0082936569 0.043311319 0.071878360
#> BRAF 0.0012286899 0.0018430349 0.009624738 0.015972969
#> CDKN2A 0.0021502073 0.0032253110 0.016843291 0.027952695
#> CMTR2 0.0052219321 0.0078328982 0.040905135 0.067885117
#> CTNNB1 0.0003071725 0.0004607587 0.002406184 0.003993242
#> EGFR 0.0092151743 0.0138227615 0.072185532 0.119797266
#> KEAP1 0.0061434495 0.0092151743 0.048123688 0.079864844
#> KRAS 0.0003071725 0.0004607587 0.002406184 0.003993242
#> MGA 0.0076793119 0.0115189679 0.060154610 0.099831055
#> NF1 0.0095223468 0.0142835202 0.074591717 0.123790508
#> PIK3CA 0.0003071725 0.0004607587 0.002406184 0.003993242
#> PTPRD 0.0043004147 0.0064506220 0.033686582 0.055905391
#> PTPRT 0.0036860697 0.0055291046 0.028874213 0.047918906
#> RB1 0.0058362771 0.0087544156 0.045717504 0.075871602
#> RBM10 0.0089080018 0.0133620028 0.069779348 0.115804024
#> SETBP1 0.0033788973 0.0050683459 0.026468028 0.043925664
#> SETD2 0.0064506220 0.0096759330 0.050529873 0.083858086
#> SMAD4 0.0021502073 0.0032253110 0.016843291 0.027952695
#> SMARCA4 0.0064506220 0.0096759330 0.050529873 0.083858086
#> STK11 0.0156657963 0.0234986945 0.122715405 0.203655352
#> TP53 0.0297957303 0.0446935955 0.233399887 0.387344494
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-75-7027-01 TCGA-75-7030-01 TCGA-78-7145-01 TCGA-78-7146-01
#> ARID1A 0.024880971 0.0018430349 0.025802488 0.030410075
#> ATM 0.024880971 0.0018430349 0.025802488 0.030410075
#> BRAF 0.005529105 0.0004095633 0.005733886 0.006757795
#> CDKN2A 0.009675933 0.0007167358 0.010034301 0.011826140
#> CMTR2 0.023498695 0.0017406440 0.024369017 0.028720627
#> CTNNB1 0.001382276 0.0001023908 0.001433472 0.001689449
#> EGFR 0.041468284 0.0030717248 0.043004147 0.050683459
#> KEAP1 0.027645523 0.0020478165 0.028669431 0.033788973
#> KRAS 0.001382276 0.0001023908 0.001433472 0.001689449
#> MGA 0.034556904 0.0025597706 0.035836789 0.042236216
#> NF1 0.042850561 0.0031741156 0.044437618 0.052372907
#> PIK3CA 0.001382276 0.0001023908 0.001433472 0.001689449
#> PTPRD 0.019351866 0.0014334716 0.020068602 0.023652281
#> PTPRT 0.016587314 0.0012286899 0.017201659 0.020273384
#> RB1 0.026263247 0.0019454257 0.027235960 0.032099524
#> RBM10 0.040086008 0.0029693339 0.041570675 0.048994010
#> SETBP1 0.015205038 0.0011262991 0.015768187 0.018583935
#> SETD2 0.029027799 0.0021502073 0.030102903 0.035478421
#> SMAD4 0.009675933 0.0007167358 0.010034301 0.011826140
#> SMARCA4 0.029027799 0.0021502073 0.030102903 0.035478421
#> STK11 0.070496084 0.0052219321 0.073107050 0.086161880
#> TP53 0.134080786 0.0099319101 0.139046741 0.163876517
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-78-7147-01 TCGA-78-7148-01 TCGA-78-7149-01 TCGA-78-7150-01
#> ARID1A 0.041468284 0.024880971 0.015665796 0.045154354
#> ATM 0.041468284 0.024880971 0.015665796 0.045154354
#> BRAF 0.009215174 0.005529105 0.003481288 0.010034301
#> CDKN2A 0.016126555 0.009675933 0.006092254 0.017560027
#> CMTR2 0.039164491 0.023498695 0.014795474 0.042645779
#> CTNNB1 0.002303794 0.001382276 0.000870322 0.002508575
#> EGFR 0.069113807 0.041468284 0.026109661 0.075257257
#> KEAP1 0.046075872 0.027645523 0.017406440 0.050171505
#> KRAS 0.002303794 0.001382276 0.000870322 0.002508575
#> MGA 0.057594840 0.034556904 0.021758050 0.062714381
#> NF1 0.071417601 0.042850561 0.026979983 0.077765832
#> PIK3CA 0.002303794 0.001382276 0.000870322 0.002508575
#> PTPRD 0.032253110 0.019351866 0.012184508 0.035120053
#> PTPRT 0.027645523 0.016587314 0.010443864 0.030102903
#> RB1 0.043772078 0.026263247 0.016536118 0.047662929
#> RBM10 0.066810014 0.040086008 0.025239339 0.072748682
#> SETBP1 0.025341729 0.015205038 0.009573542 0.027594328
#> SETD2 0.048379665 0.029027799 0.018276762 0.052680080
#> SMAD4 0.016126555 0.009675933 0.006092254 0.017560027
#> SMARCA4 0.048379665 0.029027799 0.018276762 0.052680080
#> STK11 0.117493473 0.070496084 0.044386423 0.127937337
#> TP53 0.223467977 0.134080786 0.084421236 0.243331797
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-78-7152-01 TCGA-78-7153-01 TCGA-78-7155-01 TCGA-78-7158-01
#> ARID1A 0.020273384 0.0147442789 0.18338197 0.034096145
#> ATM 0.020273384 0.0147442789 0.18338197 0.034096145
#> BRAF 0.004505196 0.0032765064 0.04075155 0.007576921
#> CDKN2A 0.007884094 0.0057338862 0.07131521 0.013259612
#> CMTR2 0.019147084 0.0139251523 0.17319408 0.032201915
#> CTNNB1 0.001126299 0.0008191266 0.01018789 0.001894230
#> EGFR 0.033788973 0.0245737982 0.30563661 0.056826908
#> KEAP1 0.022525982 0.0163825321 0.20375774 0.037884606
#> KRAS 0.001126299 0.0008191266 0.01018789 0.001894230
#> MGA 0.028157477 0.0204781652 0.25469718 0.047355757
#> NF1 0.034915272 0.0253929248 0.31582450 0.058721139
#> PIK3CA 0.001126299 0.0008191266 0.01018789 0.001894230
#> PTPRD 0.015768187 0.0114677725 0.14263042 0.026519224
#> PTPRT 0.013515589 0.0098295193 0.12225465 0.022730763
#> RB1 0.021399683 0.0155634055 0.19356986 0.035990375
#> RBM10 0.032662673 0.0237546716 0.29544873 0.054932678
#> SETBP1 0.012389290 0.0090103927 0.11206676 0.020836533
#> SETD2 0.023652281 0.0172016587 0.21394563 0.039778836
#> SMAD4 0.007884094 0.0057338862 0.07131521 0.013259612
#> SMARCA4 0.023652281 0.0172016587 0.21394563 0.039778836
#> STK11 0.057441253 0.0417754569 0.51958225 0.096605744
#> TP53 0.109251011 0.0794552808 0.98822506 0.183740337
#> U2AF1 0.000000000 0.0000000000 0.00000000 0.000000000
#> TCGA-78-7159-01 TCGA-78-7160-01 TCGA-78-7161-01 TCGA-78-7166-01
#> ARID1A 0.043311319 0.0092151743 0.0175088312 0.024880971
#> ATM 0.043311319 0.0092151743 0.0175088312 0.024880971
#> BRAF 0.009624738 0.0020478165 0.0038908514 0.005529105
#> CDKN2A 0.016843291 0.0035836789 0.0068089899 0.009675933
#> CMTR2 0.040905135 0.0087032202 0.0165361184 0.023498695
#> CTNNB1 0.002406184 0.0005119541 0.0009727128 0.001382276
#> EGFR 0.072185532 0.0153586239 0.0291813853 0.041468284
#> KEAP1 0.048123688 0.0102390826 0.0194542569 0.027645523
#> KRAS 0.002406184 0.0005119541 0.0009727128 0.001382276
#> MGA 0.060154610 0.0127988532 0.0243178211 0.034556904
#> NF1 0.074591717 0.0158705780 0.0301540982 0.042850561
#> PIK3CA 0.002406184 0.0005119541 0.0009727128 0.001382276
#> PTPRD 0.033686582 0.0071673578 0.0136179798 0.019351866
#> PTPRT 0.028874213 0.0061434495 0.0116725541 0.016587314
#> RB1 0.045717504 0.0097271284 0.0184815441 0.026263247
#> RBM10 0.069779348 0.0148466697 0.0282086725 0.040086008
#> SETBP1 0.026468028 0.0056314954 0.0106998413 0.015205038
#> SETD2 0.050529873 0.0107510367 0.0204269697 0.029027799
#> SMAD4 0.016843291 0.0035836789 0.0068089899 0.009675933
#> SMARCA4 0.050529873 0.0107510367 0.0204269697 0.029027799
#> STK11 0.122715405 0.0261096606 0.0496083551 0.070496084
#> TP53 0.233399887 0.0496595505 0.0943531460 0.134080786
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-78-7167-01 TCGA-78-7220-01 TCGA-78-7537-01 TCGA-78-7539-01
#> ARID1A 0.0138227615 0.1004454 0.023959453 0.046997389
#> ATM 0.0138227615 0.1004454 0.023959453 0.046997389
#> BRAF 0.0030717248 0.0223212 0.005324323 0.010443864
#> CDKN2A 0.0053755184 0.0390621 0.009317565 0.018276762
#> CMTR2 0.0130548303 0.0948651 0.022628372 0.044386423
#> CTNNB1 0.0007679312 0.0055803 0.001331081 0.002610966
#> EGFR 0.0230379358 0.1674090 0.039932422 0.078328982
#> KEAP1 0.0153586239 0.1116060 0.026621615 0.052219321
#> KRAS 0.0007679312 0.0055803 0.001331081 0.002610966
#> MGA 0.0191982798 0.1395075 0.033277018 0.065274151
#> NF1 0.0238058670 0.1729893 0.041263503 0.080939948
#> PIK3CA 0.0007679312 0.0055803 0.001331081 0.002610966
#> PTPRD 0.0107510367 0.0781242 0.018635130 0.036553525
#> PTPRT 0.0092151743 0.0669636 0.015972969 0.031331593
#> RB1 0.0145906927 0.1060257 0.025290534 0.049608355
#> RBM10 0.0222700046 0.1618287 0.038601341 0.075718016
#> SETBP1 0.0084472431 0.0613833 0.014641888 0.028720627
#> SETD2 0.0161265551 0.1171863 0.027952695 0.054830287
#> SMAD4 0.0053755184 0.0390621 0.009317565 0.018276762
#> SMARCA4 0.0161265551 0.1171863 0.027952695 0.054830287
#> STK11 0.0391644909 0.2845953 0.067885117 0.133159269
#> TP53 0.0744893258 0.5412891 0.129114831 0.253263708
#> U2AF1 0.0000000000 0.0000000 0.000000000 0.000000000
#> TCGA-78-7540-01 TCGA-78-7633-01 TCGA-78-8640-01 TCGA-78-8655-01
#> ARID1A 0.038703732 0.021194901 0.080172017 0.0129012440
#> ATM 0.038703732 0.021194901 0.080172017 0.0129012440
#> BRAF 0.008600829 0.004709978 0.017816004 0.0028669431
#> CDKN2A 0.015051451 0.008242461 0.031178006 0.0050171505
#> CMTR2 0.036553525 0.020017406 0.075718016 0.0121845083
#> CTNNB1 0.002150207 0.001177494 0.004454001 0.0007167358
#> EGFR 0.064506220 0.035324835 0.133620028 0.0215020734
#> KEAP1 0.043004147 0.023549890 0.089080018 0.0143347156
#> KRAS 0.002150207 0.001177494 0.004454001 0.0007167358
#> MGA 0.053755184 0.029437362 0.111350023 0.0179183945
#> NF1 0.066656428 0.036502329 0.138074029 0.0222188092
#> PIK3CA 0.002150207 0.001177494 0.004454001 0.0007167358
#> PTPRD 0.030102903 0.016484923 0.062356013 0.0100343009
#> PTPRT 0.025802488 0.014129934 0.053448011 0.0086008294
#> RB1 0.040853939 0.022372395 0.084626018 0.0136179798
#> RBM10 0.062356013 0.034147340 0.129166027 0.0207853376
#> SETBP1 0.023652281 0.012952439 0.048994010 0.0078840936
#> SETD2 0.045154354 0.024727384 0.093534019 0.0150514514
#> SMAD4 0.015051451 0.008242461 0.031178006 0.0050171505
#> SMARCA4 0.045154354 0.024727384 0.093534019 0.0150514514
#> STK11 0.109660574 0.060052219 0.227154047 0.0365535248
#> TP53 0.208570112 0.114216966 0.432038089 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-78-8660-01 TCGA-78-8662-01 TCGA-80-5607-01 TCGA-80-5608-01
#> ARID1A 0.030410075 0.11242513 0.018430349 0.058055598
#> ATM 0.030410075 0.11242513 0.018430349 0.058055598
#> BRAF 0.006757795 0.02498336 0.004095633 0.012901244
#> CDKN2A 0.011826140 0.04372088 0.007167358 0.022577177
#> CMTR2 0.028720627 0.10617929 0.017406440 0.054830287
#> CTNNB1 0.001689449 0.00624584 0.001023908 0.003225311
#> EGFR 0.050683459 0.18737521 0.030717248 0.096759330
#> KEAP1 0.033788973 0.12491681 0.020478165 0.064506220
#> KRAS 0.001689449 0.00624584 0.001023908 0.003225311
#> MGA 0.042236216 0.15614601 0.025597706 0.080632775
#> NF1 0.052372907 0.19362105 0.031741156 0.099984641
#> PIK3CA 0.001689449 0.00624584 0.001023908 0.003225311
#> PTPRD 0.023652281 0.08744177 0.014334716 0.045154354
#> PTPRT 0.020273384 0.07495008 0.012286899 0.038703732
#> RB1 0.032099524 0.11867097 0.019454257 0.061280909
#> RBM10 0.048994010 0.18112937 0.029693339 0.093534019
#> SETBP1 0.018583935 0.06870424 0.011262991 0.035478421
#> SETD2 0.035478421 0.13116265 0.021502073 0.067731531
#> SMAD4 0.011826140 0.04372088 0.007167358 0.022577177
#> SMARCA4 0.035478421 0.13116265 0.021502073 0.067731531
#> STK11 0.086161880 0.31853786 0.052219321 0.164490862
#> TP53 0.163876517 0.60584652 0.099319101 0.312855168
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-83-5908-01 TCGA-86-6851-01 TCGA-86-7711-01 TCGA-86-7713-01
#> ARID1A 0.030410075 0.108739057 0.030410075 0.022116418
#> ATM 0.030410075 0.108739057 0.030410075 0.022116418
#> BRAF 0.006757795 0.024164235 0.006757795 0.004914760
#> CDKN2A 0.011826140 0.042287411 0.011826140 0.008600829
#> CMTR2 0.028720627 0.102697998 0.028720627 0.020887728
#> CTNNB1 0.001689449 0.006041059 0.001689449 0.001228690
#> EGFR 0.050683459 0.181231762 0.050683459 0.036860697
#> KEAP1 0.033788973 0.120821174 0.033788973 0.024573798
#> KRAS 0.001689449 0.006041059 0.001689449 0.001228690
#> MGA 0.042236216 0.151026468 0.042236216 0.030717248
#> NF1 0.052372907 0.187272820 0.052372907 0.038089387
#> PIK3CA 0.001689449 0.006041059 0.001689449 0.001228690
#> PTPRD 0.023652281 0.084574822 0.023652281 0.017201659
#> PTPRT 0.020273384 0.072492705 0.020273384 0.014744279
#> RB1 0.032099524 0.114780116 0.032099524 0.023345108
#> RBM10 0.048994010 0.175190703 0.048994010 0.035632007
#> SETBP1 0.018583935 0.066451646 0.018583935 0.013515589
#> SETD2 0.035478421 0.126862233 0.035478421 0.025802488
#> SMAD4 0.011826140 0.042287411 0.011826140 0.008600829
#> SMARCA4 0.035478421 0.126862233 0.035478421 0.025802488
#> STK11 0.086161880 0.308093995 0.086161880 0.062663185
#> TP53 0.163876517 0.585982696 0.163876517 0.119182921
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-86-7714-01 TCGA-86-7953-01 TCGA-86-7954-01 TCGA-86-8054-01
#> ARID1A 0.0082936569 0.0036860697 0.021194901 0.023037936
#> ATM 0.0082936569 0.0036860697 0.021194901 0.023037936
#> BRAF 0.0018430349 0.0008191266 0.004709978 0.005119541
#> CDKN2A 0.0032253110 0.0014334716 0.008242461 0.008959197
#> CMTR2 0.0078328982 0.0034812881 0.020017406 0.021758050
#> CTNNB1 0.0004607587 0.0002047817 0.001177494 0.001279885
#> EGFR 0.0138227615 0.0061434495 0.035324835 0.038396560
#> KEAP1 0.0092151743 0.0040956330 0.023549890 0.025597706
#> KRAS 0.0004607587 0.0002047817 0.001177494 0.001279885
#> MGA 0.0115189679 0.0051195413 0.029437362 0.031997133
#> NF1 0.0142835202 0.0063482312 0.036502329 0.039676445
#> PIK3CA 0.0004607587 0.0002047817 0.001177494 0.001279885
#> PTPRD 0.0064506220 0.0028669431 0.016484923 0.017918395
#> PTPRT 0.0055291046 0.0024573798 0.014129934 0.015358624
#> RB1 0.0087544156 0.0038908514 0.022372395 0.024317821
#> RBM10 0.0133620028 0.0059386679 0.034147340 0.037116674
#> SETBP1 0.0050683459 0.0022525982 0.012952439 0.014078739
#> SETD2 0.0096759330 0.0043004147 0.024727384 0.026877592
#> SMAD4 0.0032253110 0.0014334716 0.008242461 0.008959197
#> SMARCA4 0.0096759330 0.0043004147 0.024727384 0.026877592
#> STK11 0.0234986945 0.0104438642 0.060052219 0.065274151
#> TP53 0.0446935955 0.0198638202 0.114216966 0.124148876
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-86-8055-01 TCGA-86-8056-01 TCGA-86-8074-01 TCGA-86-8075-01
#> ARID1A 9.215174e-04 0.022116418 0.0092151743 0.0055291046
#> ATM 9.215174e-04 0.022116418 0.0092151743 0.0055291046
#> BRAF 2.047817e-04 0.004914760 0.0020478165 0.0012286899
#> CDKN2A 3.583679e-04 0.008600829 0.0035836789 0.0021502073
#> CMTR2 8.703220e-04 0.020887728 0.0087032202 0.0052219321
#> CTNNB1 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> EGFR 1.535862e-03 0.036860697 0.0153586239 0.0092151743
#> KEAP1 1.023908e-03 0.024573798 0.0102390826 0.0061434495
#> KRAS 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> MGA 1.279885e-03 0.030717248 0.0127988532 0.0076793119
#> NF1 1.587058e-03 0.038089387 0.0158705780 0.0095223468
#> PIK3CA 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> PTPRD 7.167358e-04 0.017201659 0.0071673578 0.0043004147
#> PTPRT 6.143450e-04 0.014744279 0.0061434495 0.0036860697
#> RB1 9.727128e-04 0.023345108 0.0097271284 0.0058362771
#> RBM10 1.484667e-03 0.035632007 0.0148466697 0.0089080018
#> SETBP1 5.631495e-04 0.013515589 0.0056314954 0.0033788973
#> SETD2 1.075104e-03 0.025802488 0.0107510367 0.0064506220
#> SMAD4 3.583679e-04 0.008600829 0.0035836789 0.0021502073
#> SMARCA4 1.075104e-03 0.025802488 0.0107510367 0.0064506220
#> STK11 2.610966e-03 0.062663185 0.0261096606 0.0156657963
#> TP53 4.965955e-03 0.119182921 0.0496595505 0.0297957303
#> U2AF1 0.000000e+00 0.000000000 0.0000000000 0.0000000000
#> TCGA-86-8076-01 TCGA-86-8278-01 TCGA-86-8279-01 TCGA-86-8280-01
#> ARID1A 0.0046075872 0.011058209 0.052526494 9.215174e-04
#> ATM 0.0046075872 0.011058209 0.052526494 9.215174e-04
#> BRAF 0.0010239083 0.002457380 0.011672554 2.047817e-04
#> CDKN2A 0.0017918395 0.004300415 0.020426970 3.583679e-04
#> CMTR2 0.0043516101 0.010443864 0.049608355 8.703220e-04
#> CTNNB1 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> EGFR 0.0076793119 0.018430349 0.087544156 1.535862e-03
#> KEAP1 0.0051195413 0.012286899 0.058362771 1.023908e-03
#> KRAS 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> MGA 0.0063994266 0.015358624 0.072953463 1.279885e-03
#> NF1 0.0079352890 0.019044694 0.090462295 1.587058e-03
#> PIK3CA 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> PTPRD 0.0035836789 0.008600829 0.040853939 7.167358e-04
#> PTPRT 0.0030717248 0.007372139 0.035017662 6.143450e-04
#> RB1 0.0048635642 0.011672554 0.055444632 9.727128e-04
#> RBM10 0.0074233349 0.017816004 0.084626018 1.484667e-03
#> SETBP1 0.0028157477 0.006757795 0.032099524 5.631495e-04
#> SETD2 0.0053755184 0.012901244 0.061280909 1.075104e-03
#> SMAD4 0.0017918395 0.004300415 0.020426970 3.583679e-04
#> SMARCA4 0.0053755184 0.012901244 0.061280909 1.075104e-03
#> STK11 0.0130548303 0.031331593 0.148825065 2.610966e-03
#> TP53 0.0248297753 0.059591461 0.283059438 4.965955e-03
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000e+00
#> TCGA-86-8281-01 TCGA-86-8359-01 TCGA-86-8585-01 TCGA-86-8668-01
#> ARID1A 0.034096145 0.018430349 0.068192290 0.0046075872
#> ATM 0.034096145 0.018430349 0.068192290 0.0046075872
#> BRAF 0.007576921 0.004095633 0.015153842 0.0010239083
#> CDKN2A 0.013259612 0.007167358 0.026519224 0.0017918395
#> CMTR2 0.032201915 0.017406440 0.064403829 0.0043516101
#> CTNNB1 0.001894230 0.001023908 0.003788461 0.0002559771
#> EGFR 0.056826908 0.030717248 0.113653817 0.0076793119
#> KEAP1 0.037884606 0.020478165 0.075769211 0.0051195413
#> KRAS 0.001894230 0.001023908 0.003788461 0.0002559771
#> MGA 0.047355757 0.025597706 0.094711514 0.0063994266
#> NF1 0.058721139 0.031741156 0.117442277 0.0079352890
#> PIK3CA 0.001894230 0.001023908 0.003788461 0.0002559771
#> PTPRD 0.026519224 0.014334716 0.053038448 0.0035836789
#> PTPRT 0.022730763 0.012286899 0.045461527 0.0030717248
#> RB1 0.035990375 0.019454257 0.071980751 0.0048635642
#> RBM10 0.054932678 0.029693339 0.109865356 0.0074233349
#> SETBP1 0.020836533 0.011262991 0.041673066 0.0028157477
#> SETD2 0.039778836 0.021502073 0.079557672 0.0053755184
#> SMAD4 0.013259612 0.007167358 0.026519224 0.0017918395
#> SMARCA4 0.039778836 0.021502073 0.079557672 0.0053755184
#> STK11 0.096605744 0.052219321 0.193211488 0.0130548303
#> TP53 0.183740337 0.099319101 0.367480674 0.0248297753
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-86-8673-01 TCGA-86-8674-01 TCGA-86-A456-01 TCGA-86-A4JF-01
#> ARID1A 0.067270773 0.043311319 0.040546767 0.20549839
#> ATM 0.067270773 0.043311319 0.040546767 0.20549839
#> BRAF 0.014949061 0.009624738 0.009010393 0.04566631
#> CDKN2A 0.026160856 0.016843291 0.015768187 0.07991604
#> CMTR2 0.063533507 0.040905135 0.038294169 0.19408181
#> CTNNB1 0.003737265 0.002406184 0.002252598 0.01141658
#> EGFR 0.112117954 0.072185532 0.067577945 0.34249731
#> KEAP1 0.074745303 0.048123688 0.045051963 0.22833154
#> KRAS 0.003737265 0.002406184 0.002252598 0.01141658
#> MGA 0.093431629 0.060154610 0.056314954 0.28541443
#> NF1 0.115855219 0.074591717 0.069830543 0.35391389
#> PIK3CA 0.003737265 0.002406184 0.002252598 0.01141658
#> PTPRD 0.052321712 0.033686582 0.031536374 0.15983208
#> PTPRT 0.044847182 0.028874213 0.027031178 0.13699892
#> RB1 0.071008038 0.045717504 0.042799365 0.21691496
#> RBM10 0.108380689 0.069779348 0.065325347 0.33108074
#> SETBP1 0.041109917 0.026468028 0.024778580 0.12558235
#> SETD2 0.078482568 0.050529873 0.047304562 0.23974812
#> SMAD4 0.026160856 0.016843291 0.015768187 0.07991604
#> SMARCA4 0.078482568 0.050529873 0.047304562 0.23974812
#> STK11 0.190600522 0.122715405 0.114882507 0.58224543
#> TP53 0.362514719 0.233399887 0.218502022 1.00000000
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-86-A4P7-01 TCGA-91-6828-01 TCGA-91-6829-01 TCGA-91-6830-01
#> ARID1A 0.011058209 0.035017662 0.080172017 0.025802488
#> ATM 0.011058209 0.035017662 0.080172017 0.025802488
#> BRAF 0.002457380 0.007781703 0.017816004 0.005733886
#> CDKN2A 0.004300415 0.013617980 0.031178006 0.010034301
#> CMTR2 0.010443864 0.033072237 0.075718016 0.024369017
#> CTNNB1 0.000614345 0.001945426 0.004454001 0.001433472
#> EGFR 0.018430349 0.058362771 0.133620028 0.043004147
#> KEAP1 0.012286899 0.038908514 0.089080018 0.028669431
#> KRAS 0.000614345 0.001945426 0.004454001 0.001433472
#> MGA 0.015358624 0.048635642 0.111350023 0.035836789
#> NF1 0.019044694 0.060308196 0.138074029 0.044437618
#> PIK3CA 0.000614345 0.001945426 0.004454001 0.001433472
#> PTPRD 0.008600829 0.027235960 0.062356013 0.020068602
#> PTPRT 0.007372139 0.023345108 0.053448011 0.017201659
#> RB1 0.011672554 0.036963088 0.084626018 0.027235960
#> RBM10 0.017816004 0.056417345 0.129166027 0.041570675
#> SETBP1 0.006757795 0.021399683 0.048994010 0.015768187
#> SETD2 0.012901244 0.040853939 0.093534019 0.030102903
#> SMAD4 0.004300415 0.013617980 0.031178006 0.010034301
#> SMARCA4 0.012901244 0.040853939 0.093534019 0.030102903
#> STK11 0.031331593 0.099216710 0.227154047 0.073107050
#> TP53 0.059591461 0.188706292 0.432038089 0.139046741
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-91-6835-01 TCGA-91-6836-01 TCGA-91-6840-01 TCGA-91-6847-01
#> ARID1A 0.0082936569 0.062663185 0.011058209 0.0101366918
#> ATM 0.0082936569 0.062663185 0.011058209 0.0101366918
#> BRAF 0.0018430349 0.013925152 0.002457380 0.0022525982
#> CDKN2A 0.0032253110 0.024369017 0.004300415 0.0039420468
#> CMTR2 0.0078328982 0.059181897 0.010443864 0.0095735422
#> CTNNB1 0.0004607587 0.003481288 0.000614345 0.0005631495
#> EGFR 0.0138227615 0.104438642 0.018430349 0.0168944863
#> KEAP1 0.0092151743 0.069625762 0.012286899 0.0112629908
#> KRAS 0.0004607587 0.003481288 0.000614345 0.0005631495
#> MGA 0.0115189679 0.087032202 0.015358624 0.0140787385
#> NF1 0.0142835202 0.107919930 0.019044694 0.0174576358
#> PIK3CA 0.0004607587 0.003481288 0.000614345 0.0005631495
#> PTPRD 0.0064506220 0.048738033 0.008600829 0.0078840936
#> PTPRT 0.0055291046 0.041775457 0.007372139 0.0067577945
#> RB1 0.0087544156 0.066144473 0.011672554 0.0106998413
#> RBM10 0.0133620028 0.100957354 0.017816004 0.0163313367
#> SETBP1 0.0050683459 0.038294169 0.006757795 0.0061946450
#> SETD2 0.0096759330 0.073107050 0.012901244 0.0118261404
#> SMAD4 0.0032253110 0.024369017 0.004300415 0.0039420468
#> SMARCA4 0.0096759330 0.073107050 0.012901244 0.0118261404
#> STK11 0.0234986945 0.177545692 0.031331593 0.0287206266
#> TP53 0.0446935955 0.337684943 0.059591461 0.0546255056
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-91-6848-01 TCGA-91-6849-01 TCGA-91-A4BD-01 TCGA-93-7347-01
#> ARID1A 0.065427738 0.0175088312 0.0018430349 0.0129012440
#> ATM 0.065427738 0.0175088312 0.0018430349 0.0129012440
#> BRAF 0.014539497 0.0038908514 0.0004095633 0.0028669431
#> CDKN2A 0.025444120 0.0068089899 0.0007167358 0.0050171505
#> CMTR2 0.061792863 0.0165361184 0.0017406440 0.0121845083
#> CTNNB1 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> EGFR 0.109046229 0.0291813853 0.0030717248 0.0215020734
#> KEAP1 0.072697486 0.0194542569 0.0020478165 0.0143347156
#> KRAS 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> MGA 0.090871858 0.0243178211 0.0025597706 0.0179183945
#> NF1 0.112681104 0.0301540982 0.0031741156 0.0222188092
#> PIK3CA 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> PTPRD 0.050888240 0.0136179798 0.0014334716 0.0100343009
#> PTPRT 0.043618492 0.0116725541 0.0012286899 0.0086008294
#> RB1 0.069062612 0.0184815441 0.0019454257 0.0136179798
#> RBM10 0.105411355 0.0282086725 0.0029693339 0.0207853376
#> SETBP1 0.039983617 0.0106998413 0.0011262991 0.0078840936
#> SETD2 0.076332361 0.0204269697 0.0021502073 0.0150514514
#> SMAD4 0.025444120 0.0068089899 0.0007167358 0.0050171505
#> SMARCA4 0.076332361 0.0204269697 0.0021502073 0.0150514514
#> STK11 0.185378590 0.0496083551 0.0052219321 0.0365535248
#> TP53 0.352582809 0.0943531460 0.0099319101 0.0695233707
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> TCGA-93-7348-01 TCGA-93-8067-01 TCGA-93-A4JN-01 TCGA-93-A4JO-01
#> ARID1A 0.011058209 0.051604976 0.0101366918 0.0082936569
#> ATM 0.011058209 0.051604976 0.0101366918 0.0082936569
#> BRAF 0.002457380 0.011467772 0.0022525982 0.0018430349
#> CDKN2A 0.004300415 0.020068602 0.0039420468 0.0032253110
#> CMTR2 0.010443864 0.048738033 0.0095735422 0.0078328982
#> CTNNB1 0.000614345 0.002866943 0.0005631495 0.0004607587
#> EGFR 0.018430349 0.086008294 0.0168944863 0.0138227615
#> KEAP1 0.012286899 0.057338862 0.0112629908 0.0092151743
#> KRAS 0.000614345 0.002866943 0.0005631495 0.0004607587
#> MGA 0.015358624 0.071673578 0.0140787385 0.0115189679
#> NF1 0.019044694 0.088875237 0.0174576358 0.0142835202
#> PIK3CA 0.000614345 0.002866943 0.0005631495 0.0004607587
#> PTPRD 0.008600829 0.040137204 0.0078840936 0.0064506220
#> PTPRT 0.007372139 0.034403317 0.0067577945 0.0055291046
#> RB1 0.011672554 0.054471919 0.0106998413 0.0087544156
#> RBM10 0.017816004 0.083141351 0.0163313367 0.0133620028
#> SETBP1 0.006757795 0.031536374 0.0061946450 0.0050683459
#> SETD2 0.012901244 0.060205806 0.0118261404 0.0096759330
#> SMAD4 0.004300415 0.020068602 0.0039420468 0.0032253110
#> SMARCA4 0.012901244 0.060205806 0.0118261404 0.0096759330
#> STK11 0.031331593 0.146214099 0.0287206266 0.0234986945
#> TP53 0.059591461 0.278093483 0.0546255056 0.0446935955
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-93-A4JP-01 TCGA-95-7039-01 TCGA-95-7043-01 TCGA-95-7562-01
#> ARID1A 0.0073721395 0.161265551 0.141913685 0.070035325
#> ATM 0.0073721395 0.161265551 0.141913685 0.070035325
#> BRAF 0.0016382532 0.035836789 0.031536374 0.015563406
#> CDKN2A 0.0028669431 0.062714381 0.055188655 0.027235960
#> CMTR2 0.0069625762 0.152306353 0.134029591 0.066144473
#> CTNNB1 0.0004095633 0.008959197 0.007884094 0.003890851
#> EGFR 0.0122868991 0.268775918 0.236522808 0.116725541
#> KEAP1 0.0081912661 0.179183945 0.157681872 0.077817028
#> KRAS 0.0004095633 0.008959197 0.007884094 0.003890851
#> MGA 0.0102390826 0.223979931 0.197102340 0.097271284
#> NF1 0.0126964624 0.277735115 0.244406901 0.120616393
#> PIK3CA 0.0004095633 0.008959197 0.007884094 0.003890851
#> PTPRD 0.0057338862 0.125428762 0.110377310 0.054471919
#> PTPRT 0.0049147596 0.107510367 0.094609123 0.046690217
#> RB1 0.0077817028 0.170224748 0.149797778 0.073926176
#> RBM10 0.0118773358 0.259816720 0.228638714 0.112834690
#> SETBP1 0.0045051963 0.098551170 0.086725029 0.042799365
#> SETD2 0.0086008294 0.188143142 0.165565965 0.081707879
#> SMAD4 0.0028669431 0.062714381 0.055188655 0.027235960
#> SMARCA4 0.0086008294 0.188143142 0.165565965 0.081707879
#> STK11 0.0208877285 0.456919060 0.402088773 0.198433420
#> TP53 0.0397276404 0.869042134 0.764757078 0.377412584
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-95-7567-01 TCGA-95-7944-01 TCGA-95-7947-01 TCGA-95-7948-01
#> ARID1A 0.111503609 0.018430349 0.048840424 0.0175088312
#> ATM 0.111503609 0.018430349 0.048840424 0.0175088312
#> BRAF 0.024778580 0.004095633 0.010853428 0.0038908514
#> CDKN2A 0.043362515 0.007167358 0.018993498 0.0068089899
#> CMTR2 0.105308964 0.017406440 0.046127067 0.0165361184
#> CTNNB1 0.006194645 0.001023908 0.002713357 0.0009727128
#> EGFR 0.185839349 0.030717248 0.081400706 0.0291813853
#> KEAP1 0.123892899 0.020478165 0.054267138 0.0194542569
#> KRAS 0.006194645 0.001023908 0.002713357 0.0009727128
#> MGA 0.154866124 0.025597706 0.067833922 0.0243178211
#> NF1 0.192033994 0.031741156 0.084114063 0.0301540982
#> PIK3CA 0.006194645 0.001023908 0.002713357 0.0009727128
#> PTPRD 0.086725029 0.014334716 0.037986996 0.0136179798
#> PTPRT 0.074335740 0.012286899 0.032560283 0.0116725541
#> RB1 0.117698254 0.019454257 0.051553781 0.0184815441
#> RBM10 0.179644704 0.029693339 0.078687350 0.0282086725
#> SETBP1 0.068141095 0.011262991 0.029846926 0.0106998413
#> SETD2 0.130087544 0.021502073 0.056980495 0.0204269697
#> SMAD4 0.043362515 0.007167358 0.018993498 0.0068089899
#> SMARCA4 0.130087544 0.021502073 0.056980495 0.0204269697
#> STK11 0.315926893 0.052219321 0.138381201 0.0496083551
#> TP53 0.600880561 0.099319101 0.263195618 0.0943531460
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-95-A4VK-01 TCGA-95-A4VN-01 TCGA-95-A4VP-01 TCGA-97-7546-01
#> ARID1A 0.025802488 0.05621256 0.0101366918 0.032253110
#> ATM 0.025802488 0.05621256 0.0101366918 0.032253110
#> BRAF 0.005733886 0.01249168 0.0022525982 0.007167358
#> CDKN2A 0.010034301 0.02186044 0.0039420468 0.012542876
#> CMTR2 0.024369017 0.05308964 0.0095735422 0.030461271
#> CTNNB1 0.001433472 0.00312292 0.0005631495 0.001791839
#> EGFR 0.043004147 0.09368761 0.0168944863 0.053755184
#> KEAP1 0.028669431 0.06245840 0.0112629908 0.035836789
#> KRAS 0.001433472 0.00312292 0.0005631495 0.001791839
#> MGA 0.035836789 0.07807300 0.0140787385 0.044795986
#> NF1 0.044437618 0.09681053 0.0174576358 0.055547023
#> PIK3CA 0.001433472 0.00312292 0.0005631495 0.001791839
#> PTPRD 0.020068602 0.04372088 0.0078840936 0.025085752
#> PTPRT 0.017201659 0.03747504 0.0067577945 0.021502073
#> RB1 0.027235960 0.05933548 0.0106998413 0.034044950
#> RBM10 0.041570675 0.09056469 0.0163313367 0.051963344
#> SETBP1 0.015768187 0.03435212 0.0061946450 0.019710234
#> SETD2 0.030102903 0.06558132 0.0118261404 0.037628628
#> SMAD4 0.010034301 0.02186044 0.0039420468 0.012542876
#> SMARCA4 0.030102903 0.06558132 0.0118261404 0.037628628
#> STK11 0.073107050 0.15926893 0.0287206266 0.091383812
#> TP53 0.139046741 0.30292326 0.0546255056 0.173808427
#> U2AF1 0.000000000 0.00000000 0.0000000000 0.000000000
#> TCGA-97-7553-01 TCGA-97-7554-01 TCGA-97-7937-01 TCGA-97-7938-01
#> ARID1A 0.0119797266 0.046997389 0.063584703 0.044232837
#> ATM 0.0119797266 0.046997389 0.063584703 0.044232837
#> BRAF 0.0026621615 0.010443864 0.014129934 0.009829519
#> CDKN2A 0.0046587826 0.018276762 0.024727384 0.017201659
#> CMTR2 0.0113141862 0.044386423 0.060052219 0.041775457
#> CTNNB1 0.0006655404 0.002610966 0.003532483 0.002457380
#> EGFR 0.0199662110 0.078328982 0.105974505 0.073721395
#> KEAP1 0.0133108074 0.052219321 0.070649670 0.049147596
#> KRAS 0.0006655404 0.002610966 0.003532483 0.002457380
#> MGA 0.0166385092 0.065274151 0.088312087 0.061434495
#> NF1 0.0206317514 0.080939948 0.109506988 0.076178774
#> PIK3CA 0.0006655404 0.002610966 0.003532483 0.002457380
#> PTPRD 0.0093175651 0.036553525 0.049454769 0.034403317
#> PTPRT 0.0079864844 0.031331593 0.042389802 0.029488558
#> RB1 0.0126452670 0.049608355 0.067117186 0.046690217
#> RBM10 0.0193006707 0.075718016 0.102442021 0.071264015
#> SETBP1 0.0073209440 0.028720627 0.038857318 0.027031178
#> SETD2 0.0139763477 0.054830287 0.074182153 0.051604976
#> SMAD4 0.0046587826 0.018276762 0.024727384 0.017201659
#> SMARCA4 0.0139763477 0.054830287 0.074182153 0.051604976
#> STK11 0.0339425587 0.133159269 0.180156658 0.125326371
#> TP53 0.0645574157 0.253263708 0.342650898 0.238365842
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-97-7941-01 TCGA-97-8171-01 TCGA-97-8174-01 TCGA-97-8175-01
#> ARID1A 0.0138227615 0.0064506220 0.020273384 0.0036860697
#> ATM 0.0138227615 0.0064506220 0.020273384 0.0036860697
#> BRAF 0.0030717248 0.0014334716 0.004505196 0.0008191266
#> CDKN2A 0.0053755184 0.0025085752 0.007884094 0.0014334716
#> CMTR2 0.0130548303 0.0060922541 0.019147084 0.0034812881
#> CTNNB1 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> EGFR 0.0230379358 0.0107510367 0.033788973 0.0061434495
#> KEAP1 0.0153586239 0.0071673578 0.022525982 0.0040956330
#> KRAS 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> MGA 0.0191982798 0.0089591973 0.028157477 0.0051195413
#> NF1 0.0238058670 0.0111094046 0.034915272 0.0063482312
#> PIK3CA 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> PTPRD 0.0107510367 0.0050171505 0.015768187 0.0028669431
#> PTPRT 0.0092151743 0.0043004147 0.013515589 0.0024573798
#> RB1 0.0145906927 0.0068089899 0.021399683 0.0038908514
#> RBM10 0.0222700046 0.0103926688 0.032662673 0.0059386679
#> SETBP1 0.0084472431 0.0039420468 0.012389290 0.0022525982
#> SETD2 0.0161265551 0.0075257257 0.023652281 0.0043004147
#> SMAD4 0.0053755184 0.0025085752 0.007884094 0.0014334716
#> SMARCA4 0.0161265551 0.0075257257 0.023652281 0.0043004147
#> STK11 0.0391644909 0.0182767624 0.057441253 0.0104438642
#> TP53 0.0744893258 0.0347616854 0.109251011 0.0198638202
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-97-8176-01 TCGA-97-8177-01 TCGA-97-8179-01 TCGA-97-8547-01
#> ARID1A 0.022116418 0.0027645523 0.023959453 0.0082936569
#> ATM 0.022116418 0.0027645523 0.023959453 0.0082936569
#> BRAF 0.004914760 0.0006143450 0.005324323 0.0018430349
#> CDKN2A 0.008600829 0.0010751037 0.009317565 0.0032253110
#> CMTR2 0.020887728 0.0026109661 0.022628372 0.0078328982
#> CTNNB1 0.001228690 0.0001535862 0.001331081 0.0004607587
#> EGFR 0.036860697 0.0046075872 0.039932422 0.0138227615
#> KEAP1 0.024573798 0.0030717248 0.026621615 0.0092151743
#> KRAS 0.001228690 0.0001535862 0.001331081 0.0004607587
#> MGA 0.030717248 0.0038396560 0.033277018 0.0115189679
#> NF1 0.038089387 0.0047611734 0.041263503 0.0142835202
#> PIK3CA 0.001228690 0.0001535862 0.001331081 0.0004607587
#> PTPRD 0.017201659 0.0021502073 0.018635130 0.0064506220
#> PTPRT 0.014744279 0.0018430349 0.015972969 0.0055291046
#> RB1 0.023345108 0.0029181385 0.025290534 0.0087544156
#> RBM10 0.035632007 0.0044540009 0.038601341 0.0133620028
#> SETBP1 0.013515589 0.0016894486 0.014641888 0.0050683459
#> SETD2 0.025802488 0.0032253110 0.027952695 0.0096759330
#> SMAD4 0.008600829 0.0010751037 0.009317565 0.0032253110
#> SMARCA4 0.025802488 0.0032253110 0.027952695 0.0096759330
#> STK11 0.062663185 0.0078328982 0.067885117 0.0234986945
#> TP53 0.119182921 0.0148978652 0.129114831 0.0446935955
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-97-A4LX-01 TCGA-97-A4M0-01 TCGA-97-A4M1-01 TCGA-97-A4M3-01
#> ARID1A 0.0129012440 0.042389802 0.0018430349 0.020273384
#> ATM 0.0129012440 0.042389802 0.0018430349 0.020273384
#> BRAF 0.0028669431 0.009419956 0.0004095633 0.004505196
#> CDKN2A 0.0050171505 0.016484923 0.0007167358 0.007884094
#> CMTR2 0.0121845083 0.040034813 0.0017406440 0.019147084
#> CTNNB1 0.0007167358 0.002354989 0.0001023908 0.001126299
#> EGFR 0.0215020734 0.070649670 0.0030717248 0.033788973
#> KEAP1 0.0143347156 0.047099780 0.0020478165 0.022525982
#> KRAS 0.0007167358 0.002354989 0.0001023908 0.001126299
#> MGA 0.0179183945 0.058874725 0.0025597706 0.028157477
#> NF1 0.0222188092 0.073004659 0.0031741156 0.034915272
#> PIK3CA 0.0007167358 0.002354989 0.0001023908 0.001126299
#> PTPRD 0.0100343009 0.032969846 0.0014334716 0.015768187
#> PTPRT 0.0086008294 0.028259868 0.0012286899 0.013515589
#> RB1 0.0136179798 0.044744791 0.0019454257 0.021399683
#> RBM10 0.0207853376 0.068294681 0.0029693339 0.032662673
#> SETBP1 0.0078840936 0.025904879 0.0011262991 0.012389290
#> SETD2 0.0150514514 0.049454769 0.0021502073 0.023652281
#> SMAD4 0.0050171505 0.016484923 0.0007167358 0.007884094
#> SMARCA4 0.0150514514 0.049454769 0.0021502073 0.023652281
#> STK11 0.0365535248 0.120104439 0.0052219321 0.057441253
#> TP53 0.0695233707 0.228433932 0.0099319101 0.109251011
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-97-A4M5-01 TCGA-97-A4M7-01 TCGA-99-8025-01 TCGA-99-8028-01
#> ARID1A 0.023959453 0.034096145 0.040546767 0.052526494
#> ATM 0.023959453 0.034096145 0.040546767 0.052526494
#> BRAF 0.005324323 0.007576921 0.009010393 0.011672554
#> CDKN2A 0.009317565 0.013259612 0.015768187 0.020426970
#> CMTR2 0.022628372 0.032201915 0.038294169 0.049608355
#> CTNNB1 0.001331081 0.001894230 0.002252598 0.002918139
#> EGFR 0.039932422 0.056826908 0.067577945 0.087544156
#> KEAP1 0.026621615 0.037884606 0.045051963 0.058362771
#> KRAS 0.001331081 0.001894230 0.002252598 0.002918139
#> MGA 0.033277018 0.047355757 0.056314954 0.072953463
#> NF1 0.041263503 0.058721139 0.069830543 0.090462295
#> PIK3CA 0.001331081 0.001894230 0.002252598 0.002918139
#> PTPRD 0.018635130 0.026519224 0.031536374 0.040853939
#> PTPRT 0.015972969 0.022730763 0.027031178 0.035017662
#> RB1 0.025290534 0.035990375 0.042799365 0.055444632
#> RBM10 0.038601341 0.054932678 0.065325347 0.084626018
#> SETBP1 0.014641888 0.020836533 0.024778580 0.032099524
#> SETD2 0.027952695 0.039778836 0.047304562 0.061280909
#> SMAD4 0.009317565 0.013259612 0.015768187 0.020426970
#> SMARCA4 0.027952695 0.039778836 0.047304562 0.061280909
#> STK11 0.067885117 0.096605744 0.114882507 0.148825065
#> TP53 0.129114831 0.183740337 0.218502022 0.283059438
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-99-8032-01 TCGA-99-8033-01 TCGA-J2-8194-01 TCGA-J2-A4AD-01
#> ARID1A 0.065427738 0.024880971 0.0138227615 0.038703732
#> ATM 0.065427738 0.024880971 0.0138227615 0.038703732
#> BRAF 0.014539497 0.005529105 0.0030717248 0.008600829
#> CDKN2A 0.025444120 0.009675933 0.0053755184 0.015051451
#> CMTR2 0.061792863 0.023498695 0.0130548303 0.036553525
#> CTNNB1 0.003634874 0.001382276 0.0007679312 0.002150207
#> EGFR 0.109046229 0.041468284 0.0230379358 0.064506220
#> KEAP1 0.072697486 0.027645523 0.0153586239 0.043004147
#> KRAS 0.003634874 0.001382276 0.0007679312 0.002150207
#> MGA 0.090871858 0.034556904 0.0191982798 0.053755184
#> NF1 0.112681104 0.042850561 0.0238058670 0.066656428
#> PIK3CA 0.003634874 0.001382276 0.0007679312 0.002150207
#> PTPRD 0.050888240 0.019351866 0.0107510367 0.030102903
#> PTPRT 0.043618492 0.016587314 0.0092151743 0.025802488
#> RB1 0.069062612 0.026263247 0.0145906927 0.040853939
#> RBM10 0.105411355 0.040086008 0.0222700046 0.062356013
#> SETBP1 0.039983617 0.015205038 0.0084472431 0.023652281
#> SETD2 0.076332361 0.029027799 0.0161265551 0.045154354
#> SMAD4 0.025444120 0.009675933 0.0053755184 0.015051451
#> SMARCA4 0.076332361 0.029027799 0.0161265551 0.045154354
#> STK11 0.185378590 0.070496084 0.0391644909 0.109660574
#> TP53 0.352582809 0.134080786 0.0744893258 0.208570112
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-J2-A4AG-01 TCGA-L4-A4E5-01 TCGA-L9-A443-01 TCGA-L9-A444-01
#> ARID1A 0.0147442789 0.040546767 0.035017662 0.059898633
#> ATM 0.0147442789 0.040546767 0.035017662 0.059898633
#> BRAF 0.0032765064 0.009010393 0.007781703 0.013310807
#> CDKN2A 0.0057338862 0.015768187 0.013617980 0.023293913
#> CMTR2 0.0139251523 0.038294169 0.033072237 0.056570931
#> CTNNB1 0.0008191266 0.002252598 0.001945426 0.003327702
#> EGFR 0.0245737982 0.067577945 0.058362771 0.099831055
#> KEAP1 0.0163825321 0.045051963 0.038908514 0.066554037
#> KRAS 0.0008191266 0.002252598 0.001945426 0.003327702
#> MGA 0.0204781652 0.056314954 0.048635642 0.083192546
#> NF1 0.0253929248 0.069830543 0.060308196 0.103158757
#> PIK3CA 0.0008191266 0.002252598 0.001945426 0.003327702
#> PTPRD 0.0114677725 0.031536374 0.027235960 0.046587826
#> PTPRT 0.0098295193 0.027031178 0.023345108 0.039932422
#> RB1 0.0155634055 0.042799365 0.036963088 0.063226335
#> RBM10 0.0237546716 0.065325347 0.056417345 0.096503353
#> SETBP1 0.0090103927 0.024778580 0.021399683 0.036604720
#> SETD2 0.0172016587 0.047304562 0.040853939 0.069881739
#> SMAD4 0.0057338862 0.015768187 0.013617980 0.023293913
#> SMARCA4 0.0172016587 0.047304562 0.040853939 0.069881739
#> STK11 0.0417754569 0.114882507 0.099216710 0.169712794
#> TP53 0.0794552808 0.218502022 0.188706292 0.322787078
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-L9-A50W-01 TCGA-L9-A5IP-01 TCGA-L9-A743-01 TCGA-L9-A7SV-01
#> ARID1A 0.0046075872 0.029488558 0.0092151743 0.164951620
#> ATM 0.0046075872 0.029488558 0.0092151743 0.164951620
#> BRAF 0.0010239083 0.006553013 0.0020478165 0.036655916
#> CDKN2A 0.0017918395 0.011467772 0.0035836789 0.064147852
#> CMTR2 0.0043516101 0.027850305 0.0087032202 0.155787641
#> CTNNB1 0.0002559771 0.001638253 0.0005119541 0.009163979
#> EGFR 0.0076793119 0.049147596 0.0153586239 0.274919367
#> KEAP1 0.0051195413 0.032765064 0.0102390826 0.183279578
#> KRAS 0.0002559771 0.001638253 0.0005119541 0.009163979
#> MGA 0.0063994266 0.040956330 0.0127988532 0.229099473
#> NF1 0.0079352890 0.050785850 0.0158705780 0.284083346
#> PIK3CA 0.0002559771 0.001638253 0.0005119541 0.009163979
#> PTPRD 0.0035836789 0.022935545 0.0071673578 0.128295705
#> PTPRT 0.0030717248 0.019659039 0.0061434495 0.109967747
#> RB1 0.0048635642 0.031126811 0.0097271284 0.174115599
#> RBM10 0.0074233349 0.047509343 0.0148466697 0.265755388
#> SETBP1 0.0028157477 0.018020785 0.0056314954 0.100803768
#> SETD2 0.0053755184 0.034403317 0.0107510367 0.192443557
#> SMAD4 0.0017918395 0.011467772 0.0035836789 0.064147852
#> SMARCA4 0.0053755184 0.034403317 0.0107510367 0.192443557
#> STK11 0.0130548303 0.083550914 0.0261096606 0.467362924
#> TP53 0.0248297753 0.158910562 0.0496595505 0.888905954
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-L9-A8F4-01 TCGA-MN-A4N1-01 TCGA-MN-A4N4-01 TCGA-MN-A4N5-01
#> ARID1A 0.086622639 0.049761941 0.168637690 0.057134081
#> ATM 0.086622639 0.049761941 0.168637690 0.057134081
#> BRAF 0.019249475 0.011058209 0.037475042 0.012696462
#> CDKN2A 0.033686582 0.019351866 0.065581324 0.022218809
#> CMTR2 0.081810270 0.046997389 0.159268930 0.053959965
#> CTNNB1 0.004812369 0.002764552 0.009368761 0.003174116
#> EGFR 0.144371064 0.082936569 0.281062817 0.095223468
#> KEAP1 0.096247376 0.055291046 0.187375211 0.063482312
#> KRAS 0.004812369 0.002764552 0.009368761 0.003174116
#> MGA 0.120309220 0.069113807 0.234219014 0.079352890
#> NF1 0.149183433 0.085701121 0.290431577 0.098397584
#> PIK3CA 0.004812369 0.002764552 0.009368761 0.003174116
#> PTPRD 0.067373163 0.038703732 0.131162648 0.044437618
#> PTPRT 0.057748426 0.033174628 0.112425127 0.038089387
#> RB1 0.091435007 0.052526494 0.178006451 0.060308196
#> RBM10 0.139558696 0.080172017 0.271694056 0.092049352
#> SETBP1 0.052936057 0.030410075 0.103056366 0.034915272
#> SETD2 0.101059745 0.058055598 0.196743972 0.066656428
#> SMAD4 0.033686582 0.019351866 0.065581324 0.022218809
#> SMARCA4 0.101059745 0.058055598 0.196743972 0.066656428
#> STK11 0.245430809 0.140992167 0.477806789 0.161879896
#> TP53 0.466799775 0.268161573 0.908769774 0.307889213
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-MP-A4SV-01 TCGA-MP-A4SW-01 TCGA-MP-A4SY-01 TCGA-MP-A4T4-01
#> ARID1A 0.033174628 0.0082936569 0.0165873138 0.039625250
#> ATM 0.033174628 0.0082936569 0.0165873138 0.039625250
#> BRAF 0.007372139 0.0018430349 0.0036860697 0.008805611
#> CDKN2A 0.012901244 0.0032253110 0.0064506220 0.015409819
#> CMTR2 0.031331593 0.0078328982 0.0156657963 0.037423847
#> CTNNB1 0.001843035 0.0004607587 0.0009215174 0.002201403
#> EGFR 0.055291046 0.0138227615 0.0276455230 0.066042083
#> KEAP1 0.036860697 0.0092151743 0.0184303486 0.044028055
#> KRAS 0.001843035 0.0004607587 0.0009215174 0.002201403
#> MGA 0.046075872 0.0115189679 0.0230379358 0.055035069
#> NF1 0.057134081 0.0142835202 0.0285670404 0.068243485
#> PIK3CA 0.001843035 0.0004607587 0.0009215174 0.002201403
#> PTPRD 0.025802488 0.0064506220 0.0129012440 0.030819639
#> PTPRT 0.022116418 0.0055291046 0.0110582092 0.026416833
#> RB1 0.035017662 0.0087544156 0.0175088312 0.041826652
#> RBM10 0.053448011 0.0133620028 0.0267240055 0.063840680
#> SETBP1 0.020273384 0.0050683459 0.0101366918 0.024215430
#> SETD2 0.038703732 0.0096759330 0.0193518661 0.046229458
#> SMAD4 0.012901244 0.0032253110 0.0064506220 0.015409819
#> SMARCA4 0.038703732 0.0096759330 0.0193518661 0.046229458
#> STK11 0.093994778 0.0234986945 0.0469973890 0.112271540
#> TP53 0.178774382 0.0446935955 0.0893871909 0.213536067
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-MP-A4T7-01 TCGA-MP-A4T8-01 TCGA-MP-A4T9-01 TCGA-MP-A4TA-01
#> ARID1A 0.0129012440 0.0147442789 0.0027645523 0.046997389
#> ATM 0.0129012440 0.0147442789 0.0027645523 0.046997389
#> BRAF 0.0028669431 0.0032765064 0.0006143450 0.010443864
#> CDKN2A 0.0050171505 0.0057338862 0.0010751037 0.018276762
#> CMTR2 0.0121845083 0.0139251523 0.0026109661 0.044386423
#> CTNNB1 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> EGFR 0.0215020734 0.0245737982 0.0046075872 0.078328982
#> KEAP1 0.0143347156 0.0163825321 0.0030717248 0.052219321
#> KRAS 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> MGA 0.0179183945 0.0204781652 0.0038396560 0.065274151
#> NF1 0.0222188092 0.0253929248 0.0047611734 0.080939948
#> PIK3CA 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> PTPRD 0.0100343009 0.0114677725 0.0021502073 0.036553525
#> PTPRT 0.0086008294 0.0098295193 0.0018430349 0.031331593
#> RB1 0.0136179798 0.0155634055 0.0029181385 0.049608355
#> RBM10 0.0207853376 0.0237546716 0.0044540009 0.075718016
#> SETBP1 0.0078840936 0.0090103927 0.0016894486 0.028720627
#> SETD2 0.0150514514 0.0172016587 0.0032253110 0.054830287
#> SMAD4 0.0050171505 0.0057338862 0.0010751037 0.018276762
#> SMARCA4 0.0150514514 0.0172016587 0.0032253110 0.054830287
#> STK11 0.0365535248 0.0417754569 0.0078328982 0.133159269
#> TP53 0.0695233707 0.0794552808 0.0148978652 0.253263708
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-MP-A4TD-01 TCGA-MP-A4TE-01 TCGA-MP-A4TF-01 TCGA-MP-A4TI-01
#> ARID1A 0.0101366918 0.015665796 0.046075872 0.022116418
#> ATM 0.0101366918 0.015665796 0.046075872 0.022116418
#> BRAF 0.0022525982 0.003481288 0.010239083 0.004914760
#> CDKN2A 0.0039420468 0.006092254 0.017918395 0.008600829
#> CMTR2 0.0095735422 0.014795474 0.043516101 0.020887728
#> CTNNB1 0.0005631495 0.000870322 0.002559771 0.001228690
#> EGFR 0.0168944863 0.026109661 0.076793119 0.036860697
#> KEAP1 0.0112629908 0.017406440 0.051195413 0.024573798
#> KRAS 0.0005631495 0.000870322 0.002559771 0.001228690
#> MGA 0.0140787385 0.021758050 0.063994266 0.030717248
#> NF1 0.0174576358 0.026979983 0.079352890 0.038089387
#> PIK3CA 0.0005631495 0.000870322 0.002559771 0.001228690
#> PTPRD 0.0078840936 0.012184508 0.035836789 0.017201659
#> PTPRT 0.0067577945 0.010443864 0.030717248 0.014744279
#> RB1 0.0106998413 0.016536118 0.048635642 0.023345108
#> RBM10 0.0163313367 0.025239339 0.074233349 0.035632007
#> SETBP1 0.0061946450 0.009573542 0.028157477 0.013515589
#> SETD2 0.0118261404 0.018276762 0.053755184 0.025802488
#> SMAD4 0.0039420468 0.006092254 0.017918395 0.008600829
#> SMARCA4 0.0118261404 0.018276762 0.053755184 0.025802488
#> STK11 0.0287206266 0.044386423 0.130548303 0.062663185
#> TP53 0.0546255056 0.084421236 0.248297753 0.119182921
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-MP-A4TK-01 TCGA-NJ-A4YG-01 TCGA-NJ-A4YI-01 TCGA-NJ-A4YP-01
#> ARID1A 0.040546767 0.0138227615 0.058055598 0.069113807
#> ATM 0.040546767 0.0138227615 0.058055598 0.069113807
#> BRAF 0.009010393 0.0030717248 0.012901244 0.015358624
#> CDKN2A 0.015768187 0.0053755184 0.022577177 0.026877592
#> CMTR2 0.038294169 0.0130548303 0.054830287 0.065274151
#> CTNNB1 0.002252598 0.0007679312 0.003225311 0.003839656
#> EGFR 0.067577945 0.0230379358 0.096759330 0.115189679
#> KEAP1 0.045051963 0.0153586239 0.064506220 0.076793119
#> KRAS 0.002252598 0.0007679312 0.003225311 0.003839656
#> MGA 0.056314954 0.0191982798 0.080632775 0.095991399
#> NF1 0.069830543 0.0238058670 0.099984641 0.119029335
#> PIK3CA 0.002252598 0.0007679312 0.003225311 0.003839656
#> PTPRD 0.031536374 0.0107510367 0.045154354 0.053755184
#> PTPRT 0.027031178 0.0092151743 0.038703732 0.046075872
#> RB1 0.042799365 0.0145906927 0.061280909 0.072953463
#> RBM10 0.065325347 0.0222700046 0.093534019 0.111350023
#> SETBP1 0.024778580 0.0084472431 0.035478421 0.042236216
#> SETD2 0.047304562 0.0161265551 0.067731531 0.080632775
#> SMAD4 0.015768187 0.0053755184 0.022577177 0.026877592
#> SMARCA4 0.047304562 0.0161265551 0.067731531 0.080632775
#> STK11 0.114882507 0.0391644909 0.164490862 0.195822454
#> TP53 0.218502022 0.0744893258 0.312855168 0.372446629
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-NJ-A4YQ-01 TCGA-NJ-A55O-01 TCGA-NJ-A55R-01 TCGA-05-4398-01
#> ARID1A 0.136384580 0.0147442789 0.035939180 0.09030871
#> ATM 0.136384580 0.0147442789 0.035939180 0.09030871
#> BRAF 0.030307684 0.0032765064 0.007986484 0.02006860
#> CDKN2A 0.053038448 0.0057338862 0.013976348 0.03512005
#> CMTR2 0.128807659 0.0139251523 0.033942559 0.08529156
#> CTNNB1 0.007576921 0.0008191266 0.001996621 0.00501715
#> EGFR 0.227307633 0.0245737982 0.059898633 0.15051451
#> KEAP1 0.151538422 0.0163825321 0.039932422 0.10034301
#> KRAS 0.007576921 0.0008191266 0.001996621 0.00501715
#> MGA 0.189423028 0.0204781652 0.049915528 0.12542876
#> NF1 0.234884554 0.0253929248 0.061895254 0.15553166
#> PIK3CA 0.007576921 0.0008191266 0.001996621 0.00501715
#> PTPRD 0.106076896 0.0114677725 0.027952695 0.07024011
#> PTPRT 0.090923053 0.0098295193 0.023959453 0.06020581
#> RB1 0.143961501 0.0155634055 0.037935801 0.09532586
#> RBM10 0.219730712 0.0237546716 0.057902012 0.14549736
#> SETBP1 0.083346132 0.0090103927 0.021962832 0.05518866
#> SETD2 0.159115343 0.0172016587 0.041929043 0.10536016
#> SMAD4 0.053038448 0.0057338862 0.013976348 0.03512005
#> SMARCA4 0.159115343 0.0172016587 0.041929043 0.10536016
#> STK11 0.386422977 0.0417754569 0.101827676 0.25587467
#> TP53 0.734961347 0.0794552808 0.193672247 0.48666359
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.00000000
#> TCGA-05-4402-01 TCGA-05-4424-01 TCGA-05-4426-01 TCGA-05-4434-01
#> ARID1A 0.015665796 0.080172017 0.0064506220 0.0101366918
#> ATM 0.015665796 0.080172017 0.0064506220 0.0101366918
#> BRAF 0.003481288 0.017816004 0.0014334716 0.0022525982
#> CDKN2A 0.006092254 0.031178006 0.0025085752 0.0039420468
#> CMTR2 0.014795474 0.075718016 0.0060922541 0.0095735422
#> CTNNB1 0.000870322 0.004454001 0.0003583679 0.0005631495
#> EGFR 0.026109661 0.133620028 0.0107510367 0.0168944863
#> KEAP1 0.017406440 0.089080018 0.0071673578 0.0112629908
#> KRAS 0.000870322 0.004454001 0.0003583679 0.0005631495
#> MGA 0.021758050 0.111350023 0.0089591973 0.0140787385
#> NF1 0.026979983 0.138074029 0.0111094046 0.0174576358
#> PIK3CA 0.000870322 0.004454001 0.0003583679 0.0005631495
#> PTPRD 0.012184508 0.062356013 0.0050171505 0.0078840936
#> PTPRT 0.010443864 0.053448011 0.0043004147 0.0067577945
#> RB1 0.016536118 0.084626018 0.0068089899 0.0106998413
#> RBM10 0.025239339 0.129166027 0.0103926688 0.0163313367
#> SETBP1 0.009573542 0.048994010 0.0039420468 0.0061946450
#> SETD2 0.018276762 0.093534019 0.0075257257 0.0118261404
#> SMAD4 0.006092254 0.031178006 0.0025085752 0.0039420468
#> SMARCA4 0.018276762 0.093534019 0.0075257257 0.0118261404
#> STK11 0.044386423 0.227154047 0.0182767624 0.0287206266
#> TP53 0.084421236 0.432038089 0.0347616854 0.0546255056
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-05-5715-01 TCGA-38-4626-01 TCGA-38-4628-01 TCGA-38-7271-01
#> ARID1A 0.0138227615 0.034096145 0.0138227615 0.015665796
#> ATM 0.0138227615 0.034096145 0.0138227615 0.015665796
#> BRAF 0.0030717248 0.007576921 0.0030717248 0.003481288
#> CDKN2A 0.0053755184 0.013259612 0.0053755184 0.006092254
#> CMTR2 0.0130548303 0.032201915 0.0130548303 0.014795474
#> CTNNB1 0.0007679312 0.001894230 0.0007679312 0.000870322
#> EGFR 0.0230379358 0.056826908 0.0230379358 0.026109661
#> KEAP1 0.0153586239 0.037884606 0.0153586239 0.017406440
#> KRAS 0.0007679312 0.001894230 0.0007679312 0.000870322
#> MGA 0.0191982798 0.047355757 0.0191982798 0.021758050
#> NF1 0.0238058670 0.058721139 0.0238058670 0.026979983
#> PIK3CA 0.0007679312 0.001894230 0.0007679312 0.000870322
#> PTPRD 0.0107510367 0.026519224 0.0107510367 0.012184508
#> PTPRT 0.0092151743 0.022730763 0.0092151743 0.010443864
#> RB1 0.0145906927 0.035990375 0.0145906927 0.016536118
#> RBM10 0.0222700046 0.054932678 0.0222700046 0.025239339
#> SETBP1 0.0084472431 0.020836533 0.0084472431 0.009573542
#> SETD2 0.0161265551 0.039778836 0.0161265551 0.018276762
#> SMAD4 0.0053755184 0.013259612 0.0053755184 0.006092254
#> SMARCA4 0.0161265551 0.039778836 0.0161265551 0.018276762
#> STK11 0.0391644909 0.096605744 0.0391644909 0.044386423
#> TP53 0.0744893258 0.183740337 0.0744893258 0.084421236
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-38-A44F-01 TCGA-44-2655-01 TCGA-44-2659-01 TCGA-44-3398-01
#> ARID1A 0.0018430349 0.020273384 0.059898633 0.020273384
#> ATM 0.0018430349 0.020273384 0.059898633 0.020273384
#> BRAF 0.0004095633 0.004505196 0.013310807 0.004505196
#> CDKN2A 0.0007167358 0.007884094 0.023293913 0.007884094
#> CMTR2 0.0017406440 0.019147084 0.056570931 0.019147084
#> CTNNB1 0.0001023908 0.001126299 0.003327702 0.001126299
#> EGFR 0.0030717248 0.033788973 0.099831055 0.033788973
#> KEAP1 0.0020478165 0.022525982 0.066554037 0.022525982
#> KRAS 0.0001023908 0.001126299 0.003327702 0.001126299
#> MGA 0.0025597706 0.028157477 0.083192546 0.028157477
#> NF1 0.0031741156 0.034915272 0.103158757 0.034915272
#> PIK3CA 0.0001023908 0.001126299 0.003327702 0.001126299
#> PTPRD 0.0014334716 0.015768187 0.046587826 0.015768187
#> PTPRT 0.0012286899 0.013515589 0.039932422 0.013515589
#> RB1 0.0019454257 0.021399683 0.063226335 0.021399683
#> RBM10 0.0029693339 0.032662673 0.096503353 0.032662673
#> SETBP1 0.0011262991 0.012389290 0.036604720 0.012389290
#> SETD2 0.0021502073 0.023652281 0.069881739 0.023652281
#> SMAD4 0.0007167358 0.007884094 0.023293913 0.007884094
#> SMARCA4 0.0021502073 0.023652281 0.069881739 0.023652281
#> STK11 0.0052219321 0.057441253 0.169712794 0.057441253
#> TP53 0.0099319101 0.109251011 0.322787078 0.109251011
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-44-3918-01 TCGA-44-3919-01 TCGA-44-4112-01 TCGA-44-5644-01
#> ARID1A 0.111503609 0.0055291046 0.062663185 0.113346644
#> ATM 0.111503609 0.0055291046 0.062663185 0.113346644
#> BRAF 0.024778580 0.0012286899 0.013925152 0.025188143
#> CDKN2A 0.043362515 0.0021502073 0.024369017 0.044079250
#> CMTR2 0.105308964 0.0052219321 0.059181897 0.107049608
#> CTNNB1 0.006194645 0.0003071725 0.003481288 0.006297036
#> EGFR 0.185839349 0.0092151743 0.104438642 0.188911074
#> KEAP1 0.123892899 0.0061434495 0.069625762 0.125940716
#> KRAS 0.006194645 0.0003071725 0.003481288 0.006297036
#> MGA 0.154866124 0.0076793119 0.087032202 0.157425895
#> NF1 0.192033994 0.0095223468 0.107919930 0.195208109
#> PIK3CA 0.006194645 0.0003071725 0.003481288 0.006297036
#> PTPRD 0.086725029 0.0043004147 0.048738033 0.088158501
#> PTPRT 0.074335740 0.0036860697 0.041775457 0.075564429
#> RB1 0.117698254 0.0058362771 0.066144473 0.119643680
#> RBM10 0.179644704 0.0089080018 0.100957354 0.182614038
#> SETBP1 0.068141095 0.0033788973 0.038294169 0.069267394
#> SETD2 0.130087544 0.0064506220 0.073107050 0.132237751
#> SMAD4 0.043362515 0.0021502073 0.024369017 0.044079250
#> SMARCA4 0.130087544 0.0064506220 0.073107050 0.132237751
#> STK11 0.315926893 0.0156657963 0.177545692 0.321148825
#> TP53 0.600880561 0.0297957303 0.337684943 0.610812471
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-44-6148-01 TCGA-44-6778-01 TCGA-44-6779-01 TCGA-44-7660-01
#> ARID1A 9.215174e-04 0.035939180 0.011058209 0.039625250
#> ATM 9.215174e-04 0.035939180 0.011058209 0.039625250
#> BRAF 2.047817e-04 0.007986484 0.002457380 0.008805611
#> CDKN2A 3.583679e-04 0.013976348 0.004300415 0.015409819
#> CMTR2 8.703220e-04 0.033942559 0.010443864 0.037423847
#> CTNNB1 5.119541e-05 0.001996621 0.000614345 0.002201403
#> EGFR 1.535862e-03 0.059898633 0.018430349 0.066042083
#> KEAP1 1.023908e-03 0.039932422 0.012286899 0.044028055
#> KRAS 5.119541e-05 0.001996621 0.000614345 0.002201403
#> MGA 1.279885e-03 0.049915528 0.015358624 0.055035069
#> NF1 1.587058e-03 0.061895254 0.019044694 0.068243485
#> PIK3CA 5.119541e-05 0.001996621 0.000614345 0.002201403
#> PTPRD 7.167358e-04 0.027952695 0.008600829 0.030819639
#> PTPRT 6.143450e-04 0.023959453 0.007372139 0.026416833
#> RB1 9.727128e-04 0.037935801 0.011672554 0.041826652
#> RBM10 1.484667e-03 0.057902012 0.017816004 0.063840680
#> SETBP1 5.631495e-04 0.021962832 0.006757795 0.024215430
#> SETD2 1.075104e-03 0.041929043 0.012901244 0.046229458
#> SMAD4 3.583679e-04 0.013976348 0.004300415 0.015409819
#> SMARCA4 1.075104e-03 0.041929043 0.012901244 0.046229458
#> STK11 2.610966e-03 0.101827676 0.031331593 0.112271540
#> TP53 4.965955e-03 0.193672247 0.059591461 0.213536067
#> U2AF1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> TCGA-44-7667-01 TCGA-44-7669-01 TCGA-44-A479-01 TCGA-44-A47B-01
#> ARID1A 0.055291046 0.061741668 0.028567040 0.0064506220
#> ATM 0.055291046 0.061741668 0.028567040 0.0064506220
#> BRAF 0.012286899 0.013720371 0.006348231 0.0014334716
#> CDKN2A 0.021502073 0.024010649 0.011109405 0.0025085752
#> CMTR2 0.052219321 0.058311575 0.026979983 0.0060922541
#> CTNNB1 0.003071725 0.003430093 0.001587058 0.0003583679
#> EGFR 0.092151743 0.102902780 0.047611734 0.0107510367
#> KEAP1 0.061434495 0.068601853 0.031741156 0.0071673578
#> KRAS 0.003071725 0.003430093 0.001587058 0.0003583679
#> MGA 0.076793119 0.085752317 0.039676445 0.0089591973
#> NF1 0.095223468 0.106332873 0.049198792 0.0111094046
#> PIK3CA 0.003071725 0.003430093 0.001587058 0.0003583679
#> PTPRD 0.043004147 0.048021297 0.022218809 0.0050171505
#> PTPRT 0.036860697 0.041161112 0.019044694 0.0043004147
#> RB1 0.058362771 0.065171761 0.030154098 0.0068089899
#> RBM10 0.089080018 0.099472687 0.046024676 0.0103926688
#> SETBP1 0.033788973 0.037731019 0.017457636 0.0039420468
#> SETD2 0.064506220 0.072031946 0.033328214 0.0075257257
#> SMAD4 0.021502073 0.024010649 0.011109405 0.0025085752
#> SMARCA4 0.064506220 0.072031946 0.033328214 0.0075257257
#> STK11 0.156657963 0.174934726 0.080939948 0.0182767624
#> TP53 0.297957303 0.332718988 0.153944607 0.0347616854
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4487-01 TCGA-49-4501-01 TCGA-49-4512-01 TCGA-49-6742-01
#> ARID1A 0.046997389 0.0064506220 0.0055291046 0.019351866
#> ATM 0.046997389 0.0064506220 0.0055291046 0.019351866
#> BRAF 0.010443864 0.0014334716 0.0012286899 0.004300415
#> CDKN2A 0.018276762 0.0025085752 0.0021502073 0.007525726
#> CMTR2 0.044386423 0.0060922541 0.0052219321 0.018276762
#> CTNNB1 0.002610966 0.0003583679 0.0003071725 0.001075104
#> EGFR 0.078328982 0.0107510367 0.0092151743 0.032253110
#> KEAP1 0.052219321 0.0071673578 0.0061434495 0.021502073
#> KRAS 0.002610966 0.0003583679 0.0003071725 0.001075104
#> MGA 0.065274151 0.0089591973 0.0076793119 0.026877592
#> NF1 0.080939948 0.0111094046 0.0095223468 0.033328214
#> PIK3CA 0.002610966 0.0003583679 0.0003071725 0.001075104
#> PTPRD 0.036553525 0.0050171505 0.0043004147 0.015051451
#> PTPRT 0.031331593 0.0043004147 0.0036860697 0.012901244
#> RB1 0.049608355 0.0068089899 0.0058362771 0.020426970
#> RBM10 0.075718016 0.0103926688 0.0089080018 0.031178006
#> SETBP1 0.028720627 0.0039420468 0.0033788973 0.011826140
#> SETD2 0.054830287 0.0075257257 0.0064506220 0.022577177
#> SMAD4 0.018276762 0.0025085752 0.0021502073 0.007525726
#> SMARCA4 0.054830287 0.0075257257 0.0064506220 0.022577177
#> STK11 0.133159269 0.0182767624 0.0156657963 0.054830287
#> TP53 0.253263708 0.0347616854 0.0297957303 0.104285056
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-49-6743-01 TCGA-49-6761-01 TCGA-49-6767-01 TCGA-49-AAR0-01
#> ARID1A 0.087544156 0.045154354 0.054369528 0.0129012440
#> ATM 0.087544156 0.045154354 0.054369528 0.0129012440
#> BRAF 0.019454257 0.010034301 0.012082117 0.0028669431
#> CDKN2A 0.034044950 0.017560027 0.021143706 0.0050171505
#> CMTR2 0.082680592 0.042645779 0.051348999 0.0121845083
#> CTNNB1 0.004863564 0.002508575 0.003020529 0.0007167358
#> EGFR 0.145906927 0.075257257 0.090615881 0.0215020734
#> KEAP1 0.097271284 0.050171505 0.060410587 0.0143347156
#> KRAS 0.004863564 0.002508575 0.003020529 0.0007167358
#> MGA 0.121589106 0.062714381 0.075513234 0.0179183945
#> NF1 0.150770491 0.077765832 0.093636410 0.0222188092
#> PIK3CA 0.004863564 0.002508575 0.003020529 0.0007167358
#> PTPRD 0.068089899 0.035120053 0.042287411 0.0100343009
#> PTPRT 0.058362771 0.030102903 0.036246352 0.0086008294
#> RB1 0.092407720 0.047662929 0.057390058 0.0136179798
#> RBM10 0.141043363 0.072748682 0.087595351 0.0207853376
#> SETBP1 0.053499206 0.027594328 0.033225823 0.0078840936
#> SETD2 0.102134849 0.052680080 0.063431117 0.0150514514
#> SMAD4 0.034044950 0.017560027 0.021143706 0.0050171505
#> SMARCA4 0.102134849 0.052680080 0.063431117 0.0150514514
#> STK11 0.248041775 0.127937337 0.154046997 0.0365535248
#> TP53 0.471765730 0.243331797 0.292991348 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-AAR2-01 TCGA-49-AAR3-01 TCGA-49-AAR4-01 TCGA-49-AARR-01
#> ARID1A 0.048840424 0.0101366918 0.060820151 0
#> ATM 0.048840424 0.0101366918 0.060820151 0
#> BRAF 0.010853428 0.0022525982 0.013515589 0
#> CDKN2A 0.018993498 0.0039420468 0.023652281 0
#> CMTR2 0.046127067 0.0095735422 0.057441253 0
#> CTNNB1 0.002713357 0.0005631495 0.003378897 0
#> EGFR 0.081400706 0.0168944863 0.101366918 0
#> KEAP1 0.054267138 0.0112629908 0.067577945 0
#> KRAS 0.002713357 0.0005631495 0.003378897 0
#> MGA 0.067833922 0.0140787385 0.084472431 0
#> NF1 0.084114063 0.0174576358 0.104745815 0
#> PIK3CA 0.002713357 0.0005631495 0.003378897 0
#> PTPRD 0.037986996 0.0078840936 0.047304562 0
#> PTPRT 0.032560283 0.0067577945 0.040546767 0
#> RB1 0.051553781 0.0106998413 0.064199048 0
#> RBM10 0.078687350 0.0163313367 0.097988020 0
#> SETBP1 0.029846926 0.0061946450 0.037167870 0
#> SETD2 0.056980495 0.0118261404 0.070956842 0
#> SMAD4 0.018993498 0.0039420468 0.023652281 0
#> SMARCA4 0.056980495 0.0118261404 0.070956842 0
#> STK11 0.138381201 0.0287206266 0.172323760 0
#> TP53 0.263195618 0.0546255056 0.327753033 0
#> U2AF1 0.000000000 0.0000000000 0.000000000 0
#> TCGA-50-5045-01 TCGA-50-5049-01 TCGA-50-5055-01 TCGA-50-5072-01
#> ARID1A 0.039625250 0.093994778 0.0018430349 0.025802488
#> ATM 0.039625250 0.093994778 0.0018430349 0.025802488
#> BRAF 0.008805611 0.020887728 0.0004095633 0.005733886
#> CDKN2A 0.015409819 0.036553525 0.0007167358 0.010034301
#> CMTR2 0.037423847 0.088772846 0.0017406440 0.024369017
#> CTNNB1 0.002201403 0.005221932 0.0001023908 0.001433472
#> EGFR 0.066042083 0.156657963 0.0030717248 0.043004147
#> KEAP1 0.044028055 0.104438642 0.0020478165 0.028669431
#> KRAS 0.002201403 0.005221932 0.0001023908 0.001433472
#> MGA 0.055035069 0.130548303 0.0025597706 0.035836789
#> NF1 0.068243485 0.161879896 0.0031741156 0.044437618
#> PIK3CA 0.002201403 0.005221932 0.0001023908 0.001433472
#> PTPRD 0.030819639 0.073107050 0.0014334716 0.020068602
#> PTPRT 0.026416833 0.062663185 0.0012286899 0.017201659
#> RB1 0.041826652 0.099216710 0.0019454257 0.027235960
#> RBM10 0.063840680 0.151436031 0.0029693339 0.041570675
#> SETBP1 0.024215430 0.057441253 0.0011262991 0.015768187
#> SETD2 0.046229458 0.109660574 0.0021502073 0.030102903
#> SMAD4 0.015409819 0.036553525 0.0007167358 0.010034301
#> SMARCA4 0.046229458 0.109660574 0.0021502073 0.030102903
#> STK11 0.112271540 0.266318538 0.0052219321 0.073107050
#> TP53 0.213536067 0.506527415 0.0099319101 0.139046741
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-50-5931-01 TCGA-50-5935-01 TCGA-50-6590-01 TCGA-50-6597-01
#> ARID1A 0.036860697 0.0082936569 0.087544156 0.0092151743
#> ATM 0.036860697 0.0082936569 0.087544156 0.0092151743
#> BRAF 0.008191266 0.0018430349 0.019454257 0.0020478165
#> CDKN2A 0.014334716 0.0032253110 0.034044950 0.0035836789
#> CMTR2 0.034812881 0.0078328982 0.082680592 0.0087032202
#> CTNNB1 0.002047817 0.0004607587 0.004863564 0.0005119541
#> EGFR 0.061434495 0.0138227615 0.145906927 0.0153586239
#> KEAP1 0.040956330 0.0092151743 0.097271284 0.0102390826
#> KRAS 0.002047817 0.0004607587 0.004863564 0.0005119541
#> MGA 0.051195413 0.0115189679 0.121589106 0.0127988532
#> NF1 0.063482312 0.0142835202 0.150770491 0.0158705780
#> PIK3CA 0.002047817 0.0004607587 0.004863564 0.0005119541
#> PTPRD 0.028669431 0.0064506220 0.068089899 0.0071673578
#> PTPRT 0.024573798 0.0055291046 0.058362771 0.0061434495
#> RB1 0.038908514 0.0087544156 0.092407720 0.0097271284
#> RBM10 0.059386679 0.0133620028 0.141043363 0.0148466697
#> SETBP1 0.022525982 0.0050683459 0.053499206 0.0056314954
#> SETD2 0.043004147 0.0096759330 0.102134849 0.0107510367
#> SMAD4 0.014334716 0.0032253110 0.034044950 0.0035836789
#> SMARCA4 0.043004147 0.0096759330 0.102134849 0.0107510367
#> STK11 0.104438642 0.0234986945 0.248041775 0.0261096606
#> TP53 0.198638202 0.0446935955 0.471765730 0.0496595505
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-50-8457-01 TCGA-53-7624-01 TCGA-55-1594-01 TCGA-55-5899-01
#> ARID1A 0.011058209 0.083858086 0.0175088312 0.044232837
#> ATM 0.011058209 0.083858086 0.0175088312 0.044232837
#> BRAF 0.002457380 0.018635130 0.0038908514 0.009829519
#> CDKN2A 0.004300415 0.032611478 0.0068089899 0.017201659
#> CMTR2 0.010443864 0.079199304 0.0165361184 0.041775457
#> CTNNB1 0.000614345 0.004658783 0.0009727128 0.002457380
#> EGFR 0.018430349 0.139763477 0.0291813853 0.073721395
#> KEAP1 0.012286899 0.093175651 0.0194542569 0.049147596
#> KRAS 0.000614345 0.004658783 0.0009727128 0.002457380
#> MGA 0.015358624 0.116469564 0.0243178211 0.061434495
#> NF1 0.019044694 0.144422260 0.0301540982 0.076178774
#> PIK3CA 0.000614345 0.004658783 0.0009727128 0.002457380
#> PTPRD 0.008600829 0.065222956 0.0136179798 0.034403317
#> PTPRT 0.007372139 0.055905391 0.0116725541 0.029488558
#> RB1 0.011672554 0.088516869 0.0184815441 0.046690217
#> RBM10 0.017816004 0.135104695 0.0282086725 0.071264015
#> SETBP1 0.006757795 0.051246608 0.0106998413 0.027031178
#> SETD2 0.012901244 0.097834434 0.0204269697 0.051604976
#> SMAD4 0.004300415 0.032611478 0.0068089899 0.017201659
#> SMARCA4 0.012901244 0.097834434 0.0204269697 0.051604976
#> STK11 0.031331593 0.237597911 0.0496083551 0.125326371
#> TP53 0.059591461 0.451901910 0.0943531460 0.238365842
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-55-6543-01 TCGA-55-6712-01 TCGA-55-6971-01 TCGA-55-6972-01
#> ARID1A 0.0036860697 0.024880971 0.025802488 0.033174628
#> ATM 0.0036860697 0.024880971 0.025802488 0.033174628
#> BRAF 0.0008191266 0.005529105 0.005733886 0.007372139
#> CDKN2A 0.0014334716 0.009675933 0.010034301 0.012901244
#> CMTR2 0.0034812881 0.023498695 0.024369017 0.031331593
#> CTNNB1 0.0002047817 0.001382276 0.001433472 0.001843035
#> EGFR 0.0061434495 0.041468284 0.043004147 0.055291046
#> KEAP1 0.0040956330 0.027645523 0.028669431 0.036860697
#> KRAS 0.0002047817 0.001382276 0.001433472 0.001843035
#> MGA 0.0051195413 0.034556904 0.035836789 0.046075872
#> NF1 0.0063482312 0.042850561 0.044437618 0.057134081
#> PIK3CA 0.0002047817 0.001382276 0.001433472 0.001843035
#> PTPRD 0.0028669431 0.019351866 0.020068602 0.025802488
#> PTPRT 0.0024573798 0.016587314 0.017201659 0.022116418
#> RB1 0.0038908514 0.026263247 0.027235960 0.035017662
#> RBM10 0.0059386679 0.040086008 0.041570675 0.053448011
#> SETBP1 0.0022525982 0.015205038 0.015768187 0.020273384
#> SETD2 0.0043004147 0.029027799 0.030102903 0.038703732
#> SMAD4 0.0014334716 0.009675933 0.010034301 0.012901244
#> SMARCA4 0.0043004147 0.029027799 0.030102903 0.038703732
#> STK11 0.0104438642 0.070496084 0.073107050 0.093994778
#> TP53 0.0198638202 0.134080786 0.139046741 0.178774382
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-6978-01 TCGA-55-6980-01 TCGA-55-6982-01 TCGA-55-6985-01
#> ARID1A 0.0073721395 0.0036860697 0.0175088312 0.048840424
#> ATM 0.0073721395 0.0036860697 0.0175088312 0.048840424
#> BRAF 0.0016382532 0.0008191266 0.0038908514 0.010853428
#> CDKN2A 0.0028669431 0.0014334716 0.0068089899 0.018993498
#> CMTR2 0.0069625762 0.0034812881 0.0165361184 0.046127067
#> CTNNB1 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> EGFR 0.0122868991 0.0061434495 0.0291813853 0.081400706
#> KEAP1 0.0081912661 0.0040956330 0.0194542569 0.054267138
#> KRAS 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> MGA 0.0102390826 0.0051195413 0.0243178211 0.067833922
#> NF1 0.0126964624 0.0063482312 0.0301540982 0.084114063
#> PIK3CA 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> PTPRD 0.0057338862 0.0028669431 0.0136179798 0.037986996
#> PTPRT 0.0049147596 0.0024573798 0.0116725541 0.032560283
#> RB1 0.0077817028 0.0038908514 0.0184815441 0.051553781
#> RBM10 0.0118773358 0.0059386679 0.0282086725 0.078687350
#> SETBP1 0.0045051963 0.0022525982 0.0106998413 0.029846926
#> SETD2 0.0086008294 0.0043004147 0.0204269697 0.056980495
#> SMAD4 0.0028669431 0.0014334716 0.0068089899 0.018993498
#> SMARCA4 0.0086008294 0.0043004147 0.0204269697 0.056980495
#> STK11 0.0208877285 0.0104438642 0.0496083551 0.138381201
#> TP53 0.0397276404 0.0198638202 0.0943531460 0.263195618
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-55-6986-01 TCGA-55-6987-01 TCGA-55-7574-01 TCGA-55-8087-01
#> ARID1A 0.0027645523 0.025802488 0.024880971 0.0046075872
#> ATM 0.0027645523 0.025802488 0.024880971 0.0046075872
#> BRAF 0.0006143450 0.005733886 0.005529105 0.0010239083
#> CDKN2A 0.0010751037 0.010034301 0.009675933 0.0017918395
#> CMTR2 0.0026109661 0.024369017 0.023498695 0.0043516101
#> CTNNB1 0.0001535862 0.001433472 0.001382276 0.0002559771
#> EGFR 0.0046075872 0.043004147 0.041468284 0.0076793119
#> KEAP1 0.0030717248 0.028669431 0.027645523 0.0051195413
#> KRAS 0.0001535862 0.001433472 0.001382276 0.0002559771
#> MGA 0.0038396560 0.035836789 0.034556904 0.0063994266
#> NF1 0.0047611734 0.044437618 0.042850561 0.0079352890
#> PIK3CA 0.0001535862 0.001433472 0.001382276 0.0002559771
#> PTPRD 0.0021502073 0.020068602 0.019351866 0.0035836789
#> PTPRT 0.0018430349 0.017201659 0.016587314 0.0030717248
#> RB1 0.0029181385 0.027235960 0.026263247 0.0048635642
#> RBM10 0.0044540009 0.041570675 0.040086008 0.0074233349
#> SETBP1 0.0016894486 0.015768187 0.015205038 0.0028157477
#> SETD2 0.0032253110 0.030102903 0.029027799 0.0053755184
#> SMAD4 0.0010751037 0.010034301 0.009675933 0.0017918395
#> SMARCA4 0.0032253110 0.030102903 0.029027799 0.0053755184
#> STK11 0.0078328982 0.073107050 0.070496084 0.0130548303
#> TP53 0.0148978652 0.139046741 0.134080786 0.0248297753
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-55-8091-01 TCGA-55-8204-01 TCGA-55-8206-01 TCGA-55-8507-01
#> ARID1A 9.215174e-04 0.020273384 0.0046075872 0.1004454
#> ATM 9.215174e-04 0.020273384 0.0046075872 0.1004454
#> BRAF 2.047817e-04 0.004505196 0.0010239083 0.0223212
#> CDKN2A 3.583679e-04 0.007884094 0.0017918395 0.0390621
#> CMTR2 8.703220e-04 0.019147084 0.0043516101 0.0948651
#> CTNNB1 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> EGFR 1.535862e-03 0.033788973 0.0076793119 0.1674090
#> KEAP1 1.023908e-03 0.022525982 0.0051195413 0.1116060
#> KRAS 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> MGA 1.279885e-03 0.028157477 0.0063994266 0.1395075
#> NF1 1.587058e-03 0.034915272 0.0079352890 0.1729893
#> PIK3CA 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> PTPRD 7.167358e-04 0.015768187 0.0035836789 0.0781242
#> PTPRT 6.143450e-04 0.013515589 0.0030717248 0.0669636
#> RB1 9.727128e-04 0.021399683 0.0048635642 0.1060257
#> RBM10 1.484667e-03 0.032662673 0.0074233349 0.1618287
#> SETBP1 5.631495e-04 0.012389290 0.0028157477 0.0613833
#> SETD2 1.075104e-03 0.023652281 0.0053755184 0.1171863
#> SMAD4 3.583679e-04 0.007884094 0.0017918395 0.0390621
#> SMARCA4 1.075104e-03 0.023652281 0.0053755184 0.1171863
#> STK11 2.610966e-03 0.057441253 0.0130548303 0.2845953
#> TP53 4.965955e-03 0.109251011 0.0248297753 0.5412891
#> U2AF1 0.000000e+00 0.000000000 0.0000000000 0.0000000
#> TCGA-55-8510-01 TCGA-55-8513-01 TCGA-55-8619-01 TCGA-55-8621-01
#> ARID1A 0.034096145 0 0.0018430349 0.0082936569
#> ATM 0.034096145 0 0.0018430349 0.0082936569
#> BRAF 0.007576921 0 0.0004095633 0.0018430349
#> CDKN2A 0.013259612 0 0.0007167358 0.0032253110
#> CMTR2 0.032201915 0 0.0017406440 0.0078328982
#> CTNNB1 0.001894230 0 0.0001023908 0.0004607587
#> EGFR 0.056826908 0 0.0030717248 0.0138227615
#> KEAP1 0.037884606 0 0.0020478165 0.0092151743
#> KRAS 0.001894230 0 0.0001023908 0.0004607587
#> MGA 0.047355757 0 0.0025597706 0.0115189679
#> NF1 0.058721139 0 0.0031741156 0.0142835202
#> PIK3CA 0.001894230 0 0.0001023908 0.0004607587
#> PTPRD 0.026519224 0 0.0014334716 0.0064506220
#> PTPRT 0.022730763 0 0.0012286899 0.0055291046
#> RB1 0.035990375 0 0.0019454257 0.0087544156
#> RBM10 0.054932678 0 0.0029693339 0.0133620028
#> SETBP1 0.020836533 0 0.0011262991 0.0050683459
#> SETD2 0.039778836 0 0.0021502073 0.0096759330
#> SMAD4 0.013259612 0 0.0007167358 0.0032253110
#> SMARCA4 0.039778836 0 0.0021502073 0.0096759330
#> STK11 0.096605744 0 0.0052219321 0.0234986945
#> TP53 0.183740337 0 0.0099319101 0.0446935955
#> U2AF1 0.000000000 0 0.0000000000 0.0000000000
#> TCGA-55-A4DF-01 TCGA-62-8397-01 TCGA-62-A46O-01 TCGA-62-A46P-01
#> ARID1A 0.082015051 0.0055291046 0.103209952 0.031331593
#> ATM 0.082015051 0.0055291046 0.103209952 0.031331593
#> BRAF 0.018225567 0.0012286899 0.022935545 0.006962576
#> CDKN2A 0.031894742 0.0021502073 0.040137204 0.012184508
#> CMTR2 0.077458660 0.0052219321 0.097476066 0.029590949
#> CTNNB1 0.004556392 0.0003071725 0.005733886 0.001740644
#> EGFR 0.136691752 0.0092151743 0.172016587 0.052219321
#> KEAP1 0.091127835 0.0061434495 0.114677725 0.034812881
#> KRAS 0.004556392 0.0003071725 0.005733886 0.001740644
#> MGA 0.113909794 0.0076793119 0.143347156 0.043516101
#> NF1 0.141248144 0.0095223468 0.177750474 0.053959965
#> PIK3CA 0.004556392 0.0003071725 0.005733886 0.001740644
#> PTPRD 0.063789484 0.0043004147 0.080274407 0.024369017
#> PTPRT 0.054676701 0.0036860697 0.068806635 0.020887728
#> RB1 0.086571443 0.0058362771 0.108943839 0.033072237
#> RBM10 0.132135361 0.0089080018 0.166282701 0.050478677
#> SETBP1 0.050120309 0.0033788973 0.063072749 0.019147084
#> SETD2 0.095684227 0.0064506220 0.120411611 0.036553525
#> SMAD4 0.031894742 0.0021502073 0.040137204 0.012184508
#> SMARCA4 0.095684227 0.0064506220 0.120411611 0.036553525
#> STK11 0.232375979 0.0156657963 0.292428198 0.088772846
#> TP53 0.441969999 0.0297957303 0.556186966 0.168842472
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-62-A46Y-01 TCGA-64-5779-01 TCGA-64-5781-01 TCGA-69-7760-01
#> ARID1A 0.0082936569 0.036860697 0.138227615 0.011058209
#> ATM 0.0082936569 0.036860697 0.138227615 0.011058209
#> BRAF 0.0018430349 0.008191266 0.030717248 0.002457380
#> CDKN2A 0.0032253110 0.014334716 0.053755184 0.004300415
#> CMTR2 0.0078328982 0.034812881 0.130548303 0.010443864
#> CTNNB1 0.0004607587 0.002047817 0.007679312 0.000614345
#> EGFR 0.0138227615 0.061434495 0.230379358 0.018430349
#> KEAP1 0.0092151743 0.040956330 0.153586239 0.012286899
#> KRAS 0.0004607587 0.002047817 0.007679312 0.000614345
#> MGA 0.0115189679 0.051195413 0.191982798 0.015358624
#> NF1 0.0142835202 0.063482312 0.238058670 0.019044694
#> PIK3CA 0.0004607587 0.002047817 0.007679312 0.000614345
#> PTPRD 0.0064506220 0.028669431 0.107510367 0.008600829
#> PTPRT 0.0055291046 0.024573798 0.092151743 0.007372139
#> RB1 0.0087544156 0.038908514 0.145906927 0.011672554
#> RBM10 0.0133620028 0.059386679 0.222700046 0.017816004
#> SETBP1 0.0050683459 0.022525982 0.084472431 0.006757795
#> SETD2 0.0096759330 0.043004147 0.161265551 0.012901244
#> SMAD4 0.0032253110 0.014334716 0.053755184 0.004300415
#> SMARCA4 0.0096759330 0.043004147 0.161265551 0.012901244
#> STK11 0.0234986945 0.104438642 0.391644909 0.031331593
#> TP53 0.0446935955 0.198638202 0.744893258 0.059591461
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-69-7761-01 TCGA-69-7763-01 TCGA-69-7764-01 TCGA-69-7979-01
#> ARID1A 0.0064506220 0.0082936569 0.0073721395 0.170480725
#> ATM 0.0064506220 0.0082936569 0.0073721395 0.170480725
#> BRAF 0.0014334716 0.0018430349 0.0016382532 0.037884606
#> CDKN2A 0.0025085752 0.0032253110 0.0028669431 0.066298060
#> CMTR2 0.0060922541 0.0078328982 0.0069625762 0.161009574
#> CTNNB1 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> EGFR 0.0107510367 0.0138227615 0.0122868991 0.284134542
#> KEAP1 0.0071673578 0.0092151743 0.0081912661 0.189423028
#> KRAS 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> MGA 0.0089591973 0.0115189679 0.0102390826 0.236778785
#> NF1 0.0111094046 0.0142835202 0.0126964624 0.293605693
#> PIK3CA 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> PTPRD 0.0050171505 0.0064506220 0.0057338862 0.132596119
#> PTPRT 0.0043004147 0.0055291046 0.0049147596 0.113653817
#> RB1 0.0068089899 0.0087544156 0.0077817028 0.179951876
#> RBM10 0.0103926688 0.0133620028 0.0118773358 0.274663390
#> SETBP1 0.0039420468 0.0050683459 0.0045051963 0.104182665
#> SETD2 0.0075257257 0.0096759330 0.0086008294 0.198894179
#> SMAD4 0.0025085752 0.0032253110 0.0028669431 0.066298060
#> SMARCA4 0.0075257257 0.0096759330 0.0086008294 0.198894179
#> STK11 0.0182767624 0.0234986945 0.0208877285 0.483028721
#> TP53 0.0347616854 0.0446935955 0.0397276404 0.918701684
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-69-8255-01 TCGA-69-A59K-01 TCGA-71-6725-01 TCGA-73-4659-01
#> ARID1A 0.039625250 0.05621256 0.0018430349 0.026724006
#> ATM 0.039625250 0.05621256 0.0018430349 0.026724006
#> BRAF 0.008805611 0.01249168 0.0004095633 0.005938668
#> CDKN2A 0.015409819 0.02186044 0.0007167358 0.010392669
#> CMTR2 0.037423847 0.05308964 0.0017406440 0.025239339
#> CTNNB1 0.002201403 0.00312292 0.0001023908 0.001484667
#> EGFR 0.066042083 0.09368761 0.0030717248 0.044540009
#> KEAP1 0.044028055 0.06245840 0.0020478165 0.029693339
#> KRAS 0.002201403 0.00312292 0.0001023908 0.001484667
#> MGA 0.055035069 0.07807300 0.0025597706 0.037116674
#> NF1 0.068243485 0.09681053 0.0031741156 0.046024676
#> PIK3CA 0.002201403 0.00312292 0.0001023908 0.001484667
#> PTPRD 0.030819639 0.04372088 0.0014334716 0.020785338
#> PTPRT 0.026416833 0.03747504 0.0012286899 0.017816004
#> RB1 0.041826652 0.05933548 0.0019454257 0.028208673
#> RBM10 0.063840680 0.09056469 0.0029693339 0.043055342
#> SETBP1 0.024215430 0.03435212 0.0011262991 0.016331337
#> SETD2 0.046229458 0.06558132 0.0021502073 0.031178006
#> SMAD4 0.015409819 0.02186044 0.0007167358 0.010392669
#> SMARCA4 0.046229458 0.06558132 0.0021502073 0.031178006
#> STK11 0.112271540 0.15926893 0.0052219321 0.075718016
#> TP53 0.213536067 0.30292326 0.0099319101 0.144012696
#> U2AF1 0.000000000 0.00000000 0.0000000000 0.000000000
#> TCGA-73-4668-01 TCGA-73-4675-01 TCGA-75-5122-01 TCGA-75-5125-01
#> ARID1A 0.072799877 0.0138227615 0.0101366918 0.023959453
#> ATM 0.072799877 0.0138227615 0.0101366918 0.023959453
#> BRAF 0.016177750 0.0030717248 0.0022525982 0.005324323
#> CDKN2A 0.028311063 0.0053755184 0.0039420468 0.009317565
#> CMTR2 0.068755440 0.0130548303 0.0095735422 0.022628372
#> CTNNB1 0.004044438 0.0007679312 0.0005631495 0.001331081
#> EGFR 0.121333129 0.0230379358 0.0168944863 0.039932422
#> KEAP1 0.080888752 0.0153586239 0.0112629908 0.026621615
#> KRAS 0.004044438 0.0007679312 0.0005631495 0.001331081
#> MGA 0.101110940 0.0191982798 0.0140787385 0.033277018
#> NF1 0.125377566 0.0238058670 0.0174576358 0.041263503
#> PIK3CA 0.004044438 0.0007679312 0.0005631495 0.001331081
#> PTPRD 0.056622127 0.0107510367 0.0078840936 0.018635130
#> PTPRT 0.048533251 0.0092151743 0.0067577945 0.015972969
#> RB1 0.076844315 0.0145906927 0.0106998413 0.025290534
#> RBM10 0.117288691 0.0222700046 0.0163313367 0.038601341
#> SETBP1 0.044488814 0.0084472431 0.0061946450 0.014641888
#> SETD2 0.084933190 0.0161265551 0.0118261404 0.027952695
#> SMAD4 0.028311063 0.0053755184 0.0039420468 0.009317565
#> SMARCA4 0.084933190 0.0161265551 0.0118261404 0.027952695
#> STK11 0.206266319 0.0391644909 0.0287206266 0.067885117
#> TP53 0.392310449 0.0744893258 0.0546255056 0.129114831
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-75-6203-01 TCGA-75-6205-01 TCGA-75-6207-01 TCGA-75-6212-01
#> ARID1A 9.215174e-04 0.0036860697 0.0073721395 0.0046075872
#> ATM 9.215174e-04 0.0036860697 0.0073721395 0.0046075872
#> BRAF 2.047817e-04 0.0008191266 0.0016382532 0.0010239083
#> CDKN2A 3.583679e-04 0.0014334716 0.0028669431 0.0017918395
#> CMTR2 8.703220e-04 0.0034812881 0.0069625762 0.0043516101
#> CTNNB1 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> EGFR 1.535862e-03 0.0061434495 0.0122868991 0.0076793119
#> KEAP1 1.023908e-03 0.0040956330 0.0081912661 0.0051195413
#> KRAS 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> MGA 1.279885e-03 0.0051195413 0.0102390826 0.0063994266
#> NF1 1.587058e-03 0.0063482312 0.0126964624 0.0079352890
#> PIK3CA 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> PTPRD 7.167358e-04 0.0028669431 0.0057338862 0.0035836789
#> PTPRT 6.143450e-04 0.0024573798 0.0049147596 0.0030717248
#> RB1 9.727128e-04 0.0038908514 0.0077817028 0.0048635642
#> RBM10 1.484667e-03 0.0059386679 0.0118773358 0.0074233349
#> SETBP1 5.631495e-04 0.0022525982 0.0045051963 0.0028157477
#> SETD2 1.075104e-03 0.0043004147 0.0086008294 0.0053755184
#> SMAD4 3.583679e-04 0.0014334716 0.0028669431 0.0017918395
#> SMARCA4 1.075104e-03 0.0043004147 0.0086008294 0.0053755184
#> STK11 2.610966e-03 0.0104438642 0.0208877285 0.0130548303
#> TP53 4.965955e-03 0.0198638202 0.0397276404 0.0248297753
#> U2AF1 0.000000e+00 0.0000000000 0.0000000000 0.0000000000
#> TCGA-75-7025-01 TCGA-75-7031-01 TCGA-78-7154-01 TCGA-78-7156-01
#> ARID1A 0.0055291046 0.026724006 0.0175088312 0.046075872
#> ATM 0.0055291046 0.026724006 0.0175088312 0.046075872
#> BRAF 0.0012286899 0.005938668 0.0038908514 0.010239083
#> CDKN2A 0.0021502073 0.010392669 0.0068089899 0.017918395
#> CMTR2 0.0052219321 0.025239339 0.0165361184 0.043516101
#> CTNNB1 0.0003071725 0.001484667 0.0009727128 0.002559771
#> EGFR 0.0092151743 0.044540009 0.0291813853 0.076793119
#> KEAP1 0.0061434495 0.029693339 0.0194542569 0.051195413
#> KRAS 0.0003071725 0.001484667 0.0009727128 0.002559771
#> MGA 0.0076793119 0.037116674 0.0243178211 0.063994266
#> NF1 0.0095223468 0.046024676 0.0301540982 0.079352890
#> PIK3CA 0.0003071725 0.001484667 0.0009727128 0.002559771
#> PTPRD 0.0043004147 0.020785338 0.0136179798 0.035836789
#> PTPRT 0.0036860697 0.017816004 0.0116725541 0.030717248
#> RB1 0.0058362771 0.028208673 0.0184815441 0.048635642
#> RBM10 0.0089080018 0.043055342 0.0282086725 0.074233349
#> SETBP1 0.0033788973 0.016331337 0.0106998413 0.028157477
#> SETD2 0.0064506220 0.031178006 0.0204269697 0.053755184
#> SMAD4 0.0021502073 0.010392669 0.0068089899 0.017918395
#> SMARCA4 0.0064506220 0.031178006 0.0204269697 0.053755184
#> STK11 0.0156657963 0.075718016 0.0496083551 0.130548303
#> TP53 0.0297957303 0.144012696 0.0943531460 0.248297753
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-78-7162-01 TCGA-78-7163-01 TCGA-78-7535-01 TCGA-78-7536-01
#> ARID1A 0.0055291046 0.0092151743 0.0129012440 0.077407464
#> ATM 0.0055291046 0.0092151743 0.0129012440 0.077407464
#> BRAF 0.0012286899 0.0020478165 0.0028669431 0.017201659
#> CDKN2A 0.0021502073 0.0035836789 0.0050171505 0.030102903
#> CMTR2 0.0052219321 0.0087032202 0.0121845083 0.073107050
#> CTNNB1 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> EGFR 0.0092151743 0.0153586239 0.0215020734 0.129012440
#> KEAP1 0.0061434495 0.0102390826 0.0143347156 0.086008294
#> KRAS 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> MGA 0.0076793119 0.0127988532 0.0179183945 0.107510367
#> NF1 0.0095223468 0.0158705780 0.0222188092 0.133312855
#> PIK3CA 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> PTPRD 0.0043004147 0.0071673578 0.0100343009 0.060205806
#> PTPRT 0.0036860697 0.0061434495 0.0086008294 0.051604976
#> RB1 0.0058362771 0.0097271284 0.0136179798 0.081707879
#> RBM10 0.0089080018 0.0148466697 0.0207853376 0.124712026
#> SETBP1 0.0033788973 0.0056314954 0.0078840936 0.047304562
#> SETD2 0.0064506220 0.0107510367 0.0150514514 0.090308708
#> SMAD4 0.0021502073 0.0035836789 0.0050171505 0.030102903
#> SMARCA4 0.0064506220 0.0107510367 0.0150514514 0.090308708
#> STK11 0.0156657963 0.0261096606 0.0365535248 0.219321149
#> TP53 0.0297957303 0.0496595505 0.0695233707 0.417140224
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-78-7542-01 TCGA-78-8648-01 TCGA-80-5611-01 TCGA-86-6562-01
#> ARID1A 0.039625250 0.0018430349 0.020273384 0.0046075872
#> ATM 0.039625250 0.0018430349 0.020273384 0.0046075872
#> BRAF 0.008805611 0.0004095633 0.004505196 0.0010239083
#> CDKN2A 0.015409819 0.0007167358 0.007884094 0.0017918395
#> CMTR2 0.037423847 0.0017406440 0.019147084 0.0043516101
#> CTNNB1 0.002201403 0.0001023908 0.001126299 0.0002559771
#> EGFR 0.066042083 0.0030717248 0.033788973 0.0076793119
#> KEAP1 0.044028055 0.0020478165 0.022525982 0.0051195413
#> KRAS 0.002201403 0.0001023908 0.001126299 0.0002559771
#> MGA 0.055035069 0.0025597706 0.028157477 0.0063994266
#> NF1 0.068243485 0.0031741156 0.034915272 0.0079352890
#> PIK3CA 0.002201403 0.0001023908 0.001126299 0.0002559771
#> PTPRD 0.030819639 0.0014334716 0.015768187 0.0035836789
#> PTPRT 0.026416833 0.0012286899 0.013515589 0.0030717248
#> RB1 0.041826652 0.0019454257 0.021399683 0.0048635642
#> RBM10 0.063840680 0.0029693339 0.032662673 0.0074233349
#> SETBP1 0.024215430 0.0011262991 0.012389290 0.0028157477
#> SETD2 0.046229458 0.0021502073 0.023652281 0.0053755184
#> SMAD4 0.015409819 0.0007167358 0.007884094 0.0017918395
#> SMARCA4 0.046229458 0.0021502073 0.023652281 0.0053755184
#> STK11 0.112271540 0.0052219321 0.057441253 0.0130548303
#> TP53 0.213536067 0.0099319101 0.109251011 0.0248297753
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-86-7701-01 TCGA-86-7955-01 TCGA-86-8073-01 TCGA-86-8358-01
#> ARID1A 0.049761941 0.035939180 0.154814929 0.121640301
#> ATM 0.049761941 0.035939180 0.154814929 0.121640301
#> BRAF 0.011058209 0.007986484 0.034403317 0.027031178
#> CDKN2A 0.019351866 0.013976348 0.060205806 0.047304562
#> CMTR2 0.046997389 0.033942559 0.146214099 0.114882507
#> CTNNB1 0.002764552 0.001996621 0.008600829 0.006757795
#> EGFR 0.082936569 0.059898633 0.258024881 0.202733835
#> KEAP1 0.055291046 0.039932422 0.172016587 0.135155890
#> KRAS 0.002764552 0.001996621 0.008600829 0.006757795
#> MGA 0.069113807 0.049915528 0.215020734 0.168944863
#> NF1 0.085701121 0.061895254 0.266625710 0.209491630
#> PIK3CA 0.002764552 0.001996621 0.008600829 0.006757795
#> PTPRD 0.038703732 0.027952695 0.120411611 0.094609123
#> PTPRT 0.033174628 0.023959453 0.103209952 0.081093534
#> RB1 0.052526494 0.037935801 0.163415758 0.128398096
#> RBM10 0.080172017 0.057902012 0.249424052 0.195976041
#> SETBP1 0.030410075 0.021962832 0.094609123 0.074335740
#> SETD2 0.058055598 0.041929043 0.180617417 0.141913685
#> SMAD4 0.019351866 0.013976348 0.060205806 0.047304562
#> SMARCA4 0.058055598 0.041929043 0.180617417 0.141913685
#> STK11 0.140992167 0.101827676 0.438642298 0.344647520
#> TP53 0.268161573 0.193672247 0.834280448 0.655506067
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-86-8669-01 TCGA-86-8671-01 TCGA-86-8672-01 TCGA-86-A4P8-01
#> ARID1A 0.015665796 0.0018430349 0.037782215 0
#> ATM 0.015665796 0.0018430349 0.037782215 0
#> BRAF 0.003481288 0.0004095633 0.008396048 0
#> CDKN2A 0.006092254 0.0007167358 0.014693083 0
#> CMTR2 0.014795474 0.0017406440 0.035683203 0
#> CTNNB1 0.000870322 0.0001023908 0.002099012 0
#> EGFR 0.026109661 0.0030717248 0.062970358 0
#> KEAP1 0.017406440 0.0020478165 0.041980239 0
#> KRAS 0.000870322 0.0001023908 0.002099012 0
#> MGA 0.021758050 0.0025597706 0.052475298 0
#> NF1 0.026979983 0.0031741156 0.065069370 0
#> PIK3CA 0.000870322 0.0001023908 0.002099012 0
#> PTPRD 0.012184508 0.0014334716 0.029386167 0
#> PTPRT 0.010443864 0.0012286899 0.025188143 0
#> RB1 0.016536118 0.0019454257 0.039881227 0
#> RBM10 0.025239339 0.0029693339 0.060871346 0
#> SETBP1 0.009573542 0.0011262991 0.023089131 0
#> SETD2 0.018276762 0.0021502073 0.044079250 0
#> SMAD4 0.006092254 0.0007167358 0.014693083 0
#> SMARCA4 0.018276762 0.0021502073 0.044079250 0
#> STK11 0.044386423 0.0052219321 0.107049608 0
#> TP53 0.084421236 0.0099319101 0.203604157 0
#> U2AF1 0.000000000 0.0000000000 0.000000000 0
#> TCGA-91-6831-01 TCGA-91-7771-01 TCGA-91-8496-01 TCGA-91-8497-01
#> ARID1A 0.030410075 0.018430349 0.0073721395 0.0036860697
#> ATM 0.030410075 0.018430349 0.0073721395 0.0036860697
#> BRAF 0.006757795 0.004095633 0.0016382532 0.0008191266
#> CDKN2A 0.011826140 0.007167358 0.0028669431 0.0014334716
#> CMTR2 0.028720627 0.017406440 0.0069625762 0.0034812881
#> CTNNB1 0.001689449 0.001023908 0.0004095633 0.0002047817
#> EGFR 0.050683459 0.030717248 0.0122868991 0.0061434495
#> KEAP1 0.033788973 0.020478165 0.0081912661 0.0040956330
#> KRAS 0.001689449 0.001023908 0.0004095633 0.0002047817
#> MGA 0.042236216 0.025597706 0.0102390826 0.0051195413
#> NF1 0.052372907 0.031741156 0.0126964624 0.0063482312
#> PIK3CA 0.001689449 0.001023908 0.0004095633 0.0002047817
#> PTPRD 0.023652281 0.014334716 0.0057338862 0.0028669431
#> PTPRT 0.020273384 0.012286899 0.0049147596 0.0024573798
#> RB1 0.032099524 0.019454257 0.0077817028 0.0038908514
#> RBM10 0.048994010 0.029693339 0.0118773358 0.0059386679
#> SETBP1 0.018583935 0.011262991 0.0045051963 0.0022525982
#> SETD2 0.035478421 0.021502073 0.0086008294 0.0043004147
#> SMAD4 0.011826140 0.007167358 0.0028669431 0.0014334716
#> SMARCA4 0.035478421 0.021502073 0.0086008294 0.0043004147
#> STK11 0.086161880 0.052219321 0.0208877285 0.0104438642
#> TP53 0.163876517 0.099319101 0.0397276404 0.0198638202
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-91-8499-01 TCGA-91-A4BC-01 TCGA-93-A4JQ-01 TCGA-95-8039-01
#> ARID1A 0.040546767 0.050683459 0.0073721395 0.011058209
#> ATM 0.040546767 0.050683459 0.0073721395 0.011058209
#> BRAF 0.009010393 0.011262991 0.0016382532 0.002457380
#> CDKN2A 0.015768187 0.019710234 0.0028669431 0.004300415
#> CMTR2 0.038294169 0.047867711 0.0069625762 0.010443864
#> CTNNB1 0.002252598 0.002815748 0.0004095633 0.000614345
#> EGFR 0.067577945 0.084472431 0.0122868991 0.018430349
#> KEAP1 0.045051963 0.056314954 0.0081912661 0.012286899
#> KRAS 0.002252598 0.002815748 0.0004095633 0.000614345
#> MGA 0.056314954 0.070393693 0.0102390826 0.015358624
#> NF1 0.069830543 0.087288179 0.0126964624 0.019044694
#> PIK3CA 0.002252598 0.002815748 0.0004095633 0.000614345
#> PTPRD 0.031536374 0.039420468 0.0057338862 0.008600829
#> PTPRT 0.027031178 0.033788973 0.0049147596 0.007372139
#> RB1 0.042799365 0.053499206 0.0077817028 0.011672554
#> RBM10 0.065325347 0.081656684 0.0118773358 0.017816004
#> SETBP1 0.024778580 0.030973225 0.0045051963 0.006757795
#> SETD2 0.047304562 0.059130702 0.0086008294 0.012901244
#> SMAD4 0.015768187 0.019710234 0.0028669431 0.004300415
#> SMARCA4 0.047304562 0.059130702 0.0086008294 0.012901244
#> STK11 0.114882507 0.143603133 0.0208877285 0.031331593
#> TP53 0.218502022 0.273127528 0.0397276404 0.059591461
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-95-8494-01 TCGA-97-7547-01 TCGA-97-7552-01 TCGA-97-8172-01
#> ARID1A 0.0101366918 0.019351866 0.0064506220 0.044232837
#> ATM 0.0101366918 0.019351866 0.0064506220 0.044232837
#> BRAF 0.0022525982 0.004300415 0.0014334716 0.009829519
#> CDKN2A 0.0039420468 0.007525726 0.0025085752 0.017201659
#> CMTR2 0.0095735422 0.018276762 0.0060922541 0.041775457
#> CTNNB1 0.0005631495 0.001075104 0.0003583679 0.002457380
#> EGFR 0.0168944863 0.032253110 0.0107510367 0.073721395
#> KEAP1 0.0112629908 0.021502073 0.0071673578 0.049147596
#> KRAS 0.0005631495 0.001075104 0.0003583679 0.002457380
#> MGA 0.0140787385 0.026877592 0.0089591973 0.061434495
#> NF1 0.0174576358 0.033328214 0.0111094046 0.076178774
#> PIK3CA 0.0005631495 0.001075104 0.0003583679 0.002457380
#> PTPRD 0.0078840936 0.015051451 0.0050171505 0.034403317
#> PTPRT 0.0067577945 0.012901244 0.0043004147 0.029488558
#> RB1 0.0106998413 0.020426970 0.0068089899 0.046690217
#> RBM10 0.0163313367 0.031178006 0.0103926688 0.071264015
#> SETBP1 0.0061946450 0.011826140 0.0039420468 0.027031178
#> SETD2 0.0118261404 0.022577177 0.0075257257 0.051604976
#> SMAD4 0.0039420468 0.007525726 0.0025085752 0.017201659
#> SMARCA4 0.0118261404 0.022577177 0.0075257257 0.051604976
#> STK11 0.0287206266 0.054830287 0.0182767624 0.125326371
#> TP53 0.0546255056 0.104285056 0.0347616854 0.238365842
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-97-8552-01 TCGA-97-A4M2-01 TCGA-97-A4M6-01 TCGA-99-7458-01
#> ARID1A 0.0055291046 9.215174e-04 0.0055291046 0.065427738
#> ATM 0.0055291046 9.215174e-04 0.0055291046 0.065427738
#> BRAF 0.0012286899 2.047817e-04 0.0012286899 0.014539497
#> CDKN2A 0.0021502073 3.583679e-04 0.0021502073 0.025444120
#> CMTR2 0.0052219321 8.703220e-04 0.0052219321 0.061792863
#> CTNNB1 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> EGFR 0.0092151743 1.535862e-03 0.0092151743 0.109046229
#> KEAP1 0.0061434495 1.023908e-03 0.0061434495 0.072697486
#> KRAS 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> MGA 0.0076793119 1.279885e-03 0.0076793119 0.090871858
#> NF1 0.0095223468 1.587058e-03 0.0095223468 0.112681104
#> PIK3CA 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> PTPRD 0.0043004147 7.167358e-04 0.0043004147 0.050888240
#> PTPRT 0.0036860697 6.143450e-04 0.0036860697 0.043618492
#> RB1 0.0058362771 9.727128e-04 0.0058362771 0.069062612
#> RBM10 0.0089080018 1.484667e-03 0.0089080018 0.105411355
#> SETBP1 0.0033788973 5.631495e-04 0.0033788973 0.039983617
#> SETD2 0.0064506220 1.075104e-03 0.0064506220 0.076332361
#> SMAD4 0.0021502073 3.583679e-04 0.0021502073 0.025444120
#> SMARCA4 0.0064506220 1.075104e-03 0.0064506220 0.076332361
#> STK11 0.0156657963 2.610966e-03 0.0156657963 0.185378590
#> TP53 0.0297957303 4.965955e-03 0.0297957303 0.352582809
#> U2AF1 0.0000000000 0.000000e+00 0.0000000000 0.000000000
#> TCGA-99-AA5R-01 TCGA-J2-8192-01 TCGA-J2-A4AE-01 TCGA-L4-A4E6-01
#> ARID1A 0.0092151743 0.011058209 0.0046075872 0
#> ATM 0.0092151743 0.011058209 0.0046075872 0
#> BRAF 0.0020478165 0.002457380 0.0010239083 0
#> CDKN2A 0.0035836789 0.004300415 0.0017918395 0
#> CMTR2 0.0087032202 0.010443864 0.0043516101 0
#> CTNNB1 0.0005119541 0.000614345 0.0002559771 0
#> EGFR 0.0153586239 0.018430349 0.0076793119 0
#> KEAP1 0.0102390826 0.012286899 0.0051195413 0
#> KRAS 0.0005119541 0.000614345 0.0002559771 0
#> MGA 0.0127988532 0.015358624 0.0063994266 0
#> NF1 0.0158705780 0.019044694 0.0079352890 0
#> PIK3CA 0.0005119541 0.000614345 0.0002559771 0
#> PTPRD 0.0071673578 0.008600829 0.0035836789 0
#> PTPRT 0.0061434495 0.007372139 0.0030717248 0
#> RB1 0.0097271284 0.011672554 0.0048635642 0
#> RBM10 0.0148466697 0.017816004 0.0074233349 0
#> SETBP1 0.0056314954 0.006757795 0.0028157477 0
#> SETD2 0.0107510367 0.012901244 0.0053755184 0
#> SMAD4 0.0035836789 0.004300415 0.0017918395 0
#> SMARCA4 0.0107510367 0.012901244 0.0053755184 0
#> STK11 0.0261096606 0.031331593 0.0130548303 0
#> TP53 0.0496595505 0.059591461 0.0248297753 0
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0
#> TCGA-MP-A4T6-01 TCGA-MP-A4TC-01 TCGA-MP-A4TH-01 TCGA-MP-A4TJ-01
#> ARID1A 0.0055291046 0.032253110 0.019351866 0.0092151743
#> ATM 0.0055291046 0.032253110 0.019351866 0.0092151743
#> BRAF 0.0012286899 0.007167358 0.004300415 0.0020478165
#> CDKN2A 0.0021502073 0.012542876 0.007525726 0.0035836789
#> CMTR2 0.0052219321 0.030461271 0.018276762 0.0087032202
#> CTNNB1 0.0003071725 0.001791839 0.001075104 0.0005119541
#> EGFR 0.0092151743 0.053755184 0.032253110 0.0153586239
#> KEAP1 0.0061434495 0.035836789 0.021502073 0.0102390826
#> KRAS 0.0003071725 0.001791839 0.001075104 0.0005119541
#> MGA 0.0076793119 0.044795986 0.026877592 0.0127988532
#> NF1 0.0095223468 0.055547023 0.033328214 0.0158705780
#> PIK3CA 0.0003071725 0.001791839 0.001075104 0.0005119541
#> PTPRD 0.0043004147 0.025085752 0.015051451 0.0071673578
#> PTPRT 0.0036860697 0.021502073 0.012901244 0.0061434495
#> RB1 0.0058362771 0.034044950 0.020426970 0.0097271284
#> RBM10 0.0089080018 0.051963344 0.031178006 0.0148466697
#> SETBP1 0.0033788973 0.019710234 0.011826140 0.0056314954
#> SETD2 0.0064506220 0.037628628 0.022577177 0.0107510367
#> SMAD4 0.0021502073 0.012542876 0.007525726 0.0035836789
#> SMARCA4 0.0064506220 0.037628628 0.022577177 0.0107510367
#> STK11 0.0156657963 0.091383812 0.054830287 0.0261096606
#> TP53 0.0297957303 0.173808427 0.104285056 0.0496595505
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-MP-A5C7-01 TCGA-NJ-A4YF-01 TCGA-NJ-A55A-01 TCGA-NJ-A7XG-01
#> ARID1A 0.0082936569 0.080172017 0.0046075872 0.0046075872
#> ATM 0.0082936569 0.080172017 0.0046075872 0.0046075872
#> BRAF 0.0018430349 0.017816004 0.0010239083 0.0010239083
#> CDKN2A 0.0032253110 0.031178006 0.0017918395 0.0017918395
#> CMTR2 0.0078328982 0.075718016 0.0043516101 0.0043516101
#> CTNNB1 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> EGFR 0.0138227615 0.133620028 0.0076793119 0.0076793119
#> KEAP1 0.0092151743 0.089080018 0.0051195413 0.0051195413
#> KRAS 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> MGA 0.0115189679 0.111350023 0.0063994266 0.0063994266
#> NF1 0.0142835202 0.138074029 0.0079352890 0.0079352890
#> PIK3CA 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> PTPRD 0.0064506220 0.062356013 0.0035836789 0.0035836789
#> PTPRT 0.0055291046 0.053448011 0.0030717248 0.0030717248
#> RB1 0.0087544156 0.084626018 0.0048635642 0.0048635642
#> RBM10 0.0133620028 0.129166027 0.0074233349 0.0074233349
#> SETBP1 0.0050683459 0.048994010 0.0028157477 0.0028157477
#> SETD2 0.0096759330 0.093534019 0.0053755184 0.0053755184
#> SMAD4 0.0032253110 0.031178006 0.0017918395 0.0017918395
#> SMARCA4 0.0096759330 0.093534019 0.0053755184 0.0053755184
#> STK11 0.0234986945 0.227154047 0.0130548303 0.0130548303
#> TP53 0.0446935955 0.432038089 0.0248297753 0.0248297753
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-O1-A52J-01 TCGA-S2-AA1A-01
#> ARID1A 0.019351866 0.0129012440
#> ATM 0.019351866 0.0129012440
#> BRAF 0.004300415 0.0028669431
#> CDKN2A 0.007525726 0.0050171505
#> CMTR2 0.018276762 0.0121845083
#> CTNNB1 0.001075104 0.0007167358
#> EGFR 0.032253110 0.0215020734
#> KEAP1 0.021502073 0.0143347156
#> KRAS 0.001075104 0.0007167358
#> MGA 0.026877592 0.0179183945
#> NF1 0.033328214 0.0222188092
#> PIK3CA 0.001075104 0.0007167358
#> PTPRD 0.015051451 0.0100343009
#> PTPRT 0.012901244 0.0086008294
#> RB1 0.020426970 0.0136179798
#> RBM10 0.031178006 0.0207853376
#> SETBP1 0.011826140 0.0078840936
#> SETD2 0.022577177 0.0150514514
#> SMAD4 0.007525726 0.0050171505
#> SMARCA4 0.022577177 0.0150514514
#> STK11 0.054830287 0.0365535248
#> TP53 0.104285056 0.0695233707
#> U2AF1 0.000000000 0.0000000000
#>
#> $template.obj$truncating$LUAD_weight
#> [1] 0.61680233 1.15650438 1.02800389 5.29422004 0.43690165 0.46260175
#> [7] 1.87610710 0.79670302 4.52321712 2.77561051 0.51400195 1.25930477
#> [13] 3.28961245 0.56540214 1.13080428 0.66820253 0.92520350 0.25700097
#> [19] 0.15420058 3.21251216 0.71960272 2.08170788 0.07710029 0.46260175
#> [25] 2.05600778 1.28500486 0.20560078 0.35980136 0.89950340 0.84810321
#> [31] 1.43920545 1.95320739 0.12850049 2.95551119 1.90180720 0.33410126
#> [37] 3.05831158 1.02800389 0.56540214 0.10280039 0.02570010 1.46490554
#> [43] 0.61680233 0.51400195 0.23130088 1.05370399 0.20560078 1.13080428
#> [49] 0.28270107 0.61680233 1.20790457 0.48830185 0.89950340 1.56770593
#> [55] 3.75221420 0.82240311 0.59110224 2.46720934 1.67050632 2.15880817
#> [61] 0.79670302 0.30840117 1.46490554 0.33410126 0.41120156 1.07940409
#> [67] 0.05140019 0.53970204 0.56540214 0.59110224 0.51400195 0.23130088
#> [73] 1.05370399 0.87380331 0.46260175 0.12850049 1.77330671 3.80361440
#> [79] 1.79900681 1.85040700 2.15880817 0.30840117 0.28270107 0.33410126
#> [85] 0.74530282 0.23130088 3.64941381 0.30840117 1.41350535 0.28270107
#> [91] 0.28270107 1.25930477 0.25700097 0.15420058 2.10740798 0.23130088
#> [97] 0.97660370 0.95090360 2.26160856 0.25700097 0.38550146 0.77100292
#> [103] 0.28270107 0.10280039 4.34331644 0.79670302 1.51630574 1.15650438
#> [109] 1.07940409 0.59110224 0.53970204 1.46490554 1.43920545 0.79670302
#> [115] 0.35980136 1.36210516 0.46260175 0.41120156 0.15420058 1.51630574
#> [121] 0.74530282 0.10280039 1.23360467 0.23130088 1.05370399 0.74530282
#> [127] 0.56540214 0.43690165 0.59110224 0.30840117 0.28270107 0.48830185
#> [133] 3.80361440 0.92520350 0.66820253 0.82240311 0.43690165 5.08861926
#> [139] 1.56770593 0.77100292 3.10971177 0.28270107 1.46490554 1.43920545
#> [145] 0.46260175 0.28270107 0.97660370 1.85040700 0.87380331 0.87380331
#> [151] 0.51400195 1.07940409 2.26160856 0.07710029 7.50442840 0.71960272
#> [157] 1.90180720 0.07710029 1.02800389 0.66820253 0.30840117 1.56770593
#> [163] 1.90180720 1.20790457 0.87380331 0.17990068 4.39471663 1.10510418
#> [169] 0.97660370 0.74530282 0.66820253 2.28730866 0.12850049 0.28270107
#> [175] 0.33410126 0.20560078 1.51630574 0.10280039 0.74530282 0.33410126
#> [181] 0.07710029 0.23130088 0.51400195 0.17990068 0.25700097 1.67050632
#> [187] 0.48830185 1.87610710 0.23130088 0.33410126 0.38550146 1.82470691
#> [193] 1.43920545 0.56540214 3.52091333 0.25700097 0.33410126 0.28270107
#> [199] 1.25930477 0.12850049 0.28270107 0.59110224 1.74760661 0.92520350
#> [205] 1.67050632 1.87610710 2.80131060 0.33410126 0.41120156 1.20790457
#> [211] 0.66820253 1.05370399 1.28500486 0.35980136 0.61680233 0.30840117
#> [217] 0.10280039 3.08401167 2.00460759 0.64250243 0.15420058 0.23130088
#> [223] 1.20790457 2.00460759 0.69390263 0.05140019 0.71960272 0.84810321
#> [229] 1.15650438 0.69390263 0.43690165 1.25930477 0.56540214 0.41120156
#> [235] 5.11431936 0.95090360 1.20790457 0.25700097 0.48830185 0.69390263
#> [241] 0.38550146 2.80131060 0.66820253 1.31070496 1.07940409 0.59110224
#> [247] 2.23590846 0.35980136 0.84810321 3.13541187 0.51400195 1.61910613
#> [253] 0.84810321 3.03261148 0.84810321 0.61680233 0.23130088 0.10280039
#> [259] 0.59110224 0.64250243 0.02570010 0.61680233 0.25700097 0.15420058
#> [265] 0.12850049 0.30840117 1.46490554 0.02570010 0.95090360 0.51400195
#> [271] 1.90180720 0.12850049 1.87610710 1.20790457 1.13080428 5.73112169
#> [277] 0.30840117 0.97660370 2.23590846 0.71960272 0.23130088 1.74760661
#> [283] 0.30840117 0.28270107 1.82470691 0.48830185 0.05140019 0.35980136
#> [289] 0.30840117 1.43920545 0.28270107 0.23130088 0.20560078 4.49751702
#> [295] 3.95781498 1.95320739 3.10971177 0.51400195 1.36210516 0.48830185
#> [301] 0.71960272 1.56770593 0.28270107 0.89950340 0.33410126 1.31070496
#> [307] 1.77330671 1.23360467 0.38550146 0.17990068 0.56540214 0.10280039
#> [313] 0.61680233 0.07710029 0.66820253 0.23130088 0.35980136 1.18220447
#> [319] 0.05140019 0.56540214 0.66820253 0.95090360 1.13080428 1.46490554
#> [325] 1.82470691 0.69390263 0.38550146 1.07940409 0.41120156 1.13080428
#> [331] 0.97660370 1.67050632 0.12850049 0.82240311 0.25700097 4.60031741
#> [337] 2.41580914 1.38780525 4.70311780 1.59340603 0.92520350 0.23130088
#> [343] 0.46260175 1.10510418 0.35980136 0.41120156 0.07710029 1.31070496
#> [349] 0.28270107 0.43690165 1.28500486 0.61680233 1.13080428 0.38550146
#> [355] 1.61910613 1.92750730 3.80361440 0.41120156 1.00230379 2.51860953
#> [361] 0.43690165 2.23590846 0.17990068 0.28270107 0.38550146 0.95090360
#> [367] 0.38550146 0.43690165 0.05140019 0.56540214 1.67050632 0.56540214
#> [373] 3.10971177 0.15420058 1.74760661 3.16111196 0.02570010 1.00230379
#> [379] 0.30840117 1.10510418 1.54200584 1.72190652 0.79670302 0.17990068
#> [385] 1.31070496 0.17990068 0.15420058 0.53970204 2.44150924 1.25930477
#> [391] 1.51630574 0.35980136 1.36210516 0.28270107 1.69620642 0.00000000
#> [397] 1.10510418 2.62140992 0.05140019 0.71960272 1.02800389 0.23130088
#> [403] 2.44150924 0.25700097 0.30840117 2.33870885 0.48830185 1.23360467
#> [409] 0.10280039 0.69390263 0.71960272 0.92520350 0.20560078 0.10280039
#> [415] 0.48830185 1.36210516 0.07710029 0.71960272 0.69390263 0.12850049
#> [421] 0.02570010 0.56540214 0.12850049 2.80131060 0.95090360 0.00000000
#> [427] 0.05140019 0.23130088 2.28730866 0.15420058 2.87841089 0.87380331
#> [433] 0.23130088 1.02800389 3.85501459 0.30840117 0.17990068 0.23130088
#> [439] 0.20560078 4.75451800 1.10510418 1.56770593 0.05140019 0.74530282
#> [445] 2.03030768 0.38550146 0.28270107 0.66820253 0.02570010 0.10280039
#> [451] 0.20560078 0.12850049 0.15420058 0.74530282 0.48830185 1.28500486
#> [457] 0.15420058 0.25700097 0.35980136 2.15880817 1.10510418 0.05140019
#> [463] 0.56540214 0.12850049 1.38780525 1.00230379 4.31761634 3.39241284
#> [469] 0.43690165 0.05140019 1.05370399 0.00000000 0.84810321 0.51400195
#> [475] 0.20560078 0.10280039 1.13080428 1.41350535 0.20560078 0.30840117
#> [481] 0.28270107 0.53970204 0.17990068 1.23360467 0.15420058 0.02570010
#> [487] 0.15420058 1.82470691 0.25700097 0.30840117 0.12850049 0.00000000
#> [493] 0.15420058 0.89950340 0.53970204 0.25700097 0.23130088 2.23590846
#> [499] 0.12850049 0.12850049 0.53970204 0.35980136
#>
#>
#>
#> $temp_mat
#> $temp_mat$missense
#> TCGA-05-4244-01 TCGA-05-4249-01 TCGA-05-4250-01 TCGA-05-4382-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.00000000
#> ATM 0.005397530 0.008377761 0.008940693 0.04397497
#> BRAF 0.043180238 0.067022087 0.071525547 0.35179973
#> CDKN2A 0.013493824 0.020944402 0.022351734 0.10993742
#> CMTR2 0.000000000 0.000000000 0.000000000 0.00000000
#> CTNNB1 0.016192589 0.025133283 0.026822080 0.13192490
#> EGFR 0.040481473 0.062833206 0.067055201 0.32981225
#> KEAP1 0.017541972 0.027227723 0.029057254 0.14291864
#> KRAS 0.207804894 0.322543793 0.344216696 1.00000000
#> MGA 0.000000000 0.000000000 0.000000000 0.00000000
#> NF1 0.001349382 0.002094440 0.002235173 0.01099374
#> PIK3CA 0.025638266 0.039794364 0.042468294 0.20888109
#> PTPRD 0.000000000 0.000000000 0.000000000 0.00000000
#> PTPRT 0.001349382 0.002094440 0.002235173 0.01099374
#> RB1 0.000000000 0.000000000 0.000000000 0.00000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.00000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.00000000
#> SETD2 0.002698765 0.004188880 0.004470347 0.02198748
#> SMAD4 0.009445677 0.014661081 0.015646213 0.07695619
#> SMARCA4 0.004048147 0.006283321 0.006705520 0.03298122
#> STK11 0.010795059 0.016755522 0.017881387 0.08794993
#> TP53 0.171371569 0.265993907 0.283867015 1.00000000
#> U2AF1 0.016192589 0.025133283 0.026822080 0.13192490
#> TCGA-05-4384-01 TCGA-05-4389-01 TCGA-05-4390-01 TCGA-05-4395-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.003311368 0.006192258 0.014503792 0.006523395
#> BRAF 0.026490943 0.049538064 0.116030332 0.052187159
#> CDKN2A 0.008278420 0.015480645 0.036259479 0.016308487
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.009934104 0.018576774 0.043511375 0.019570184
#> EGFR 0.024835259 0.046441935 0.108778436 0.048925461
#> KEAP1 0.010761946 0.020124839 0.047137322 0.021201033
#> KRAS 0.127487665 0.238401934 0.558395973 0.251150700
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.000827842 0.001548065 0.003625948 0.001630849
#> PIK3CA 0.015728998 0.029413226 0.068893010 0.030986125
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.000827842 0.001548065 0.003625948 0.001630849
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.001655684 0.003096129 0.007251896 0.003261697
#> SMAD4 0.005794894 0.010836452 0.025381635 0.011415941
#> SMARCA4 0.002483526 0.004644194 0.010877844 0.004892546
#> STK11 0.006622736 0.012384516 0.029007583 0.013046790
#> TP53 0.105135932 0.196604192 0.460495381 0.207117785
#> U2AF1 0.009934104 0.018576774 0.043511375 0.019570184
#> TCGA-05-4396-01 TCGA-05-4397-01 TCGA-05-4403-01 TCGA-05-4405-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.036391934 0.020795391 0.0034438226 0.010298354
#> BRAF 0.291135468 0.166363125 0.0275505811 0.082386834
#> CDKN2A 0.090979834 0.051988476 0.0086095566 0.025745886
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.109175801 0.062386172 0.0103314679 0.030895063
#> EGFR 0.272939501 0.155965429 0.0258286698 0.077237657
#> KEAP1 0.118273784 0.067585019 0.0111924236 0.033469651
#> KRAS 1.000000000 0.800622537 0.1325871718 0.396486639
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.009097983 0.005198848 0.0008609557 0.002574589
#> PIK3CA 0.172861684 0.098778105 0.0163581576 0.048917183
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.009097983 0.005198848 0.0008609557 0.002574589
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.018195967 0.010397695 0.0017219113 0.005149177
#> SMAD4 0.063685884 0.036391934 0.0060266896 0.018022120
#> SMARCA4 0.027293950 0.015596543 0.0025828670 0.007723766
#> STK11 0.072783867 0.041590781 0.0068876453 0.020596709
#> TP53 1.000000000 0.660253651 0.1093413689 0.326972747
#> U2AF1 0.109175801 0.062386172 0.0103314679 0.030895063
#> TCGA-05-4410-01 TCGA-05-4415-01 TCGA-05-4417-01 TCGA-05-4418-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.029007583 0.005331302 0.007814828 0.007086327
#> BRAF 0.232060664 0.042650419 0.062518626 0.056690619
#> CDKN2A 0.072518958 0.013328256 0.019537071 0.017715818
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.087022749 0.015993907 0.023444485 0.021258982
#> EGFR 0.217556873 0.039984768 0.058611212 0.053147455
#> KEAP1 0.094274645 0.017326733 0.025398192 0.023030564
#> KRAS 1.000000000 0.205255141 0.300870890 0.272823603
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007251896 0.001332826 0.001953707 0.001771582
#> PIK3CA 0.137786019 0.025323686 0.037120434 0.033660055
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007251896 0.001332826 0.001953707 0.001771582
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014503792 0.002665651 0.003907414 0.003543164
#> SMAD4 0.050763270 0.009329779 0.013675950 0.012401073
#> SMARCA4 0.021755687 0.003998477 0.005861121 0.005314746
#> STK11 0.058015166 0.010662605 0.015629657 0.014172655
#> TP53 0.920990761 0.169268850 0.248120799 0.224990894
#> U2AF1 0.087022749 0.015993907 0.023444485 0.021258982
#> TCGA-05-4420-01 TCGA-05-4422-01 TCGA-05-4425-01 TCGA-05-4427-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.007152555 0.0009934104 0.0011258651 0.026788967
#> BRAF 0.057220438 0.0079472830 0.0090069208 0.214311732
#> CDKN2A 0.017881387 0.0024835259 0.0028146627 0.066972416
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.021457664 0.0029802311 0.0033775953 0.080366900
#> EGFR 0.053644160 0.0074505778 0.0084439882 0.200917249
#> KEAP1 0.023245803 0.0032285837 0.0036590616 0.087064141
#> KRAS 0.275373357 0.0382462995 0.0433458062 1.000000000
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.001788139 0.0002483526 0.0002814663 0.006697242
#> PIK3CA 0.033974635 0.0047186993 0.0053478592 0.127247591
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.001788139 0.0002483526 0.0002814663 0.006697242
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.003576277 0.0004967052 0.0005629325 0.013394483
#> SMAD4 0.012516971 0.0017384682 0.0019702639 0.046880691
#> SMARCA4 0.005364416 0.0007450578 0.0008443988 0.020091725
#> STK11 0.014305109 0.0019868208 0.0022517302 0.053577933
#> TP53 0.227093612 0.0315407795 0.0357462168 0.850549687
#> U2AF1 0.021457664 0.0029802311 0.0033775953 0.080366900
#> TCGA-05-4430-01 TCGA-05-4432-01 TCGA-05-4433-01 TCGA-05-5423-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.007682374 0.014768701 0.0009602967 0.003940528
#> BRAF 0.061458989 0.118149608 0.0076823736 0.031524223
#> CDKN2A 0.019205934 0.036921752 0.0024007417 0.009851320
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.023047121 0.044306103 0.0028808901 0.011821583
#> EGFR 0.057617802 0.110765257 0.0072022252 0.029553959
#> KEAP1 0.024967714 0.047998278 0.0031209643 0.012806715
#> KRAS 0.295771383 0.568594987 0.0369714229 0.151710322
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001920593 0.003692175 0.0002400742 0.000985132
#> PIK3CA 0.036491275 0.070151330 0.0045614093 0.018717507
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001920593 0.003692175 0.0002400742 0.000985132
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003841187 0.007384350 0.0004801483 0.001970264
#> SMAD4 0.013444154 0.025845227 0.0016805192 0.006895924
#> SMARCA4 0.005761780 0.011076526 0.0007202225 0.002955396
#> STK11 0.015364747 0.029537402 0.0019205934 0.007881056
#> TP53 0.243915361 0.468906255 0.0304894202 0.125111759
#> U2AF1 0.023047121 0.044306103 0.0028808901 0.011821583
#> TCGA-05-5425-01 TCGA-05-5428-01 TCGA-05-5429-01 TCGA-35-3615-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.015066724 0.009602967 0.0008609557 0.0029140038
#> BRAF 0.120533793 0.076823736 0.0068876453 0.0233120302
#> CDKN2A 0.037666810 0.024007417 0.0021523892 0.0072850094
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.045200172 0.028808901 0.0025828670 0.0087420113
#> EGFR 0.113000430 0.072022252 0.0064571675 0.0218550283
#> KEAP1 0.048966853 0.031209643 0.0027981059 0.0094705123
#> KRAS 0.580068876 0.369714229 0.0331467929 0.1121891453
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.003766681 0.002400742 0.0002152389 0.0007285009
#> PIK3CA 0.071566939 0.045614093 0.0040895394 0.0138415179
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.003766681 0.002400742 0.0002152389 0.0007285009
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.007533362 0.004801483 0.0004304778 0.0014570019
#> SMAD4 0.026366767 0.016805192 0.0015066724 0.0050995066
#> SMARCA4 0.011300043 0.007202225 0.0006457167 0.0021855028
#> STK11 0.030133448 0.019205934 0.0017219113 0.0058280075
#> TP53 0.478368489 0.304894202 0.0273353422 0.0925196199
#> U2AF1 0.045200172 0.028808901 0.0025828670 0.0087420113
#> TCGA-35-4122-01 TCGA-35-4123-01 TCGA-35-5375-01 TCGA-38-4625-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008443988 0.006953873 0.010795059 0.015000497
#> BRAF 0.067551906 0.055630981 0.086360476 0.120003974
#> CDKN2A 0.021109971 0.017384682 0.026987649 0.037501242
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025331965 0.020861618 0.032385178 0.045001490
#> EGFR 0.063329912 0.052154045 0.080962946 0.112503725
#> KEAP1 0.027442962 0.022600086 0.035083943 0.048751614
#> KRAS 0.325093546 0.267724097 0.415609788 0.577519123
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002110997 0.001738468 0.002698765 0.003750124
#> PIK3CA 0.040108944 0.033030895 0.051276532 0.071252359
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002110997 0.001738468 0.002698765 0.003750124
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004221994 0.003476936 0.005397530 0.007500248
#> SMAD4 0.014776979 0.012169277 0.018891354 0.026250869
#> SMARCA4 0.006332991 0.005215404 0.008096295 0.011250373
#> STK11 0.016887976 0.013907745 0.021590119 0.030000993
#> TP53 0.268096626 0.220785456 0.342743137 0.476265770
#> U2AF1 0.025331965 0.020861618 0.032385178 0.045001490
#> TCGA-38-4627-01 TCGA-38-4631-01 TCGA-38-4632-01 TCGA-38-6178-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0007947283 0.018643001 0.013973973 0.0017550250
#> BRAF 0.0063578264 0.149144011 0.111791781 0.0140402000
#> CDKN2A 0.0019868208 0.046607504 0.034934932 0.0043875625
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0023841849 0.055929004 0.041921918 0.0052650750
#> EGFR 0.0059604623 0.139822511 0.104804795 0.0131626875
#> KEAP1 0.0025828670 0.060589755 0.045415411 0.0057038313
#> KRAS 0.0305970396 0.717755555 0.537997947 0.0675684625
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0001986821 0.004660750 0.003493493 0.0004387563
#> PIK3CA 0.0037749594 0.088554257 0.066376370 0.0083363688
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0001986821 0.004660750 0.003493493 0.0004387563
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0003973642 0.009321501 0.006986986 0.0008775125
#> SMAD4 0.0013907745 0.032625252 0.024454452 0.0030712938
#> SMARCA4 0.0005960462 0.013982251 0.010480479 0.0013162688
#> STK11 0.0015894566 0.037286003 0.027947945 0.0035100500
#> TP53 0.0252326236 0.591915295 0.443673632 0.0557220438
#> U2AF1 0.0023841849 0.055929004 0.041921918 0.0052650750
#> TCGA-44-2656-01 TCGA-44-2657-01 TCGA-44-2662-01 TCGA-44-2665-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.020927845 0.010761946 0.005364416 0.0012252061
#> BRAF 0.167422762 0.086095566 0.042915328 0.0098016491
#> CDKN2A 0.052319613 0.026904864 0.013411040 0.0030630153
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.062783536 0.032285837 0.016093248 0.0036756184
#> EGFR 0.156958840 0.080714593 0.040233120 0.0091890460
#> KEAP1 0.068015497 0.034976324 0.017434352 0.0039819199
#> KRAS 0.805722044 0.414334912 0.206530018 0.0471704361
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.005231961 0.002690486 0.001341104 0.0003063015
#> PIK3CA 0.099407265 0.051119242 0.025480976 0.0058197291
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.005231961 0.002690486 0.001341104 0.0003063015
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.010463923 0.005380973 0.002682208 0.0006126031
#> SMAD4 0.036623729 0.018833405 0.009387728 0.0021441107
#> SMARCA4 0.015695884 0.008071459 0.004023312 0.0009189046
#> STK11 0.041855691 0.021523892 0.010728832 0.0024504123
#> TP53 0.664459088 0.341691778 0.170320209 0.0389002947
#> U2AF1 0.062783536 0.032285837 0.016093248 0.0036756184
#> TCGA-44-2666-01 TCGA-44-2668-01 TCGA-44-3396-01 TCGA-44-5643-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0011589788 0.008675784 0.005198848 0.0031126859
#> BRAF 0.0092718302 0.069406272 0.041590781 0.0249014868
#> CDKN2A 0.0028974469 0.021689460 0.012997119 0.0077817146
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0034769363 0.026027352 0.015596543 0.0093380576
#> EGFR 0.0086923408 0.065068380 0.038991357 0.0233451439
#> KEAP1 0.0037666810 0.028196298 0.016896255 0.0101162290
#> KRAS 0.0446206828 0.334017683 0.200155634 0.1198384052
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0002897447 0.002168946 0.001299712 0.0007781715
#> PIK3CA 0.0055051492 0.041209974 0.024694526 0.0147852578
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0002897447 0.002168946 0.001299712 0.0007781715
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0005794894 0.004337892 0.002599424 0.0015563429
#> SMAD4 0.0020282129 0.015182622 0.009097983 0.0054472002
#> SMARCA4 0.0008692341 0.006506838 0.003899136 0.0023345144
#> STK11 0.0023179575 0.017351568 0.010397695 0.0062253717
#> TP53 0.0367975761 0.275456141 0.165063413 0.0988277758
#> U2AF1 0.0034769363 0.026027352 0.015596543 0.0093380576
#> TCGA-44-5645-01 TCGA-44-6145-01 TCGA-44-6146-01 TCGA-44-6774-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0008940693 0.008311533 0.0009934104 0.007715487
#> BRAF 0.0071525547 0.066492268 0.0079472830 0.061723898
#> CDKN2A 0.0022351734 0.020778834 0.0024835259 0.019288718
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0026822080 0.024934600 0.0029802311 0.023146462
#> EGFR 0.0067055201 0.062336501 0.0074505778 0.057866155
#> KEAP1 0.0029057254 0.027012484 0.0032285837 0.025075334
#> KRAS 0.0344216696 0.319994040 0.0382462995 0.297046260
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002235173 0.002077883 0.0002483526 0.001928872
#> PIK3CA 0.0042468294 0.039479784 0.0047186993 0.036648565
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002235173 0.002077883 0.0002483526 0.001928872
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004470347 0.004155767 0.0004967052 0.003857744
#> SMAD4 0.0015646213 0.014545184 0.0017384682 0.013502103
#> SMARCA4 0.0006705520 0.006233650 0.0007450578 0.005786615
#> STK11 0.0017881387 0.016623067 0.0019868208 0.015430975
#> TP53 0.0283867015 0.263891188 0.0315407795 0.244966721
#> U2AF1 0.0026822080 0.024934600 0.0029802311 0.023146462
#> TCGA-44-6775-01 TCGA-44-6776-01 TCGA-44-6777-01 TCGA-44-7659-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0016887976 0.005331302 0.010099672 0.0039074142
#> BRAF 0.0135103811 0.042650419 0.080797377 0.0312593132
#> CDKN2A 0.0042219941 0.013328256 0.025249180 0.0097685354
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0050663929 0.015993907 0.030299017 0.0117222425
#> EGFR 0.0126659823 0.039984768 0.075747541 0.0293056061
#> KEAP1 0.0054885923 0.017326733 0.032823935 0.0126990960
#> KRAS 0.0650187092 0.205255141 0.388837379 0.1504354449
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0004221994 0.001332826 0.002524918 0.0009768535
#> PIK3CA 0.0080217888 0.025323686 0.047973443 0.0185602172
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0004221994 0.001332826 0.002524918 0.0009768535
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0008443988 0.002665651 0.005049836 0.0019537071
#> SMAD4 0.0029553959 0.009329779 0.017674426 0.0068379748
#> SMARCA4 0.0012665982 0.003998477 0.007574754 0.0029305606
#> STK11 0.0033775953 0.010662605 0.020199344 0.0078148283
#> TP53 0.0536193251 0.169268850 0.320664592 0.1240603994
#> U2AF1 0.0050663929 0.015993907 0.030299017 0.0117222425
#> TCGA-44-7661-01 TCGA-44-7662-01 TCGA-44-7670-01 TCGA-44-7671-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.007881056 0.015662770 0.028245968 0.005496871
#> BRAF 0.063048445 0.125302162 0.225967747 0.043974966
#> CDKN2A 0.019702639 0.039156926 0.070614921 0.013742177
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.023643167 0.046988311 0.084737905 0.016490612
#> EGFR 0.059107917 0.117470777 0.211844763 0.041226531
#> KEAP1 0.025613431 0.050904003 0.091799397 0.017864830
#> KRAS 0.303420643 0.603016656 1.000000000 0.211629524
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001970264 0.003915693 0.007061492 0.001374218
#> PIK3CA 0.037435014 0.074398159 0.134168350 0.026110136
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001970264 0.003915693 0.007061492 0.001374218
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.003940528 0.007831385 0.014122984 0.002748435
#> SMAD4 0.013791847 0.027409848 0.049430445 0.009619524
#> SMARCA4 0.005910792 0.011747078 0.021184476 0.004122653
#> STK11 0.015762111 0.031325541 0.056491937 0.010993742
#> TP53 0.250223517 0.497292957 0.896809497 0.174525647
#> U2AF1 0.023643167 0.046988311 0.084737905 0.016490612
#> TCGA-44-7672-01 TCGA-44-8117-01 TCGA-44-8119-01 TCGA-44-8120-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.004371006 0.018974138 0.016623067 0.014901156
#> BRAF 0.034968045 0.151793106 0.132984536 0.119209245
#> CDKN2A 0.010927514 0.047435346 0.041557667 0.037252889
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.013113017 0.056922415 0.049869201 0.044703467
#> EGFR 0.032782542 0.142306037 0.124673002 0.111758668
#> KEAP1 0.014205768 0.061665949 0.054024968 0.048428756
#> KRAS 0.168283718 0.730504321 0.639988079 0.573694493
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001092751 0.004743535 0.004155767 0.003725289
#> PIK3CA 0.020762277 0.090127157 0.078959568 0.070780489
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001092751 0.004743535 0.004155767 0.003725289
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002185503 0.009487069 0.008311533 0.007450578
#> SMAD4 0.007649260 0.033204742 0.029090367 0.026077022
#> SMARCA4 0.003278254 0.014230604 0.012467300 0.011175867
#> STK11 0.008742011 0.037948276 0.033246134 0.029802311
#> TP53 0.138779430 0.602428888 0.527782377 0.473111692
#> U2AF1 0.013113017 0.056922415 0.049869201 0.044703467
#> TCGA-44-A47A-01 TCGA-44-A47G-01 TCGA-44-A4SS-01 TCGA-44-A4SU-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.005794894 0.0021523892 0.012715653 0.003940528
#> BRAF 0.046359151 0.0172191132 0.101725223 0.031524223
#> CDKN2A 0.014487235 0.0053809729 0.031789132 0.009851320
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.017384682 0.0064571675 0.038146959 0.011821583
#> EGFR 0.043461704 0.0161429186 0.095367396 0.029553959
#> KEAP1 0.018833405 0.0069952647 0.041325872 0.012806715
#> KRAS 0.223103414 0.0828669824 0.489552634 0.151710322
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001448723 0.0005380973 0.003178913 0.000985132
#> PIK3CA 0.027525746 0.0102238485 0.060399351 0.018717507
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001448723 0.0005380973 0.003178913 0.000985132
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.002897447 0.0010761946 0.006357826 0.001970264
#> SMAD4 0.010141064 0.0037666810 0.022252392 0.006895924
#> SMARCA4 0.004346170 0.0016142919 0.009536740 0.002955396
#> STK11 0.011589788 0.0043047783 0.025431306 0.007881056
#> TP53 0.183987880 0.0683383556 0.403721978 0.125111759
#> U2AF1 0.017384682 0.0064571675 0.038146959 0.011821583
#> TCGA-49-4486-01 TCGA-49-4488-01 TCGA-49-4490-01 TCGA-49-4494-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.004205437 0.007483692 0.0015232292 0.004900825
#> BRAF 0.033643498 0.059869532 0.0121858340 0.039206596
#> CDKN2A 0.010513593 0.018709229 0.0038080731 0.012252061
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.012616312 0.022451075 0.0045696877 0.014702474
#> EGFR 0.031540779 0.056127686 0.0114242193 0.036756184
#> KEAP1 0.013667671 0.024321997 0.0049504950 0.015927680
#> KRAS 0.161909335 0.288122123 0.0586443260 0.188681744
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001051359 0.001870923 0.0003808073 0.001225206
#> PIK3CA 0.019975827 0.035547535 0.0072353389 0.023278917
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001051359 0.001870923 0.0003808073 0.001225206
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.002102719 0.003741846 0.0007616146 0.002450412
#> SMAD4 0.007359515 0.013096460 0.0026656512 0.008576443
#> SMARCA4 0.003154078 0.005612769 0.0011424219 0.003675618
#> STK11 0.008410875 0.014967383 0.0030464585 0.009801649
#> TP53 0.133522633 0.237607206 0.0483625286 0.155601179
#> U2AF1 0.012616312 0.022451075 0.0045696877 0.014702474
#> TCGA-49-4505-01 TCGA-49-4506-01 TCGA-49-4507-01 TCGA-49-4510-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.005430643 0.0030464585 0.005298189 0.0016225703
#> BRAF 0.043445147 0.0243716679 0.042385509 0.0129805623
#> CDKN2A 0.013576608 0.0076161462 0.013245472 0.0040564257
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.016291930 0.0091393755 0.015894566 0.0048677109
#> EGFR 0.040729825 0.0228484387 0.039736415 0.0121692771
#> KEAP1 0.017649591 0.0099009901 0.017219113 0.0052733534
#> KRAS 0.209079771 0.1172886519 0.203980264 0.0624689559
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001357661 0.0007616146 0.001324547 0.0004056426
#> PIK3CA 0.025795556 0.0144706778 0.025166396 0.0077072088
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001357661 0.0007616146 0.001324547 0.0004056426
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.002715322 0.0015232292 0.002649094 0.0008112851
#> SMAD4 0.009503626 0.0053313024 0.009271830 0.0028394980
#> SMARCA4 0.004072983 0.0022848439 0.003973642 0.0012169277
#> STK11 0.010861287 0.0060929170 0.010596377 0.0032451406
#> TP53 0.172422928 0.0967250571 0.168217491 0.0515166065
#> U2AF1 0.016291930 0.0091393755 0.015894566 0.0048677109
#> TCGA-49-4514-01 TCGA-49-6744-01 TCGA-49-6745-01 TCGA-49-AAQV-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.008278420 0.006159144 0.0035100500 0.002053048
#> BRAF 0.066227359 0.049273155 0.0280804000 0.016424385
#> CDKN2A 0.020696050 0.015397861 0.0087751250 0.005132620
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.024835259 0.018477433 0.0105301500 0.006159144
#> EGFR 0.062088149 0.046193583 0.0263253750 0.015397861
#> KEAP1 0.026904864 0.020017219 0.0114076625 0.006672406
#> KRAS 0.318719163 0.237127057 0.1351369251 0.079042352
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.002069605 0.001539786 0.0008775125 0.000513262
#> PIK3CA 0.039322494 0.029255936 0.0166727375 0.009751979
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.002069605 0.001539786 0.0008775125 0.000513262
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.004139210 0.003079572 0.0017550250 0.001026524
#> SMAD4 0.014487235 0.010778503 0.0061425875 0.003592834
#> SMARCA4 0.006208815 0.004619358 0.0026325375 0.001539786
#> STK11 0.016556840 0.012318289 0.0070201000 0.004106096
#> TP53 0.262839829 0.195552833 0.1114440876 0.065184278
#> U2AF1 0.024835259 0.018477433 0.0105301500 0.006159144
#> TCGA-49-AAR9-01 TCGA-49-AARE-01 TCGA-49-AARN-01 TCGA-49-AARO-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.00000000
#> ATM 0.016159475 0.034338885 0.020464254 0.01529852
#> BRAF 0.129275804 0.274711083 0.163714030 0.12238816
#> CDKN2A 0.040398689 0.085847213 0.051160634 0.03824630
#> CMTR2 0.000000000 0.000000000 0.000000000 0.00000000
#> CTNNB1 0.048478426 0.103016656 0.061392761 0.04589556
#> EGFR 0.121196066 0.257541640 0.153481903 0.11473890
#> KEAP1 0.052518295 0.111601378 0.066508825 0.04972019
#> KRAS 0.622139806 1.000000000 0.787873771 0.58899301
#> MGA 0.000000000 0.000000000 0.000000000 0.00000000
#> NF1 0.004039869 0.008584721 0.005116063 0.00382463
#> PIK3CA 0.076757509 0.163109706 0.097205205 0.07266797
#> PTPRD 0.000000000 0.000000000 0.000000000 0.00000000
#> PTPRT 0.004039869 0.008584721 0.005116063 0.00382463
#> RB1 0.000000000 0.000000000 0.000000000 0.00000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.00000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.00000000
#> SETD2 0.008079738 0.017169443 0.010232127 0.00764926
#> SMAD4 0.028279082 0.060093049 0.035812444 0.02677241
#> SMARCA4 0.012119607 0.025754164 0.015348190 0.01147389
#> STK11 0.032318951 0.068677771 0.040928508 0.03059704
#> TP53 0.513063346 1.000000000 0.649740058 0.48572800
#> U2AF1 0.048478426 0.103016656 0.061392761 0.04589556
#> TCGA-49-AARQ-01 TCGA-4B-A93V-01 TCGA-50-5044-01 TCGA-50-5051-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.018245637 0.0036756184 0.0036756184 0.0029802311
#> BRAF 0.145965098 0.0294049472 0.0294049472 0.0238418491
#> CDKN2A 0.045614093 0.0091890460 0.0091890460 0.0074505778
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.054736912 0.0110268552 0.0110268552 0.0089406934
#> EGFR 0.136842280 0.0275671380 0.0275671380 0.0223517335
#> KEAP1 0.059298321 0.0119457598 0.0119457598 0.0096857512
#> KRAS 0.702457035 0.1415113083 0.1415113083 0.1147388986
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.004561409 0.0009189046 0.0009189046 0.0007450578
#> PIK3CA 0.086666777 0.0174591874 0.0174591874 0.0141560979
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.004561409 0.0009189046 0.0009189046 0.0007450578
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.009122819 0.0018378092 0.0018378092 0.0014901156
#> SMAD4 0.031929865 0.0064323322 0.0064323322 0.0052154045
#> SMARCA4 0.013684228 0.0027567138 0.0027567138 0.0022351734
#> STK11 0.036491275 0.0073512368 0.0073512368 0.0059604623
#> TP53 0.579298983 0.1167008841 0.1167008841 0.0946223385
#> U2AF1 0.054736912 0.0110268552 0.0110268552 0.0089406934
#> TCGA-50-5066-01 TCGA-50-5068-01 TCGA-50-5930-01 TCGA-50-5932-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.007616146 0.0025497533 0.029106924 0.0018874797
#> BRAF 0.060929170 0.0203980264 0.232855393 0.0150998377
#> CDKN2A 0.019040366 0.0063743833 0.072767310 0.0047186993
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.022848439 0.0076492599 0.087320772 0.0056624392
#> EGFR 0.057121097 0.0191231498 0.218301931 0.0141560979
#> KEAP1 0.024752475 0.0082866982 0.094597503 0.0061343091
#> KRAS 0.293221630 0.0981655022 1.000000000 0.0726679691
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001904037 0.0006374383 0.007276731 0.0004718699
#> PIK3CA 0.036176695 0.0121113282 0.138257889 0.0089655287
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001904037 0.0006374383 0.007276731 0.0004718699
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.003808073 0.0012748767 0.014553462 0.0009437399
#> SMAD4 0.013328256 0.0044620683 0.050937117 0.0033030895
#> SMARCA4 0.005712110 0.0019123150 0.021830193 0.0014156098
#> STK11 0.015232292 0.0050995066 0.058213848 0.0037749594
#> TP53 0.241812643 0.0809546674 0.924144839 0.0599274810
#> U2AF1 0.022848439 0.0076492599 0.087320772 0.0056624392
#> TCGA-50-5933-01 TCGA-50-5936-01 TCGA-50-5939-01 TCGA-50-5941-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.014205768 0.0031457995 0.002053048 0.010397695
#> BRAF 0.113646147 0.0251663962 0.016424385 0.083181562
#> CDKN2A 0.035514421 0.0078644988 0.005132620 0.025994238
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.042617305 0.0094373986 0.006159144 0.031193086
#> EGFR 0.106543263 0.0235934965 0.015397861 0.077982715
#> KEAP1 0.046168747 0.0102238485 0.006672406 0.033792510
#> KRAS 0.546922084 0.1211132819 0.079042352 0.400311269
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.003551442 0.0007864499 0.000513262 0.002599424
#> PIK3CA 0.067477400 0.0149425478 0.009751979 0.049389053
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.003551442 0.0007864499 0.000513262 0.002599424
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.007102884 0.0015728998 0.001026524 0.005198848
#> SMAD4 0.024860095 0.0055051492 0.003592834 0.018195967
#> SMARCA4 0.010654326 0.0023593496 0.001539786 0.007798271
#> STK11 0.028411537 0.0062915991 0.004106096 0.020795391
#> TP53 0.451033147 0.0998791351 0.065184278 0.330126825
#> U2AF1 0.042617305 0.0094373986 0.006159144 0.031193086
#> TCGA-50-5942-01 TCGA-50-5944-01 TCGA-50-5946-01 TCGA-50-6591-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0016225703 0.0015563429 0.016589953 0.0015563429
#> BRAF 0.0129805623 0.0124507434 0.132719626 0.0124507434
#> CDKN2A 0.0040564257 0.0038908573 0.041474883 0.0038908573
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0048677109 0.0046690288 0.049769860 0.0046690288
#> EGFR 0.0121692771 0.0116725719 0.124424650 0.0116725719
#> KEAP1 0.0052733534 0.0050581145 0.053917348 0.0050581145
#> KRAS 0.0624689559 0.0599192026 0.638713202 0.0599192026
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0004056426 0.0003890857 0.004147488 0.0003890857
#> PIK3CA 0.0077072088 0.0073926289 0.078802278 0.0073926289
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0004056426 0.0003890857 0.004147488 0.0003890857
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0008112851 0.0007781715 0.008294977 0.0007781715
#> SMAD4 0.0028394980 0.0027236001 0.029032418 0.0027236001
#> SMARCA4 0.0012169277 0.0011672572 0.012442465 0.0011672572
#> STK11 0.0032451406 0.0031126859 0.033179907 0.0031126859
#> TP53 0.0515166065 0.0494138879 0.526731018 0.0494138879
#> U2AF1 0.0048677109 0.0046690288 0.049769860 0.0046690288
#> TCGA-50-6592-01 TCGA-50-6593-01 TCGA-50-6594-01 TCGA-50-6595-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.007450578 0.008079738 0.013046790 0.0027815491
#> BRAF 0.059604623 0.064637902 0.104374317 0.0222523925
#> CDKN2A 0.018626445 0.020199344 0.032616974 0.0069538726
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.022351734 0.024239213 0.039140369 0.0083446472
#> EGFR 0.055879334 0.060598033 0.097850922 0.0208616179
#> KEAP1 0.024214378 0.026259148 0.042402066 0.0090400344
#> KRAS 0.286847247 0.311069903 0.502301401 0.1070896387
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001862644 0.002019934 0.003261697 0.0006953873
#> PIK3CA 0.035390245 0.038378754 0.061972251 0.0132123580
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001862644 0.002019934 0.003261697 0.0006953873
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003725289 0.004039869 0.006523395 0.0013907745
#> SMAD4 0.013038511 0.014139541 0.022831882 0.0048677109
#> SMARCA4 0.005587933 0.006059803 0.009785092 0.0020861618
#> STK11 0.014901156 0.016159475 0.026093579 0.0055630981
#> TP53 0.236555846 0.256531673 0.414235571 0.0883141826
#> U2AF1 0.022351734 0.024239213 0.039140369 0.0083446472
#> TCGA-50-6673-01 TCGA-50-7109-01 TCGA-50-8459-01 TCGA-50-8460-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0022517302 0.006821418 0.0021523892 0.0008609557
#> BRAF 0.0180138415 0.054571343 0.0172191132 0.0068876453
#> CDKN2A 0.0056293255 0.017053545 0.0053809729 0.0021523892
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0067551906 0.020464254 0.0064571675 0.0025828670
#> EGFR 0.0168879764 0.051160634 0.0161429186 0.0064571675
#> KEAP1 0.0073181231 0.022169608 0.0069952647 0.0027981059
#> KRAS 0.0866916123 0.262624590 0.0828669824 0.0331467929
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0005629325 0.001705354 0.0005380973 0.0002152389
#> PIK3CA 0.0106957184 0.032401735 0.0102238485 0.0040895394
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0005629325 0.001705354 0.0005380973 0.0002152389
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0011258651 0.003410709 0.0010761946 0.0004304778
#> SMAD4 0.0039405278 0.011937481 0.0037666810 0.0015066724
#> SMARCA4 0.0016887976 0.005116063 0.0016142919 0.0006457167
#> STK11 0.0045034604 0.013642836 0.0043047783 0.0017219113
#> TP53 0.0714924335 0.216580019 0.0683383556 0.0273353422
#> U2AF1 0.0067551906 0.020464254 0.0064571675 0.0025828670
#> TCGA-53-7626-01 TCGA-53-7813-01 TCGA-53-A4EZ-01 TCGA-55-1592-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.028742674 0.003708732 0.012748767 0.014570019
#> BRAF 0.229941389 0.029669857 0.101990132 0.116560151
#> CDKN2A 0.071856684 0.009271830 0.031871916 0.036425047
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.086228021 0.011126196 0.038246300 0.043710057
#> EGFR 0.215570052 0.027815491 0.095615749 0.109275142
#> KEAP1 0.093413689 0.012053379 0.041433491 0.047352561
#> KRAS 1.000000000 0.142786185 0.490827511 0.560945727
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007185668 0.000927183 0.003187192 0.003642505
#> PIK3CA 0.136527700 0.017616477 0.060556641 0.069207590
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007185668 0.000927183 0.003187192 0.003642505
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014371337 0.001854366 0.006374383 0.007285009
#> SMAD4 0.050299679 0.006490281 0.022310341 0.025497533
#> SMARCA4 0.021557005 0.002781549 0.009561575 0.010927514
#> STK11 0.057485347 0.007417464 0.025497533 0.029140038
#> TP53 0.912579887 0.117752243 0.404773337 0.462598099
#> U2AF1 0.086228021 0.011126196 0.038246300 0.043710057
#> TCGA-55-1595-01 TCGA-55-1596-01 TCGA-55-6642-01 TCGA-55-6968-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008344647 0.004900825 0.003311368 0.013245472
#> BRAF 0.066757177 0.039206596 0.026490943 0.105963774
#> CDKN2A 0.020861618 0.012252061 0.008278420 0.033113679
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025033942 0.014702474 0.009934104 0.039736415
#> EGFR 0.062584854 0.036756184 0.024835259 0.099341038
#> KEAP1 0.027120103 0.015927680 0.010761946 0.043047783
#> KRAS 0.321268916 0.188681744 0.127487665 0.509950661
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002086162 0.001225206 0.000827842 0.003311368
#> PIK3CA 0.039637074 0.023278917 0.015728998 0.062915991
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002086162 0.001225206 0.000827842 0.003311368
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004172324 0.002450412 0.001655684 0.006622736
#> SMAD4 0.014603133 0.008576443 0.005794894 0.023179575
#> SMARCA4 0.006258485 0.003675618 0.002483526 0.009934104
#> STK11 0.016689294 0.009801649 0.006622736 0.026490943
#> TP53 0.264942548 0.155601179 0.105135932 0.420543727
#> U2AF1 0.025033942 0.014702474 0.009934104 0.039736415
#> TCGA-55-6969-01 TCGA-55-6970-01 TCGA-55-6975-01 TCGA-55-6979-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.012285175 0.004735256 0.002284844 0.015530316
#> BRAF 0.098281400 0.037882049 0.018278751 0.124242525
#> CDKN2A 0.030712938 0.011838140 0.005712110 0.038825789
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.036855525 0.014205768 0.006854532 0.046590947
#> EGFR 0.092138813 0.035514421 0.017136329 0.116477367
#> KEAP1 0.039926819 0.015389582 0.007425743 0.050473526
#> KRAS 0.472979238 0.182307361 0.087966489 0.597917150
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003071294 0.001183814 0.000571211 0.003882579
#> PIK3CA 0.058354581 0.022492467 0.010853008 0.073768999
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003071294 0.001183814 0.000571211 0.003882579
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.006142588 0.002367628 0.001142422 0.007765158
#> SMAD4 0.021499056 0.008286698 0.003998477 0.027178052
#> SMARCA4 0.009213881 0.003551442 0.001713633 0.011647737
#> STK11 0.024570350 0.009470512 0.004569688 0.031060631
#> TP53 0.390054306 0.150344382 0.072543793 0.493087519
#> U2AF1 0.036855525 0.014205768 0.006854532 0.046590947
#> TCGA-55-6981-01 TCGA-55-6983-01 TCGA-55-6984-01 TCGA-55-7281-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.005960462 0.0029471175 0.0008609557 0.012483857
#> BRAF 0.047683698 0.0235769396 0.0068876453 0.099870857
#> CDKN2A 0.014901156 0.0073677936 0.0021523892 0.031209643
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.017881387 0.0088413524 0.0025828670 0.037451571
#> EGFR 0.044703467 0.0221033809 0.0064571675 0.093628928
#> KEAP1 0.019371502 0.0095781317 0.0027981059 0.040572536
#> KRAS 0.229477797 0.1134640220 0.0331467929 0.480628498
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.001490116 0.0007367794 0.0002152389 0.003120964
#> PIK3CA 0.028312196 0.0139988079 0.0040895394 0.059298321
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.001490116 0.0007367794 0.0002152389 0.003120964
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.002980231 0.0014735587 0.0004304778 0.006241929
#> SMAD4 0.010430809 0.0051574555 0.0015066724 0.021846750
#> SMARCA4 0.004470347 0.0022103381 0.0006457167 0.009362893
#> STK11 0.011920925 0.0058942349 0.0017219113 0.024967714
#> TP53 0.189244677 0.0935709792 0.0273353422 0.396362462
#> U2AF1 0.017881387 0.0088413524 0.0025828670 0.037451571
#> TCGA-55-7283-01 TCGA-55-7284-01 TCGA-55-7570-01 TCGA-55-7573-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.005960462 0.0011920925 0.010000331 0.0013576608
#> BRAF 0.047683698 0.0095367396 0.080002649 0.0108612868
#> CDKN2A 0.014901156 0.0029802311 0.025000828 0.0033941521
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.017881387 0.0035762774 0.030000993 0.0040729825
#> EGFR 0.044703467 0.0089406934 0.075002484 0.0101824564
#> KEAP1 0.019371502 0.0038743005 0.032501076 0.0044123978
#> KRAS 0.229477797 0.0458955595 0.385012749 0.0522699427
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.001490116 0.0002980231 0.002500083 0.0003394152
#> PIK3CA 0.028312196 0.0056624392 0.047501573 0.0064488890
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.001490116 0.0002980231 0.002500083 0.0003394152
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.002980231 0.0005960462 0.005000166 0.0006788304
#> SMAD4 0.010430809 0.0020861618 0.017500579 0.0023759065
#> SMARCA4 0.004470347 0.0008940693 0.007500248 0.0010182456
#> STK11 0.011920925 0.0023841849 0.020000662 0.0027153217
#> TP53 0.189244677 0.0378489354 0.317510514 0.0431057320
#> U2AF1 0.017881387 0.0035762774 0.030000993 0.0040729825
#> TCGA-55-7576-01 TCGA-55-7724-01 TCGA-55-7725-01 TCGA-55-7726-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.010795059 0.006126031 0.0030464585 0.0030133448
#> BRAF 0.086360476 0.049008245 0.0243716679 0.0241067585
#> CDKN2A 0.026987649 0.015315077 0.0076161462 0.0075333620
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.032385178 0.018378092 0.0091393755 0.0090400344
#> EGFR 0.080962946 0.045945230 0.0228484387 0.0226000861
#> KEAP1 0.035083943 0.019909600 0.0099009901 0.0097933706
#> KRAS 0.415609788 0.235852181 0.1172886519 0.1160137753
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.002698765 0.001531508 0.0007616146 0.0007533362
#> PIK3CA 0.051276532 0.029098646 0.0144706778 0.0143133879
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.002698765 0.001531508 0.0007616146 0.0007533362
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.005397530 0.003063015 0.0015232292 0.0015066724
#> SMAD4 0.018891354 0.010720554 0.0053313024 0.0052733534
#> SMARCA4 0.008096295 0.004594523 0.0022848439 0.0022600086
#> STK11 0.021590119 0.012252061 0.0060929170 0.0060266896
#> TP53 0.342743137 0.194501474 0.0967250571 0.0956736978
#> U2AF1 0.032385178 0.018378092 0.0091393755 0.0090400344
#> TCGA-55-7727-01 TCGA-55-7728-01 TCGA-55-7815-01 TCGA-55-7903-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.006457167 0.0024504123 0.0037418458 0.0039074142
#> BRAF 0.051657340 0.0196032981 0.0299347661 0.0312593132
#> CDKN2A 0.016142919 0.0061260307 0.0093546144 0.0097685354
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.019371502 0.0073512368 0.0112255373 0.0117222425
#> EGFR 0.048428756 0.0183780920 0.0280638432 0.0293056061
#> KEAP1 0.020985794 0.0079638399 0.0121609987 0.0126990960
#> KRAS 0.248600947 0.0943408722 0.1440610616 0.1504354449
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.001614292 0.0006126031 0.0009354614 0.0009768535
#> PIK3CA 0.030671545 0.0116394583 0.0177737673 0.0185602172
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.001614292 0.0006126031 0.0009354614 0.0009768535
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.003228584 0.0012252061 0.0018709229 0.0019537071
#> SMAD4 0.011300043 0.0042882215 0.0065482301 0.0068379748
#> SMARCA4 0.004842876 0.0018378092 0.0028063843 0.0029305606
#> STK11 0.012914335 0.0049008245 0.0074836915 0.0078148283
#> TP53 0.205015067 0.0778005894 0.1188036028 0.1240603994
#> U2AF1 0.019371502 0.0073512368 0.0112255373 0.0117222425
#> TCGA-55-7907-01 TCGA-55-7910-01 TCGA-55-7911-01 TCGA-55-7913-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.029802311 0.008245306 0.005927349 0.008973807
#> BRAF 0.238418491 0.065962449 0.047418789 0.071790457
#> CDKN2A 0.074505778 0.020613265 0.014818371 0.022434518
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.089406934 0.024735918 0.017782046 0.026921421
#> EGFR 0.223517335 0.061839796 0.044455114 0.067303553
#> KEAP1 0.096857512 0.026797245 0.019263883 0.029164873
#> KRAS 1.000000000 0.317444286 0.228202921 0.345491573
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.007450578 0.002061327 0.001481837 0.002243452
#> PIK3CA 0.141560979 0.039165204 0.028154906 0.042625584
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.007450578 0.002061327 0.001481837 0.002243452
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.014901156 0.004122653 0.002963674 0.004486904
#> SMAD4 0.052154045 0.014429286 0.010372860 0.015704162
#> SMARCA4 0.022351734 0.006183980 0.004445511 0.006730355
#> STK11 0.059604623 0.016490612 0.011854697 0.017947614
#> TP53 0.946223385 0.261788470 0.188193318 0.284918375
#> U2AF1 0.089406934 0.024735918 0.017782046 0.026921421
#> TCGA-55-7914-01 TCGA-55-7994-01 TCGA-55-7995-01 TCGA-55-8085-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.004768370 0.039074142 0.017682705 0.006324713
#> BRAF 0.038146959 0.312593132 0.141461638 0.050597702
#> CDKN2A 0.011920925 0.097685354 0.044206762 0.015811782
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.014305109 0.117222425 0.053048114 0.018974138
#> EGFR 0.035762774 0.293056061 0.132620285 0.047435346
#> KEAP1 0.015497202 0.126990960 0.057468790 0.020555316
#> KRAS 0.183582238 1.000000000 0.680784132 0.243501440
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001192092 0.009768535 0.004420676 0.001581178
#> PIK3CA 0.022649757 0.185602172 0.083992847 0.030042386
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001192092 0.009768535 0.004420676 0.001581178
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002384185 0.019537071 0.008841352 0.003162356
#> SMAD4 0.008344647 0.068379748 0.030944733 0.011068247
#> SMARCA4 0.003576277 0.029305606 0.013262029 0.004743535
#> STK11 0.009536740 0.078148283 0.035365409 0.012649425
#> TP53 0.151395742 1.000000000 0.561425875 0.200809629
#> U2AF1 0.014305109 0.117222425 0.053048114 0.018974138
#> TCGA-55-8089-01 TCGA-55-8090-01 TCGA-55-8092-01 TCGA-55-8094-01
#> ARID1A 0.00000000 0.0000000000 0.00000000 0.000000000
#> ATM 0.03142488 0.0021855028 0.01404020 0.011192424
#> BRAF 0.25139905 0.0174840226 0.11232160 0.089539389
#> CDKN2A 0.07856220 0.0054637571 0.03510050 0.027981059
#> CMTR2 0.00000000 0.0000000000 0.00000000 0.000000000
#> CTNNB1 0.09427464 0.0065565085 0.04212060 0.033577271
#> EGFR 0.23568661 0.0163912712 0.10530150 0.083943177
#> KEAP1 0.10213087 0.0071028842 0.04563065 0.036375377
#> KRAS 1.00000000 0.0841418590 0.54054770 0.430908308
#> MGA 0.00000000 0.0000000000 0.00000000 0.000000000
#> NF1 0.00785622 0.0005463757 0.00351005 0.002798106
#> PIK3CA 0.14926819 0.0103811384 0.06669095 0.053164012
#> PTPRD 0.00000000 0.0000000000 0.00000000 0.000000000
#> PTPRT 0.00785622 0.0005463757 0.00351005 0.002798106
#> RB1 0.00000000 0.0000000000 0.00000000 0.000000000
#> RBM10 0.00000000 0.0000000000 0.00000000 0.000000000
#> SETBP1 0.00000000 0.0000000000 0.00000000 0.000000000
#> SETD2 0.01571244 0.0010927514 0.00702010 0.005596212
#> SMAD4 0.05499354 0.0038246300 0.02457035 0.019586741
#> SMARCA4 0.02356866 0.0016391271 0.01053015 0.008394318
#> STK11 0.06284976 0.0043710057 0.02808040 0.022384847
#> TP53 0.99773999 0.0693897149 0.44577635 0.355359449
#> U2AF1 0.09427464 0.0065565085 0.04212060 0.033577271
#> TCGA-55-8096-01 TCGA-55-8097-01 TCGA-55-8203-01 TCGA-55-8205-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0037749594 0.0028808901 0.011391106 0.013113017
#> BRAF 0.0301996755 0.0230471208 0.091128845 0.104904136
#> CDKN2A 0.0094373986 0.0072022252 0.028477764 0.032782542
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0113248783 0.0086426703 0.034173317 0.039339051
#> EGFR 0.0283121958 0.0216066757 0.085433292 0.098347627
#> KEAP1 0.0122686182 0.0093628928 0.037021093 0.042617305
#> KRAS 0.1453359383 0.1109142687 0.438557568 0.504851154
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0009437399 0.0007202225 0.002847776 0.003278254
#> PIK3CA 0.0179310573 0.0136842280 0.054107752 0.062286831
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0009437399 0.0007202225 0.002847776 0.003278254
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0018874797 0.0014404450 0.005695553 0.006556508
#> SMAD4 0.0066061790 0.0050415577 0.019934435 0.022947780
#> SMARCA4 0.0028312196 0.0021606676 0.008543329 0.009834763
#> STK11 0.0075499189 0.0057617802 0.022782211 0.026226034
#> TP53 0.1198549621 0.0914682605 0.361667605 0.416338289
#> U2AF1 0.0113248783 0.0086426703 0.034173317 0.039339051
#> TCGA-55-8207-01 TCGA-55-8208-01 TCGA-55-8299-01 TCGA-55-8301-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008013510 0.009238717 0.005761780 0.007185668
#> BRAF 0.064108083 0.073909732 0.046094242 0.057485347
#> CDKN2A 0.020033776 0.023096791 0.014404450 0.017964171
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.024040531 0.027716150 0.017285341 0.021557005
#> EGFR 0.060101328 0.069290374 0.043213351 0.053892513
#> KEAP1 0.026043909 0.030025829 0.018725786 0.023353422
#> KRAS 0.308520150 0.355690586 0.221828537 0.276648233
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002003378 0.002309679 0.001440445 0.001796417
#> PIK3CA 0.038064174 0.043883903 0.027368456 0.034131925
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002003378 0.002309679 0.001440445 0.001796417
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004006755 0.004619358 0.002880890 0.003592834
#> SMAD4 0.014023643 0.016167754 0.010083115 0.012574920
#> SMARCA4 0.006010133 0.006929037 0.004321335 0.005389251
#> STK11 0.016027021 0.018477433 0.011523560 0.014371337
#> TP53 0.254428955 0.293329249 0.182936521 0.228144972
#> U2AF1 0.024040531 0.027716150 0.017285341 0.021557005
#> TCGA-55-8302-01 TCGA-55-8505-01 TCGA-55-8506-01 TCGA-55-8508-01
#> ARID1A 0.000000000 0.0000000000 0.00000000 0.000000000
#> ATM 0.017384682 0.0008278420 0.04231928 0.004437233
#> BRAF 0.139077453 0.0066227359 0.33855426 0.035497864
#> CDKN2A 0.043461704 0.0020696050 0.10579821 0.011093083
#> CMTR2 0.000000000 0.0000000000 0.00000000 0.000000000
#> CTNNB1 0.052154045 0.0024835259 0.12695785 0.013311699
#> EGFR 0.130385112 0.0062088149 0.31739462 0.033279248
#> KEAP1 0.056500215 0.0026904864 0.13753767 0.014421007
#> KRAS 0.669310242 0.0318719163 1.00000000 0.170833471
#> MGA 0.000000000 0.0000000000 0.00000000 0.000000000
#> NF1 0.004346170 0.0002069605 0.01057982 0.001109308
#> PIK3CA 0.082577238 0.0039322494 0.20101659 0.021076857
#> PTPRD 0.000000000 0.0000000000 0.00000000 0.000000000
#> PTPRT 0.004346170 0.0002069605 0.01057982 0.001109308
#> RB1 0.000000000 0.0000000000 0.00000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.00000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.00000000 0.000000000
#> SETD2 0.008692341 0.0004139210 0.02115964 0.002218617
#> SMAD4 0.030423193 0.0014487235 0.07405874 0.007765158
#> SMARCA4 0.013038511 0.0006208815 0.03173946 0.003327925
#> STK11 0.034769363 0.0016556840 0.08463856 0.008874466
#> TP53 0.551963641 0.0262839829 1.00000000 0.140882148
#> U2AF1 0.052154045 0.0024835259 0.12695785 0.013311699
#> TCGA-55-8511-01 TCGA-55-8512-01 TCGA-55-8514-01 TCGA-55-8614-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.014470678 0.001026524 0.006788304 0.005861121
#> BRAF 0.115765423 0.008212192 0.054306434 0.046888970
#> CDKN2A 0.036176695 0.002566310 0.016970761 0.014652803
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.043412034 0.003079572 0.020364913 0.017583364
#> EGFR 0.108530084 0.007698930 0.050912282 0.043958409
#> KEAP1 0.047029703 0.003336203 0.022061989 0.019048644
#> KRAS 0.557121097 0.039521176 0.261349714 0.225653167
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003617669 0.000256631 0.001697076 0.001465280
#> PIK3CA 0.068735720 0.004875989 0.032244445 0.027840326
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003617669 0.000256631 0.001697076 0.001465280
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.007235339 0.000513262 0.003394152 0.002930561
#> SMAD4 0.025323686 0.001796417 0.011879532 0.010256962
#> SMARCA4 0.010853008 0.000769893 0.005091228 0.004395841
#> STK11 0.028941356 0.002053048 0.013576608 0.011722242
#> TP53 0.459444021 0.032592139 0.215528660 0.186090599
#> U2AF1 0.043412034 0.003079572 0.020364913 0.017583364
#> TCGA-55-8615-01 TCGA-55-8616-01 TCGA-55-8620-01 TCGA-55-A48X-01
#> ARID1A 0.0000000000 0.00000000 0.000000000 0.000000000
#> ATM 0.0028808901 0.01215272 0.011788470 0.010298354
#> BRAF 0.0230471208 0.09722176 0.094307759 0.082386834
#> CDKN2A 0.0072022252 0.03038180 0.029471175 0.025745886
#> CMTR2 0.0000000000 0.00000000 0.000000000 0.000000000
#> CTNNB1 0.0086426703 0.03645816 0.035365409 0.030895063
#> EGFR 0.0216066757 0.09114540 0.088413524 0.077237657
#> KEAP1 0.0093628928 0.03949634 0.038312527 0.033469651
#> KRAS 0.1109142687 0.46787973 0.453856088 0.396486639
#> MGA 0.0000000000 0.00000000 0.000000000 0.000000000
#> NF1 0.0007202225 0.00303818 0.002947117 0.002574589
#> PIK3CA 0.0136842280 0.05772542 0.055995232 0.048917183
#> PTPRD 0.0000000000 0.00000000 0.000000000 0.000000000
#> PTPRT 0.0007202225 0.00303818 0.002947117 0.002574589
#> RB1 0.0000000000 0.00000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETD2 0.0014404450 0.00607636 0.005894235 0.005149177
#> SMAD4 0.0050415577 0.02126726 0.020629822 0.018022120
#> SMARCA4 0.0021606676 0.00911454 0.008841352 0.007723766
#> STK11 0.0057617802 0.02430544 0.023576940 0.020596709
#> TP53 0.0914682605 0.38584887 0.374283917 0.326972747
#> U2AF1 0.0086426703 0.03645816 0.035365409 0.030895063
#> TCGA-55-A48Y-01 TCGA-55-A48Z-01 TCGA-55-A490-01 TCGA-55-A491-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.009006921 0.0011920925 0.033345475 0.009569853
#> BRAF 0.072055366 0.0095367396 0.266763800 0.076558826
#> CDKN2A 0.022517302 0.0029802311 0.083363688 0.023924633
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.027020762 0.0035762774 0.100036425 0.028709560
#> EGFR 0.067551906 0.0089406934 0.250091063 0.071773900
#> KEAP1 0.029272492 0.0038743005 0.108372794 0.031102023
#> KRAS 0.346766449 0.0458955595 1.000000000 0.368439352
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002251730 0.0002980231 0.008336369 0.002392463
#> PIK3CA 0.042782874 0.0056624392 0.158391006 0.045456803
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002251730 0.0002980231 0.008336369 0.002392463
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004503460 0.0005960462 0.016672738 0.004784927
#> SMAD4 0.015762111 0.0020861618 0.058354581 0.016747243
#> SMARCA4 0.006755191 0.0008940693 0.025009106 0.007177390
#> STK11 0.018013842 0.0023841849 0.066690950 0.019139707
#> TP53 0.285969734 0.0378489354 1.000000000 0.303842842
#> U2AF1 0.027020762 0.0035762774 0.100036425 0.028709560
#> TCGA-55-A492-01 TCGA-55-A493-01 TCGA-55-A494-01 TCGA-55-A4DG-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.007218782 0.006755191 0.006059803 0.017748932
#> BRAF 0.057750257 0.054041525 0.048478426 0.141991457
#> CDKN2A 0.018046955 0.016887976 0.015149508 0.044372330
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.021656346 0.020265572 0.018179410 0.053246796
#> EGFR 0.054140866 0.050663929 0.045448525 0.133116991
#> KEAP1 0.023461042 0.021954369 0.019694361 0.057684029
#> KRAS 0.277923110 0.260074837 0.233302427 0.683333885
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001804696 0.001688798 0.001514951 0.004437233
#> PIK3CA 0.034289215 0.032087155 0.028784066 0.084307427
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001804696 0.001688798 0.001514951 0.004437233
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.003609391 0.003377595 0.003029902 0.008874466
#> SMAD4 0.012632869 0.011821583 0.010604656 0.031060631
#> SMARCA4 0.005414087 0.005066393 0.004544852 0.013311699
#> STK11 0.014437564 0.013510381 0.012119607 0.035497864
#> TP53 0.229196331 0.214477301 0.192398755 0.563528594
#> U2AF1 0.021656346 0.020265572 0.018179410 0.053246796
#> TCGA-55-A57B-01 TCGA-62-8394-01 TCGA-62-8395-01 TCGA-62-8398-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0011258651 0.0035100500 0.0019868208 0.0021523892
#> BRAF 0.0090069208 0.0280804000 0.0158945660 0.0172191132
#> CDKN2A 0.0028146627 0.0087751250 0.0049670519 0.0053809729
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0033775953 0.0105301500 0.0059604623 0.0064571675
#> EGFR 0.0084439882 0.0263253750 0.0149011557 0.0161429186
#> KEAP1 0.0036590616 0.0114076625 0.0064571675 0.0069952647
#> KRAS 0.0433458062 0.1351369251 0.0764925991 0.0828669824
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0002814663 0.0008775125 0.0004967052 0.0005380973
#> PIK3CA 0.0053478592 0.0166727375 0.0094373986 0.0102238485
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0002814663 0.0008775125 0.0004967052 0.0005380973
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0005629325 0.0017550250 0.0009934104 0.0010761946
#> SMAD4 0.0019702639 0.0061425875 0.0034769363 0.0037666810
#> SMARCA4 0.0008443988 0.0026325375 0.0014901156 0.0016142919
#> STK11 0.0022517302 0.0070201000 0.0039736415 0.0043047783
#> TP53 0.0357462168 0.1114440876 0.0630815590 0.0683383556
#> U2AF1 0.0033775953 0.0105301500 0.0059604623 0.0064571675
#> TCGA-62-8399-01 TCGA-62-8402-01 TCGA-62-A46R-01 TCGA-62-A46S-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.013278585 0.0011589788 0.004602801 0.0031789132
#> BRAF 0.106228683 0.0092718302 0.036822411 0.0254313057
#> CDKN2A 0.033196463 0.0028974469 0.011507004 0.0079472830
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.039835756 0.0034769363 0.013808404 0.0095367396
#> EGFR 0.099589390 0.0086923408 0.034521011 0.0238418491
#> KEAP1 0.043155402 0.0037666810 0.014959105 0.0103314679
#> KRAS 0.511225537 0.0446206828 0.177207855 0.1223881585
#> MGA 0.000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.003319646 0.0002897447 0.001150700 0.0007947283
#> PIK3CA 0.063073281 0.0055051492 0.021863307 0.0150998377
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.003319646 0.0002897447 0.001150700 0.0007947283
#> RB1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.006639293 0.0005794894 0.002301401 0.0015894566
#> SMAD4 0.023237524 0.0020282129 0.008054902 0.0055630981
#> SMARCA4 0.009958939 0.0008692341 0.003452101 0.0023841849
#> STK11 0.026557171 0.0023179575 0.009205603 0.0063578264
#> TP53 0.421595086 0.0367975761 0.146138945 0.1009304944
#> U2AF1 0.039835756 0.0034769363 0.013808404 0.0095367396
#> TCGA-62-A46U-01 TCGA-62-A46V-01 TCGA-62-A470-01 TCGA-62-A471-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0011920925 0.0014238882 0.0028146627 0.0026159807
#> BRAF 0.0095367396 0.0113911057 0.0225173019 0.0209278453
#> CDKN2A 0.0029802311 0.0035597205 0.0070366568 0.0065399517
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0035762774 0.0042716646 0.0084439882 0.0078479420
#> EGFR 0.0089406934 0.0106791616 0.0211099705 0.0196198550
#> KEAP1 0.0038743005 0.0046276367 0.0091476539 0.0085019372
#> KRAS 0.0458955595 0.0548196960 0.1083645154 0.1007152555
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0002980231 0.0003559721 0.0007036657 0.0006539952
#> PIK3CA 0.0056624392 0.0067634690 0.0133696480 0.0124259081
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0002980231 0.0003559721 0.0007036657 0.0006539952
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0005960462 0.0007119441 0.0014073314 0.0013079903
#> SMAD4 0.0020861618 0.0024918044 0.0049256598 0.0045779662
#> SMARCA4 0.0008940693 0.0010679162 0.0021109971 0.0019619855
#> STK11 0.0023841849 0.0028477764 0.0056293255 0.0052319613
#> TP53 0.0378489354 0.0452084506 0.0893655419 0.0830573860
#> U2AF1 0.0035762774 0.0042716646 0.0084439882 0.0078479420
#> TCGA-62-A472-01 TCGA-64-1676-01 TCGA-64-1677-01 TCGA-64-1679-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0014238882 0.015430975 0.005728667 0.013377926
#> BRAF 0.0113911057 0.123447796 0.045829332 0.107023411
#> CDKN2A 0.0035597205 0.038577436 0.014321666 0.033444816
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0042716646 0.046292924 0.017186000 0.040133779
#> EGFR 0.0106791616 0.115732309 0.042964999 0.100334448
#> KEAP1 0.0046276367 0.050150667 0.018618166 0.043478261
#> KRAS 0.0548196960 0.594092520 0.220553661 0.515050167
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003559721 0.003857744 0.001432167 0.003344482
#> PIK3CA 0.0067634690 0.073297129 0.027211166 0.063545151
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003559721 0.003857744 0.001432167 0.003344482
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0007119441 0.007715487 0.002864333 0.006688963
#> SMAD4 0.0024918044 0.027004205 0.010025166 0.023411371
#> SMARCA4 0.0010679162 0.011573231 0.004296500 0.010033445
#> STK11 0.0028477764 0.030861949 0.011457333 0.026755853
#> TP53 0.0452084506 0.489933442 0.181885162 0.424749164
#> U2AF1 0.0042716646 0.046292924 0.017186000 0.040133779
#> TCGA-64-1680-01 TCGA-64-1681-01 TCGA-64-5774-01 TCGA-64-5775-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.0015232292 0.0020861618 0.0036093910 0.011656015
#> BRAF 0.0121858340 0.0166892943 0.0288751283 0.093248121
#> CDKN2A 0.0038080731 0.0052154045 0.0090234776 0.029140038
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.0045696877 0.0062584854 0.0108281731 0.034968045
#> EGFR 0.0114242193 0.0156462135 0.0270704328 0.087420113
#> KEAP1 0.0049504950 0.0067800258 0.0117305209 0.037882049
#> KRAS 0.0586443260 0.0803172290 0.1389615550 0.448756581
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.0003808073 0.0005215404 0.0009023478 0.002914004
#> PIK3CA 0.0072353389 0.0099092685 0.0171446074 0.055366072
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.0003808073 0.0005215404 0.0009023478 0.002914004
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.0007616146 0.0010430809 0.0018046955 0.005828008
#> SMAD4 0.0026656512 0.0036507831 0.0063164343 0.020398026
#> SMARCA4 0.0011424219 0.0015646213 0.0027070433 0.008742011
#> STK11 0.0030464585 0.0041723236 0.0072187821 0.023312030
#> TP53 0.0483625286 0.0662356369 0.1145981655 0.370078479
#> U2AF1 0.0045696877 0.0062584854 0.0108281731 0.034968045
#> TCGA-64-5778-01 TCGA-64-5815-01 TCGA-67-3771-01 TCGA-67-3772-01
#> ARID1A 0.00000000 0.000000000 0.000000000 0.000000000
#> ATM 0.01215272 0.004072983 0.026325375 0.001655684
#> BRAF 0.09722176 0.032583860 0.210603000 0.013245472
#> CDKN2A 0.03038180 0.010182456 0.065813438 0.004139210
#> CMTR2 0.00000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.03645816 0.012218948 0.078976125 0.004967052
#> EGFR 0.09114540 0.030547369 0.197440313 0.012417630
#> KEAP1 0.03949634 0.013237193 0.085557469 0.005380973
#> KRAS 0.46787973 0.156809828 1.000000000 0.063743833
#> MGA 0.00000000 0.000000000 0.000000000 0.000000000
#> NF1 0.00303818 0.001018246 0.006581344 0.000413921
#> PIK3CA 0.05772542 0.019346667 0.125045531 0.007864499
#> PTPRD 0.00000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.00303818 0.001018246 0.006581344 0.000413921
#> RB1 0.00000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.00000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.00000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.00607636 0.002036491 0.013162688 0.000827842
#> SMAD4 0.02126726 0.007127719 0.046069406 0.002897447
#> SMARCA4 0.00911454 0.003054737 0.019744031 0.001241763
#> STK11 0.02430544 0.008145965 0.052650750 0.003311368
#> TP53 0.38584887 0.129317196 0.835830657 0.052567966
#> U2AF1 0.03645816 0.012218948 0.078976125 0.004967052
#> TCGA-67-3773-01 TCGA-67-3774-01 TCGA-67-4679-01 TCGA-67-6215-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0027484354 0.0027153217 0.006986986 0.0031789132
#> BRAF 0.0219874830 0.0217225736 0.055895891 0.0254313057
#> CDKN2A 0.0068710884 0.0067883042 0.017467466 0.0079472830
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0082453061 0.0081459651 0.020960959 0.0095367396
#> EGFR 0.0206132653 0.0203649127 0.052402397 0.0238418491
#> KEAP1 0.0089324150 0.0088247955 0.022707706 0.0103314679
#> KRAS 0.1058147621 0.1045398854 0.268998973 0.1223881585
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0006871088 0.0006788304 0.001746747 0.0007947283
#> PIK3CA 0.0130550680 0.0128977781 0.033188185 0.0150998377
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0006871088 0.0006788304 0.001746747 0.0007947283
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0013742177 0.0013576608 0.003493493 0.0015894566
#> SMAD4 0.0048097619 0.0047518130 0.012227226 0.0055630981
#> SMARCA4 0.0020613265 0.0020364913 0.005240240 0.0023841849
#> STK11 0.0054968708 0.0054306434 0.013973973 0.0063578264
#> TP53 0.0872628233 0.0862114640 0.221836816 0.1009304944
#> U2AF1 0.0082453061 0.0081459651 0.020960959 0.0095367396
#> TCGA-67-6216-01 TCGA-67-6217-01 TCGA-69-7765-01 TCGA-69-7973-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0009271830 0.005066393 0.015728998 0.006589622
#> BRAF 0.0074174642 0.040531143 0.125831981 0.052716977
#> CDKN2A 0.0023179575 0.012665982 0.039322494 0.016474055
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0027815491 0.015199179 0.047186993 0.019768867
#> EGFR 0.0069538726 0.037997947 0.117967482 0.049422166
#> KEAP1 0.0030133448 0.016465777 0.051119242 0.021416272
#> KRAS 0.0356965462 0.195056128 0.605566409 0.253700454
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0002317958 0.001266598 0.003932249 0.001647406
#> PIK3CA 0.0044041193 0.024065366 0.074712739 0.031300705
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0002317958 0.001266598 0.003932249 0.001647406
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0004635915 0.002533196 0.007864499 0.003294811
#> SMAD4 0.0016225703 0.008866188 0.027525746 0.011531839
#> SMARCA4 0.0006953873 0.003799795 0.011796748 0.004942217
#> STK11 0.0018543660 0.010132786 0.031457995 0.013179244
#> TP53 0.0294380609 0.160857975 0.499395675 0.209220504
#> U2AF1 0.0027815491 0.015199179 0.047186993 0.019768867
#> TCGA-69-7974-01 TCGA-69-7978-01 TCGA-69-7980-01 TCGA-69-8253-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.013642836 0.015364747 0.020464254 0.0038743005
#> BRAF 0.109142687 0.122917977 0.163714030 0.0309944038
#> CDKN2A 0.034107090 0.038411868 0.051160634 0.0096857512
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.040928508 0.046094242 0.061392761 0.0116229014
#> EGFR 0.102321269 0.115235604 0.153481903 0.0290572536
#> KEAP1 0.044339217 0.049935428 0.066508825 0.0125914765
#> KRAS 0.525249180 0.591542766 0.787873771 0.1491605682
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.003410709 0.003841187 0.005116063 0.0009685751
#> PIK3CA 0.064803470 0.072982549 0.097205205 0.0184029272
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.003410709 0.003841187 0.005116063 0.0009685751
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.006821418 0.007682374 0.010232127 0.0019371502
#> SMAD4 0.023874963 0.026888308 0.035812444 0.0067800258
#> SMARCA4 0.010232127 0.011523560 0.015348190 0.0029057254
#> STK11 0.027285672 0.030729494 0.040928508 0.0077486009
#> TP53 0.433160038 0.487830723 0.649740058 0.1230090400
#> U2AF1 0.040928508 0.046094242 0.061392761 0.0116229014
#> TCGA-69-8254-01 TCGA-73-4658-01 TCGA-73-4662-01 TCGA-73-4666-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0019205934 0.008907580 0.005828008 0.009900990
#> BRAF 0.0153647472 0.071260638 0.046624060 0.079207921
#> CDKN2A 0.0048014835 0.022268949 0.014570019 0.024752475
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0057617802 0.026722739 0.017484023 0.029702970
#> EGFR 0.0144044505 0.066806848 0.043710057 0.074257426
#> KEAP1 0.0062419285 0.028949634 0.018941025 0.032178218
#> KRAS 0.0739428458 0.342941819 0.224378291 0.381188119
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0004801483 0.002226895 0.001457002 0.002475248
#> PIK3CA 0.0091228186 0.042311004 0.027683036 0.047029703
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0004801483 0.002226895 0.001457002 0.002475248
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0009602967 0.004453790 0.002914004 0.004950495
#> SMAD4 0.0033610384 0.015588265 0.010199013 0.017326733
#> SMARCA4 0.0014404450 0.006680685 0.004371006 0.007425743
#> STK11 0.0038411868 0.017815159 0.011656015 0.019801980
#> TP53 0.0609788404 0.282815656 0.185039240 0.314356436
#> U2AF1 0.0057617802 0.026722739 0.017484023 0.029702970
#> TCGA-73-4670-01 TCGA-73-4676-01 TCGA-73-4677-01 TCGA-73-7498-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.009006921 0.002284844 0.006589622 0.0027815491
#> BRAF 0.072055366 0.018278751 0.052716977 0.0222523925
#> CDKN2A 0.022517302 0.005712110 0.016474055 0.0069538726
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.027020762 0.006854532 0.019768867 0.0083446472
#> EGFR 0.067551906 0.017136329 0.049422166 0.0208616179
#> KEAP1 0.029272492 0.007425743 0.021416272 0.0090400344
#> KRAS 0.346766449 0.087966489 0.253700454 0.1070896387
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.002251730 0.000571211 0.001647406 0.0006953873
#> PIK3CA 0.042782874 0.010853008 0.031300705 0.0132123580
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.002251730 0.000571211 0.001647406 0.0006953873
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.004503460 0.001142422 0.003294811 0.0013907745
#> SMAD4 0.015762111 0.003998477 0.011531839 0.0048677109
#> SMARCA4 0.006755191 0.001713633 0.004942217 0.0020861618
#> STK11 0.018013842 0.004569688 0.013179244 0.0055630981
#> TP53 0.285969734 0.072543793 0.209220504 0.0883141826
#> U2AF1 0.027020762 0.006854532 0.019768867 0.0083446472
#> TCGA-73-7499-01 TCGA-73-A9RS-01 TCGA-75-5126-01 TCGA-75-5146-01
#> ARID1A 0.0000000000 0.00000000 0.000000000 0.000000000
#> ATM 0.0019868208 0.02367628 0.016623067 0.004768370
#> BRAF 0.0158945660 0.18941025 0.132984536 0.038146959
#> CDKN2A 0.0049670519 0.05919070 0.041557667 0.011920925
#> CMTR2 0.0000000000 0.00000000 0.000000000 0.000000000
#> CTNNB1 0.0059604623 0.07102884 0.049869201 0.014305109
#> EGFR 0.0149011557 0.17757211 0.124673002 0.035762774
#> KEAP1 0.0064571675 0.07694791 0.054024968 0.015497202
#> KRAS 0.0764925991 0.91153681 0.639988079 0.183582238
#> MGA 0.0000000000 0.00000000 0.000000000 0.000000000
#> NF1 0.0004967052 0.00591907 0.004155767 0.001192092
#> PIK3CA 0.0094373986 0.11246233 0.078959568 0.022649757
#> PTPRD 0.0000000000 0.00000000 0.000000000 0.000000000
#> PTPRT 0.0004967052 0.00591907 0.004155767 0.001192092
#> RB1 0.0000000000 0.00000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.00000000 0.000000000 0.000000000
#> SETD2 0.0009934104 0.01183814 0.008311533 0.002384185
#> SMAD4 0.0034769363 0.04143349 0.029090367 0.008344647
#> SMARCA4 0.0014901156 0.01775721 0.012467300 0.003576277
#> STK11 0.0039736415 0.04735256 0.033246134 0.009536740
#> TP53 0.0630815590 0.75172191 0.527782377 0.151395742
#> U2AF1 0.0059604623 0.07102884 0.049869201 0.014305109
#> TCGA-75-5147-01 TCGA-75-6206-01 TCGA-75-6211-01 TCGA-75-6214-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0010927514 0.0023841849 0.009602967 0.018609888
#> BRAF 0.0087420113 0.0190734793 0.076823736 0.148879102
#> CDKN2A 0.0027318785 0.0059604623 0.024007417 0.046524719
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0032782542 0.0071525547 0.028808901 0.055829663
#> EGFR 0.0081956356 0.0178813868 0.072022252 0.139574158
#> KEAP1 0.0035514421 0.0077486009 0.031209643 0.060482135
#> KRAS 0.0420709295 0.0917911189 0.369714229 0.716480678
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0002731879 0.0005960462 0.002400742 0.004652472
#> PIK3CA 0.0051905692 0.0113248783 0.045614093 0.088396967
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0002731879 0.0005960462 0.002400742 0.004652472
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0005463757 0.0011920925 0.004801483 0.009304944
#> SMAD4 0.0019123150 0.0041723236 0.016805192 0.032567304
#> SMARCA4 0.0008195636 0.0017881387 0.007202225 0.013957416
#> STK11 0.0021855028 0.0047683698 0.019205934 0.037219775
#> TP53 0.0346948574 0.0756978708 0.304894202 0.590863936
#> U2AF1 0.0032782542 0.0071525547 0.028808901 0.055829663
#> TCGA-75-7027-01 TCGA-75-7030-01 TCGA-78-7145-01 TCGA-78-7146-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.006059803 0.0004304778 0.005165734 0.010066558
#> BRAF 0.048478426 0.0034438226 0.041325872 0.080532468
#> CDKN2A 0.015149508 0.0010761946 0.012914335 0.025166396
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.018179410 0.0012914335 0.015497202 0.030199675
#> EGFR 0.045448525 0.0032285837 0.038743005 0.075499189
#> KEAP1 0.019694361 0.0013990529 0.016788635 0.032716315
#> KRAS 0.233302427 0.0165733965 0.198880758 0.387562502
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001514951 0.0001076195 0.001291433 0.002516640
#> PIK3CA 0.028784066 0.0020447697 0.024537236 0.047816153
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001514951 0.0001076195 0.001291433 0.002516640
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.003029902 0.0002152389 0.002582867 0.005033279
#> SMAD4 0.010604656 0.0007533362 0.009040034 0.017616477
#> SMARCA4 0.004544852 0.0003228584 0.003874300 0.007549919
#> STK11 0.012119607 0.0008609557 0.010331468 0.020133117
#> TP53 0.192398755 0.0136676711 0.164012053 0.319613232
#> U2AF1 0.018179410 0.0012914335 0.015497202 0.030199675
#> TCGA-78-7147-01 TCGA-78-7148-01 TCGA-78-7149-01 TCGA-78-7150-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.008510216 0.006159144 0.003940528 0.010364582
#> BRAF 0.068081725 0.049273155 0.031524223 0.082916653
#> CDKN2A 0.021275539 0.015397861 0.009851320 0.025911454
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.025530647 0.018477433 0.011821583 0.031093745
#> EGFR 0.063826617 0.046193583 0.029553959 0.077734362
#> KEAP1 0.027658201 0.020017219 0.012806715 0.033684890
#> KRAS 0.327643299 0.237127057 0.151710322 0.399036392
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002127554 0.001539786 0.000985132 0.002591145
#> PIK3CA 0.040423524 0.029255936 0.018717507 0.049231763
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002127554 0.001539786 0.000985132 0.002591145
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004255108 0.003079572 0.001970264 0.005182291
#> SMAD4 0.014892877 0.010778503 0.006895924 0.018138018
#> SMARCA4 0.006382662 0.004619358 0.002955396 0.007773436
#> STK11 0.017020431 0.012318289 0.007881056 0.020729163
#> TP53 0.270199344 0.195552833 0.125111759 0.329075466
#> U2AF1 0.025530647 0.018477433 0.011821583 0.031093745
#> TCGA-78-7152-01 TCGA-78-7153-01 TCGA-78-7155-01 TCGA-78-7158-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.005198848 0.0032451406 0.039802642 0.006920759
#> BRAF 0.041590781 0.0259611245 0.318421140 0.055366072
#> CDKN2A 0.012997119 0.0081128514 0.099506606 0.017301897
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.015596543 0.0097354217 0.119407927 0.020762277
#> EGFR 0.038991357 0.0243385543 0.298519819 0.051905692
#> KEAP1 0.016896255 0.0105467068 0.129358588 0.022492467
#> KRAS 0.200155634 0.1249379119 1.000000000 0.266449220
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.001299712 0.0008112851 0.009950661 0.001730190
#> PIK3CA 0.024694526 0.0154144177 0.189062552 0.032873605
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.001299712 0.0008112851 0.009950661 0.001730190
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.002599424 0.0016225703 0.019901321 0.003460379
#> SMAD4 0.009097983 0.0056789960 0.069654624 0.012111328
#> SMARCA4 0.003899136 0.0024338554 0.029851982 0.005190569
#> STK11 0.010397695 0.0064902811 0.079605285 0.013841518
#> TP53 0.165063413 0.1030332130 1.000000000 0.219734097
#> U2AF1 0.015596543 0.0097354217 0.119407927 0.020762277
#> TCGA-78-7159-01 TCGA-78-7160-01 TCGA-78-7161-01 TCGA-78-7166-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008344647 0.0012914335 0.005066393 0.005463757
#> BRAF 0.066757177 0.0103314679 0.040531143 0.043710057
#> CDKN2A 0.020861618 0.0032285837 0.012665982 0.013659393
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.025033942 0.0038743005 0.015199179 0.016391271
#> EGFR 0.062584854 0.0096857512 0.037997947 0.040978178
#> KEAP1 0.027120103 0.0041971588 0.016465777 0.017757211
#> KRAS 0.321268916 0.0497201894 0.195056128 0.210354648
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002086162 0.0003228584 0.001266598 0.001365939
#> PIK3CA 0.039637074 0.0061343091 0.024065366 0.025952846
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002086162 0.0003228584 0.001266598 0.001365939
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004172324 0.0006457167 0.002533196 0.002731879
#> SMAD4 0.014603133 0.0022600086 0.008866188 0.009561575
#> SMARCA4 0.006258485 0.0009685751 0.003799795 0.004097818
#> STK11 0.016689294 0.0025828670 0.010132786 0.010927514
#> TP53 0.264942548 0.0410030133 0.160857975 0.173474287
#> U2AF1 0.025033942 0.0038743005 0.015199179 0.016391271
#> TCGA-78-7167-01 TCGA-78-7220-01 TCGA-78-7537-01 TCGA-78-7539-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0028146627 0.020596709 0.0035431637 0.012351402
#> BRAF 0.0225173019 0.164773668 0.0283453094 0.098811219
#> CDKN2A 0.0070366568 0.051491771 0.0088579092 0.030878506
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0084439882 0.061790126 0.0106294910 0.037054207
#> EGFR 0.0211099705 0.154475314 0.0265737276 0.092635518
#> KEAP1 0.0091476539 0.066939303 0.0115152820 0.040142058
#> KRAS 0.1083645154 0.792973277 0.1364118017 0.475528991
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0007036657 0.005149177 0.0008857909 0.003087851
#> PIK3CA 0.0133696480 0.097834365 0.0168300275 0.058669161
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0007036657 0.005149177 0.0008857909 0.003087851
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0014073314 0.010298354 0.0017715818 0.006175701
#> SMAD4 0.0049256598 0.036044240 0.0062005364 0.021614954
#> SMARCA4 0.0021109971 0.015447531 0.0026573728 0.009263552
#> STK11 0.0056293255 0.041193417 0.0070863274 0.024702805
#> TP53 0.0893655419 0.653945495 0.1124954469 0.392157025
#> U2AF1 0.0084439882 0.061790126 0.0106294910 0.037054207
#> TCGA-78-7540-01 TCGA-78-7633-01 TCGA-78-8640-01 TCGA-78-8655-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.005993576 0.004072983 0.018245637 0.0026490943
#> BRAF 0.047948608 0.032583860 0.145965098 0.0211927547
#> CDKN2A 0.014983940 0.010182456 0.045614093 0.0066227359
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.017980728 0.012218948 0.054736912 0.0079472830
#> EGFR 0.044951820 0.030547369 0.136842280 0.0198682076
#> KEAP1 0.019479122 0.013237193 0.059298321 0.0086095566
#> KRAS 0.230752674 0.156809828 0.702457035 0.1019901321
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001498394 0.001018246 0.004561409 0.0006622736
#> PIK3CA 0.028469486 0.019346667 0.086666777 0.0125831981
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001498394 0.001018246 0.004561409 0.0006622736
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.002996788 0.002036491 0.009122819 0.0013245472
#> SMAD4 0.010488758 0.007127719 0.031929865 0.0046359151
#> SMARCA4 0.004495182 0.003054737 0.013684228 0.0019868208
#> STK11 0.011987152 0.008145965 0.036491275 0.0052981887
#> TP53 0.190296036 0.129317196 0.579298983 0.0841087453
#> U2AF1 0.017980728 0.012218948 0.054736912 0.0079472830
#> TCGA-78-8660-01 TCGA-78-8662-01 TCGA-80-5607-01 TCGA-80-5608-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.006225372 0.028875128 0.0030133448 0.009172489
#> BRAF 0.049802974 0.231001027 0.0241067585 0.073379913
#> CDKN2A 0.015563429 0.072187821 0.0075333620 0.022931223
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.018676115 0.086625385 0.0090400344 0.027517467
#> EGFR 0.046690288 0.216563462 0.0226000861 0.068793669
#> KEAP1 0.020232458 0.093844167 0.0097933706 0.029810590
#> KRAS 0.239676810 1.000000000 0.1160137753 0.353140832
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001556343 0.007218782 0.0007533362 0.002293122
#> PIK3CA 0.029570516 0.137156859 0.0143133879 0.043569323
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001556343 0.007218782 0.0007533362 0.002293122
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003112686 0.014437564 0.0015066724 0.004586245
#> SMAD4 0.010894400 0.050531475 0.0052733534 0.016051856
#> SMARCA4 0.004669029 0.021656346 0.0022600086 0.006879367
#> STK11 0.012450743 0.057750257 0.0060266896 0.018344978
#> TP53 0.197655552 0.916785324 0.0956736978 0.291226531
#> U2AF1 0.018676115 0.086625385 0.0090400344 0.027517467
#> TCGA-83-5908-01 TCGA-86-6851-01 TCGA-86-7711-01 TCGA-86-7713-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.005861121 0.023643167 0.005629325 0.004139210
#> BRAF 0.046888970 0.189145336 0.045034604 0.033113679
#> CDKN2A 0.014652803 0.059107917 0.014073314 0.010348025
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.017583364 0.070929501 0.016887976 0.012417630
#> EGFR 0.043958409 0.177323752 0.042219941 0.031044074
#> KEAP1 0.019048644 0.076840293 0.018295308 0.013452432
#> KRAS 0.225653167 0.910261929 0.216729031 0.159359581
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.001465280 0.005910792 0.001407331 0.001034802
#> PIK3CA 0.027840326 0.112305043 0.026739296 0.019661247
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.001465280 0.005910792 0.001407331 0.001034802
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.002930561 0.011821583 0.002814663 0.002069605
#> SMAD4 0.010256962 0.041375542 0.009851320 0.007243617
#> SMARCA4 0.004395841 0.017732375 0.004221994 0.003104407
#> STK11 0.011722242 0.047286334 0.011258651 0.008278420
#> TP53 0.186090599 0.750670552 0.178731084 0.131419915
#> U2AF1 0.017583364 0.070929501 0.016887976 0.012417630
#> TCGA-86-7714-01 TCGA-86-7953-01 TCGA-86-7954-01 TCGA-86-8054-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0019537071 0.0014570019 0.005397530 0.005761780
#> BRAF 0.0156296566 0.0116560151 0.043180238 0.046094242
#> CDKN2A 0.0048842677 0.0036425047 0.013493824 0.014404450
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0058611212 0.0043710057 0.016192589 0.017285341
#> EGFR 0.0146528031 0.0109275142 0.040481473 0.043213351
#> KEAP1 0.0063495480 0.0047352561 0.017541972 0.018725786
#> KRAS 0.0752177224 0.0560945727 0.207804894 0.221828537
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0004884268 0.0003642505 0.001349382 0.001440445
#> PIK3CA 0.0092801086 0.0069207590 0.025638266 0.027368456
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0004884268 0.0003642505 0.001349382 0.001440445
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0009768535 0.0007285009 0.002698765 0.002880890
#> SMAD4 0.0034189874 0.0025497533 0.009445677 0.010083115
#> SMARCA4 0.0014652803 0.0010927514 0.004048147 0.004321335
#> STK11 0.0039074142 0.0029140038 0.010795059 0.011523560
#> TP53 0.0620301997 0.0462598099 0.171371569 0.182936521
#> U2AF1 0.0058611212 0.0043710057 0.016192589 0.017285341
#> TCGA-86-8055-01 TCGA-86-8056-01 TCGA-86-8074-01 TCGA-86-8075-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0013576608 0.007715487 0.0017550250 0.0013907745
#> BRAF 0.0108612868 0.061723898 0.0140402000 0.0111261962
#> CDKN2A 0.0033941521 0.019288718 0.0043875625 0.0034769363
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0040729825 0.023146462 0.0052650750 0.0041723236
#> EGFR 0.0101824564 0.057866155 0.0131626875 0.0104308090
#> KEAP1 0.0044123978 0.025075334 0.0057038313 0.0045200172
#> KRAS 0.0522699427 0.297046260 0.0675684625 0.0535448194
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0003394152 0.001928872 0.0004387563 0.0003476936
#> PIK3CA 0.0064488890 0.036648565 0.0083363688 0.0066061790
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003394152 0.001928872 0.0004387563 0.0003476936
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0006788304 0.003857744 0.0008775125 0.0006953873
#> SMAD4 0.0023759065 0.013502103 0.0030712938 0.0024338554
#> SMARCA4 0.0010182456 0.005786615 0.0013162688 0.0010430809
#> STK11 0.0027153217 0.015430975 0.0035100500 0.0027815491
#> TP53 0.0431057320 0.244966721 0.0557220438 0.0441570913
#> U2AF1 0.0040729825 0.023146462 0.0052650750 0.0041723236
#> TCGA-86-8076-01 TCGA-86-8278-01 TCGA-86-8279-01 TCGA-86-8280-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0019537071 0.002682208 0.013013676 0.0013907745
#> BRAF 0.0156296566 0.021457664 0.104109408 0.0111261962
#> CDKN2A 0.0048842677 0.006705520 0.032534190 0.0034769363
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0058611212 0.008046624 0.039041028 0.0041723236
#> EGFR 0.0146528031 0.020116560 0.097602570 0.0104308090
#> KEAP1 0.0063495480 0.008717176 0.042294447 0.0045200172
#> KRAS 0.0752177224 0.103265009 0.501026524 0.0535448194
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0004884268 0.000670552 0.003253419 0.0003476936
#> PIK3CA 0.0092801086 0.012740488 0.061814961 0.0066061790
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0004884268 0.000670552 0.003253419 0.0003476936
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0009768535 0.001341104 0.006506838 0.0006953873
#> SMAD4 0.0034189874 0.004693864 0.022773933 0.0024338554
#> SMARCA4 0.0014652803 0.002011656 0.009760257 0.0010430809
#> STK11 0.0039074142 0.005364416 0.026027352 0.0027815491
#> TP53 0.0620301997 0.085160105 0.413184211 0.0441570913
#> U2AF1 0.0058611212 0.008046624 0.039041028 0.0041723236
#> TCGA-86-8281-01 TCGA-86-8359-01 TCGA-86-8585-01 TCGA-86-8668-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.006225372 0.004072983 0.015033610 0.0009271830
#> BRAF 0.049802974 0.032583860 0.120268883 0.0074174642
#> CDKN2A 0.015563429 0.010182456 0.037584026 0.0023179575
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.018676115 0.012218948 0.045100831 0.0027815491
#> EGFR 0.046690288 0.030547369 0.112752078 0.0069538726
#> KEAP1 0.020232458 0.013237193 0.048859234 0.0030133448
#> KRAS 0.239676810 0.156809828 0.578794000 0.0356965462
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001556343 0.001018246 0.003758403 0.0002317958
#> PIK3CA 0.029570516 0.019346667 0.071409649 0.0044041193
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001556343 0.001018246 0.003758403 0.0002317958
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003112686 0.002036491 0.007516805 0.0004635915
#> SMAD4 0.010894400 0.007127719 0.026308818 0.0016225703
#> SMARCA4 0.004669029 0.003054737 0.011275208 0.0006953873
#> STK11 0.012450743 0.008145965 0.030067221 0.0018543660
#> TP53 0.197655552 0.129317196 0.477317130 0.0294380609
#> U2AF1 0.018676115 0.012218948 0.045100831 0.0027815491
#> TCGA-86-8673-01 TCGA-86-8674-01 TCGA-86-A456-01 TCGA-86-A4JF-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.012086493 0.007218782 0.009304944 0.032815656
#> BRAF 0.096691943 0.057750257 0.074439551 0.262525249
#> CDKN2A 0.030216232 0.018046955 0.023262360 0.082039140
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.036259479 0.021656346 0.027914832 0.098446968
#> EGFR 0.090648697 0.054140866 0.069787079 0.246117421
#> KEAP1 0.039281102 0.023461042 0.030241068 0.106650882
#> KRAS 0.465329978 0.277923110 0.358240339 1.000000000
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.003021623 0.001804696 0.002326236 0.008203914
#> PIK3CA 0.057410841 0.034289215 0.044198483 0.155874367
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.003021623 0.001804696 0.002326236 0.008203914
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.006043246 0.003609391 0.004652472 0.016407828
#> SMAD4 0.021151363 0.012632869 0.016283652 0.057427398
#> SMARCA4 0.009064870 0.005414087 0.006978708 0.024611742
#> STK11 0.024172986 0.014437564 0.018609888 0.065631312
#> TP53 0.383746151 0.229196331 0.295431968 1.000000000
#> U2AF1 0.036259479 0.021656346 0.027914832 0.098446968
#> TCGA-86-A4P7-01 TCGA-91-6828-01 TCGA-91-6829-01 TCGA-91-6830-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0017550250 0.007715487 0.016358158 0.006920759
#> BRAF 0.0140402000 0.061723898 0.130865260 0.055366072
#> CDKN2A 0.0043875625 0.019288718 0.040895394 0.017301897
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0052650750 0.023146462 0.049074473 0.020762277
#> EGFR 0.0131626875 0.057866155 0.122686182 0.051905692
#> KEAP1 0.0057038313 0.025075334 0.053164012 0.022492467
#> KRAS 0.0675684625 0.297046260 0.629789066 0.266449220
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0004387563 0.001928872 0.004089539 0.001730190
#> PIK3CA 0.0083363688 0.036648565 0.077701248 0.032873605
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0004387563 0.001928872 0.004089539 0.001730190
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0008775125 0.003857744 0.008179079 0.003460379
#> SMAD4 0.0030712938 0.013502103 0.028626776 0.012111328
#> SMARCA4 0.0013162688 0.005786615 0.012268618 0.005190569
#> STK11 0.0035100500 0.015430975 0.032716315 0.013841518
#> TP53 0.0557220438 0.244966721 0.519371502 0.219734097
#> U2AF1 0.0052650750 0.023146462 0.049074473 0.020762277
#> TCGA-91-6835-01 TCGA-91-6836-01 TCGA-91-6840-01 TCGA-91-6847-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0023179575 0.012715653 0.003708732 0.0018543660
#> BRAF 0.0185436604 0.101725223 0.029669857 0.0148349283
#> CDKN2A 0.0057948939 0.031789132 0.009271830 0.0046359151
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0069538726 0.038146959 0.011126196 0.0055630981
#> EGFR 0.0173846816 0.095367396 0.027815491 0.0139077453
#> KEAP1 0.0075333620 0.041325872 0.012053379 0.0060266896
#> KRAS 0.0892413656 0.489552634 0.142786185 0.0713930925
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0005794894 0.003178913 0.000927183 0.0004635915
#> PIK3CA 0.0110102984 0.060399351 0.017616477 0.0088082387
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0005794894 0.003178913 0.000927183 0.0004635915
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0011589788 0.006357826 0.001854366 0.0009271830
#> SMAD4 0.0040564257 0.022252392 0.006490281 0.0032451406
#> SMARCA4 0.0017384682 0.009536740 0.002781549 0.0013907745
#> STK11 0.0046359151 0.025431306 0.007417464 0.0037087321
#> TP53 0.0735951522 0.403721978 0.117752243 0.0588761217
#> U2AF1 0.0069538726 0.038146959 0.011126196 0.0055630981
#> TCGA-91-6848-01 TCGA-91-6849-01 TCGA-91-A4BD-01 TCGA-93-7347-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.016060134 0.0029140038 0.0004635915 0.0030464585
#> BRAF 0.128481076 0.0233120302 0.0037087321 0.0243716679
#> CDKN2A 0.040150336 0.0072850094 0.0011589788 0.0076161462
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.048180403 0.0087420113 0.0013907745 0.0091393755
#> EGFR 0.120451008 0.0218550283 0.0034769363 0.0228484387
#> KEAP1 0.052195437 0.0094705123 0.0015066724 0.0099009901
#> KRAS 0.618315176 0.1121891453 0.0178482731 0.1172886519
#> MGA 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.004015034 0.0007285009 0.0001158979 0.0007616146
#> PIK3CA 0.076285639 0.0138415179 0.0022020597 0.0144706778
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.004015034 0.0007285009 0.0001158979 0.0007616146
#> RB1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.008030067 0.0014570019 0.0002317958 0.0015232292
#> SMAD4 0.028105235 0.0050995066 0.0008112851 0.0053313024
#> SMARCA4 0.012045101 0.0021855028 0.0003476936 0.0022848439
#> STK11 0.032120269 0.0058280075 0.0009271830 0.0060929170
#> TP53 0.509909269 0.0925196199 0.0147190304 0.0967250571
#> U2AF1 0.048180403 0.0087420113 0.0013907745 0.0091393755
#> TCGA-93-7348-01 TCGA-93-8067-01 TCGA-93-A4JN-01 TCGA-93-A4JO-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0029802311 0.012914335 0.0019868208 0.0014570019
#> BRAF 0.0238418491 0.103314679 0.0158945660 0.0116560151
#> CDKN2A 0.0074505778 0.032285837 0.0049670519 0.0036425047
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0089406934 0.038743005 0.0059604623 0.0043710057
#> EGFR 0.0223517335 0.096857512 0.0149011557 0.0109275142
#> KEAP1 0.0096857512 0.041971588 0.0064571675 0.0047352561
#> KRAS 0.1147388986 0.497201894 0.0764925991 0.0560945727
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0007450578 0.003228584 0.0004967052 0.0003642505
#> PIK3CA 0.0141560979 0.061343091 0.0094373986 0.0069207590
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0007450578 0.003228584 0.0004967052 0.0003642505
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0014901156 0.006457167 0.0009934104 0.0007285009
#> SMAD4 0.0052154045 0.022600086 0.0034769363 0.0025497533
#> SMARCA4 0.0022351734 0.009685751 0.0014901156 0.0010927514
#> STK11 0.0059604623 0.025828670 0.0039736415 0.0029140038
#> TP53 0.0946223385 0.410030133 0.0630815590 0.0462598099
#> U2AF1 0.0089406934 0.038743005 0.0059604623 0.0043710057
#> TCGA-93-A4JP-01 TCGA-95-7039-01 TCGA-95-7043-01 TCGA-95-7562-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0015232292 0.033775953 0.028411537 0.010331468
#> BRAF 0.0121858340 0.270207623 0.227292294 0.082651743
#> CDKN2A 0.0038080731 0.084439882 0.071028842 0.025828670
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0045696877 0.101327859 0.085234610 0.030994404
#> EGFR 0.0114242193 0.253319646 0.213086526 0.077486009
#> KEAP1 0.0049504950 0.109771847 0.092337495 0.033577271
#> KRAS 0.0586443260 1.000000000 1.000000000 0.397761515
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003808073 0.008443988 0.007102884 0.002582867
#> PIK3CA 0.0072353389 0.160435776 0.134954800 0.049074473
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003808073 0.008443988 0.007102884 0.002582867
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0007616146 0.016887976 0.014205768 0.005165734
#> SMAD4 0.0026656512 0.059107917 0.049720189 0.018080069
#> SMARCA4 0.0011424219 0.025331965 0.021308653 0.007748601
#> STK11 0.0030464585 0.067551906 0.056823074 0.020662936
#> TP53 0.0483625286 1.000000000 0.902066294 0.328024107
#> U2AF1 0.0045696877 0.101327859 0.085234610 0.030994404
#> TCGA-95-7567-01 TCGA-95-7944-01 TCGA-95-7947-01 TCGA-95-7948-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.023411371 0.006092917 0.013742177 0.004106096
#> BRAF 0.187290970 0.048743336 0.109937415 0.032848770
#> CDKN2A 0.058528428 0.015232292 0.034355442 0.010265241
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.070234114 0.018278751 0.041226531 0.012318289
#> EGFR 0.175585284 0.045696877 0.103066327 0.030795722
#> KEAP1 0.076086957 0.019801980 0.044662075 0.013344813
#> KRAS 0.901337793 0.234577304 0.529073810 0.158084705
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.005852843 0.001523229 0.003435544 0.001026524
#> PIK3CA 0.111204013 0.028941356 0.065275340 0.019503957
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.005852843 0.001523229 0.003435544 0.001026524
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.011705686 0.003046458 0.006871088 0.002053048
#> SMAD4 0.040969900 0.010662605 0.024048810 0.007185668
#> SMARCA4 0.017558528 0.004569688 0.010306633 0.003079572
#> STK11 0.046822742 0.012185834 0.027484354 0.008212192
#> TP53 0.743311037 0.193450114 0.436314116 0.130368555
#> U2AF1 0.070234114 0.018278751 0.041226531 0.012318289
#> TCGA-95-A4VK-01 TCGA-95-A4VN-01 TCGA-95-A4VP-01 TCGA-97-7546-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.006390940 0.011788470 0.0032782542 0.007053214
#> BRAF 0.051127521 0.094307759 0.0262260340 0.056425709
#> CDKN2A 0.015977350 0.029471175 0.0081956356 0.017633034
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.019172820 0.035365409 0.0098347627 0.021159641
#> EGFR 0.047932051 0.088413524 0.0245869069 0.052899103
#> KEAP1 0.020770555 0.038312527 0.0106543263 0.022922944
#> KRAS 0.246051194 0.453856088 0.1262127885 0.271548727
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001597735 0.002947117 0.0008195636 0.001763303
#> PIK3CA 0.030356965 0.055995232 0.0155717077 0.033502765
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001597735 0.002947117 0.0008195636 0.001763303
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003195470 0.005894235 0.0016391271 0.003526607
#> SMAD4 0.011184145 0.020629822 0.0057369449 0.012343124
#> SMARCA4 0.004793205 0.008841352 0.0024586907 0.005289910
#> STK11 0.012781880 0.023576940 0.0065565085 0.014106427
#> TP53 0.202912348 0.374283917 0.1040845723 0.223939534
#> U2AF1 0.019172820 0.035365409 0.0098347627 0.021159641
#> TCGA-97-7553-01 TCGA-97-7554-01 TCGA-97-7937-01 TCGA-97-7938-01
#> ARID1A 0.0000000000 0.000000000 0.00000000 0.000000000
#> ATM 0.0009602967 0.011821583 0.01215272 0.010331468
#> BRAF 0.0076823736 0.094572668 0.09722176 0.082651743
#> CDKN2A 0.0024007417 0.029553959 0.03038180 0.025828670
#> CMTR2 0.0000000000 0.000000000 0.00000000 0.000000000
#> CTNNB1 0.0028808901 0.035464750 0.03645816 0.030994404
#> EGFR 0.0072022252 0.088661876 0.09114540 0.077486009
#> KEAP1 0.0031209643 0.038420146 0.03949634 0.033577271
#> KRAS 0.0369714229 0.455130965 0.46787973 0.397761515
#> MGA 0.0000000000 0.000000000 0.00000000 0.000000000
#> NF1 0.0002400742 0.002955396 0.00303818 0.002582867
#> PIK3CA 0.0045614093 0.056152522 0.05772542 0.049074473
#> PTPRD 0.0000000000 0.000000000 0.00000000 0.000000000
#> PTPRT 0.0002400742 0.002955396 0.00303818 0.002582867
#> RB1 0.0000000000 0.000000000 0.00000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.00000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.00000000 0.000000000
#> SETD2 0.0004801483 0.005910792 0.00607636 0.005165734
#> SMAD4 0.0016805192 0.020687771 0.02126726 0.018080069
#> SMARCA4 0.0007202225 0.008866188 0.00911454 0.007748601
#> STK11 0.0019205934 0.023643167 0.02430544 0.020662936
#> TP53 0.0304894202 0.375335276 0.38584887 0.328024107
#> U2AF1 0.0028808901 0.035464750 0.03645816 0.030994404
#> TCGA-97-7941-01 TCGA-97-8171-01 TCGA-97-8174-01 TCGA-97-8175-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0023510712 0.0016225703 0.004404119 0.0007616146
#> BRAF 0.0188085698 0.0129805623 0.035232955 0.0060929170
#> CDKN2A 0.0058776781 0.0040564257 0.011010298 0.0019040366
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0070532137 0.0048677109 0.013212358 0.0022848439
#> EGFR 0.0176330342 0.0121692771 0.033030895 0.0057121097
#> KEAP1 0.0076409815 0.0052733534 0.014313388 0.0024752475
#> KRAS 0.0905162423 0.0624689559 0.169558595 0.0293221630
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0005877678 0.0004056426 0.001101030 0.0001904037
#> PIK3CA 0.0111675883 0.0077072088 0.020919567 0.0036176695
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0005877678 0.0004056426 0.001101030 0.0001904037
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0011755356 0.0008112851 0.002202060 0.0003808073
#> SMAD4 0.0041143746 0.0028394980 0.007707209 0.0013328256
#> SMARCA4 0.0017633034 0.0012169277 0.003303090 0.0005712110
#> STK11 0.0047021425 0.0032451406 0.008808239 0.0015232292
#> TP53 0.0746465115 0.0515166065 0.139830789 0.0241812643
#> U2AF1 0.0070532137 0.0048677109 0.013212358 0.0022848439
#> TCGA-97-8176-01 TCGA-97-8177-01 TCGA-97-8179-01 TCGA-97-8547-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> ATM 0.0036756184 0.0009602967 0.004106096 0.0014570019
#> BRAF 0.0294049472 0.0076823736 0.032848770 0.0116560151
#> CDKN2A 0.0091890460 0.0024007417 0.010265241 0.0036425047
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> CTNNB1 0.0110268552 0.0028808901 0.012318289 0.0043710057
#> EGFR 0.0275671380 0.0072022252 0.030795722 0.0109275142
#> KEAP1 0.0119457598 0.0031209643 0.013344813 0.0047352561
#> KRAS 0.1415113083 0.0369714229 0.158084705 0.0560945727
#> MGA 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> NF1 0.0009189046 0.0002400742 0.001026524 0.0003642505
#> PIK3CA 0.0174591874 0.0045614093 0.019503957 0.0069207590
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> PTPRT 0.0009189046 0.0002400742 0.001026524 0.0003642505
#> RB1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> SETD2 0.0018378092 0.0004801483 0.002053048 0.0007285009
#> SMAD4 0.0064323322 0.0016805192 0.007185668 0.0025497533
#> SMARCA4 0.0027567138 0.0007202225 0.003079572 0.0010927514
#> STK11 0.0073512368 0.0019205934 0.008212192 0.0029140038
#> TP53 0.1167008841 0.0304894202 0.130368555 0.0462598099
#> U2AF1 0.0110268552 0.0028808901 0.012318289 0.0043710057
#> TCGA-97-A4LX-01 TCGA-97-A4M0-01 TCGA-97-A4M1-01 TCGA-97-A4M3-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.004371006 0.009900990 0.0012252061 0.005563098
#> BRAF 0.034968045 0.079207921 0.0098016491 0.044504785
#> CDKN2A 0.010927514 0.024752475 0.0030630153 0.013907745
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.013113017 0.029702970 0.0036756184 0.016689294
#> EGFR 0.032782542 0.074257426 0.0091890460 0.041723236
#> KEAP1 0.014205768 0.032178218 0.0039819199 0.018080069
#> KRAS 0.168283718 0.381188119 0.0471704361 0.214179277
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001092751 0.002475248 0.0003063015 0.001390775
#> PIK3CA 0.020762277 0.047029703 0.0058197291 0.026424716
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001092751 0.002475248 0.0003063015 0.001390775
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.002185503 0.004950495 0.0006126031 0.002781549
#> SMAD4 0.007649260 0.017326733 0.0021441107 0.009735422
#> SMARCA4 0.003278254 0.007425743 0.0009189046 0.004172324
#> STK11 0.008742011 0.019801980 0.0024504123 0.011126196
#> TP53 0.138779430 0.314356436 0.0389002947 0.176628365
#> U2AF1 0.013113017 0.029702970 0.0036756184 0.016689294
#> TCGA-97-A4M5-01 TCGA-97-A4M7-01 TCGA-99-8025-01 TCGA-99-8028-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0038411868 0.007781715 0.012980562 0.011093083
#> BRAF 0.0307294944 0.062253717 0.103844498 0.088744660
#> CDKN2A 0.0096029670 0.019454287 0.032451406 0.027732706
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0115235604 0.023345144 0.038941687 0.033279248
#> EGFR 0.0288089010 0.058362860 0.097354217 0.083198119
#> KEAP1 0.0124838571 0.025290573 0.042186827 0.036052518
#> KRAS 0.1478856916 0.299596013 0.499751647 0.427083678
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0009602967 0.001945429 0.003245141 0.002773271
#> PIK3CA 0.0182456373 0.036963144 0.061657671 0.052692142
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0009602967 0.001945429 0.003245141 0.002773271
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0019205934 0.003890857 0.006490281 0.005546541
#> SMAD4 0.0067220769 0.013618001 0.022715984 0.019412894
#> SMARCA4 0.0028808901 0.005836286 0.009735422 0.008319812
#> STK11 0.0076823736 0.015563429 0.025961125 0.022186165
#> TP53 0.1219576807 0.247069439 0.412132852 0.352205371
#> U2AF1 0.0115235604 0.023345144 0.038941687 0.033279248
#> TCGA-99-8032-01 TCGA-99-8033-01 TCGA-J2-8194-01 TCGA-J2-A4AD-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.009768535 0.004503460 0.004205437 0.008377761
#> BRAF 0.078148283 0.036027683 0.033643498 0.067022087
#> CDKN2A 0.024421338 0.011258651 0.010513593 0.020944402
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.029305606 0.013510381 0.012616312 0.025133283
#> EGFR 0.073264015 0.033775953 0.031540779 0.062833206
#> KEAP1 0.031747740 0.014636246 0.013667671 0.027227723
#> KRAS 0.376088612 0.173383225 0.161909335 0.322543793
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.002442134 0.001125865 0.001051359 0.002094440
#> PIK3CA 0.046400543 0.021391437 0.019975827 0.039794364
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.002442134 0.001125865 0.001051359 0.002094440
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.004884268 0.002251730 0.002102719 0.004188880
#> SMAD4 0.017094937 0.007881056 0.007359515 0.014661081
#> SMARCA4 0.007326402 0.003377595 0.003154078 0.006283321
#> STK11 0.019537071 0.009006921 0.008410875 0.016755522
#> TP53 0.310150998 0.142984867 0.133522633 0.265993907
#> U2AF1 0.029305606 0.013510381 0.012616312 0.025133283
#> TCGA-J2-A4AG-01 TCGA-L4-A4E5-01 TCGA-L9-A443-01 TCGA-L9-A444-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0021855028 0.008212192 0.006457167 0.013940859
#> BRAF 0.0174840226 0.065697540 0.051657340 0.111526872
#> CDKN2A 0.0054637571 0.020530481 0.016142919 0.034852147
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0065565085 0.024636577 0.019371502 0.041822577
#> EGFR 0.0163912712 0.061591443 0.048428756 0.104556442
#> KEAP1 0.0071028842 0.026689625 0.020985794 0.045307792
#> KRAS 0.0841418590 0.316169410 0.248600947 0.536723070
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0005463757 0.002053048 0.001614292 0.003485215
#> PIK3CA 0.0103811384 0.039007914 0.030671545 0.066219080
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0005463757 0.002053048 0.001614292 0.003485215
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0010927514 0.004106096 0.003228584 0.006970429
#> SMAD4 0.0038246300 0.014371337 0.011300043 0.024396503
#> SMARCA4 0.0016391271 0.006159144 0.004842876 0.010455644
#> STK11 0.0043710057 0.016424385 0.012914335 0.027881718
#> TP53 0.0693897149 0.260737111 0.205015067 0.442622272
#> U2AF1 0.0065565085 0.024636577 0.019371502 0.041822577
#> TCGA-L9-A50W-01 TCGA-L9-A5IP-01 TCGA-L9-A743-01 TCGA-L9-A7SV-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0008609557 0.007318123 0.0035100500 0.039802642
#> BRAF 0.0068876453 0.058544985 0.0280804000 0.318421140
#> CDKN2A 0.0021523892 0.018295308 0.0087751250 0.099506606
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0025828670 0.021954369 0.0105301500 0.119407927
#> EGFR 0.0064571675 0.054885923 0.0263253750 0.298519819
#> KEAP1 0.0027981059 0.023783900 0.0114076625 0.129358588
#> KRAS 0.0331467929 0.281747740 0.1351369251 1.000000000
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002152389 0.001829531 0.0008775125 0.009950661
#> PIK3CA 0.0040895394 0.034761085 0.0166727375 0.189062552
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002152389 0.001829531 0.0008775125 0.009950661
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004304778 0.003659062 0.0017550250 0.019901321
#> SMAD4 0.0015066724 0.012806715 0.0061425875 0.069654624
#> SMARCA4 0.0006457167 0.005488592 0.0026325375 0.029851982
#> STK11 0.0017219113 0.014636246 0.0070201000 0.079605285
#> TP53 0.0273353422 0.232350409 0.1114440876 1.000000000
#> U2AF1 0.0025828670 0.021954369 0.0105301500 0.119407927
#> TCGA-L9-A8F4-01 TCGA-MN-A4N1-01 TCGA-MN-A4N4-01 TCGA-MN-A4N5-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.019537071 0.011622901 0.038080731 0.011159310
#> BRAF 0.156296566 0.092983211 0.304645849 0.089274479
#> CDKN2A 0.048842677 0.029057254 0.095201828 0.027898275
#> CMTR2 0.000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.058611212 0.034868704 0.114242193 0.033477930
#> EGFR 0.146528031 0.087171761 0.285605484 0.083694824
#> KEAP1 0.063495480 0.037774430 0.123762376 0.036267757
#> KRAS 0.752177224 0.447481705 1.000000000 0.429633432
#> MGA 0.000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.004884268 0.002905725 0.009520183 0.002789827
#> PIK3CA 0.092801086 0.055208782 0.180883473 0.053006722
#> PTPRD 0.000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.004884268 0.002905725 0.009520183 0.002789827
#> RB1 0.000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.009768535 0.005811451 0.019040366 0.005579655
#> SMAD4 0.034189874 0.020340077 0.066641280 0.019528792
#> SMARCA4 0.014652803 0.008717176 0.028560548 0.008369482
#> STK11 0.039074142 0.023245803 0.076161462 0.022318620
#> TP53 0.620301997 0.369027120 1.000000000 0.354308090
#> U2AF1 0.058611212 0.034868704 0.114242193 0.033477930
#> TCGA-MP-A4SV-01 TCGA-MP-A4SW-01 TCGA-MP-A4SY-01 TCGA-MP-A4T4-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008543329 0.0016225703 0.004635915 0.010298354
#> BRAF 0.068346634 0.0129805623 0.037087321 0.082386834
#> CDKN2A 0.021358323 0.0040564257 0.011589788 0.025745886
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.025629988 0.0048677109 0.013907745 0.030895063
#> EGFR 0.064074969 0.0121692771 0.034769363 0.077237657
#> KEAP1 0.027765820 0.0052733534 0.015066724 0.033469651
#> KRAS 0.328918176 0.0624689559 0.178482731 0.396486639
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002135832 0.0004056426 0.001158979 0.002574589
#> PIK3CA 0.040580814 0.0077072088 0.022020597 0.048917183
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002135832 0.0004056426 0.001158979 0.002574589
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004271665 0.0008112851 0.002317958 0.005149177
#> SMAD4 0.014950826 0.0028394980 0.008112851 0.018022120
#> SMARCA4 0.006407497 0.0012169277 0.003476936 0.007723766
#> STK11 0.017086658 0.0032451406 0.009271830 0.020596709
#> TP53 0.271250704 0.0515166065 0.147190304 0.326972747
#> U2AF1 0.025629988 0.0048677109 0.013907745 0.030895063
#> TCGA-MP-A4T7-01 TCGA-MP-A4T8-01 TCGA-MP-A4T9-01 TCGA-MP-A4TA-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.0036756184 0.0030133448 0.0008609557 0.008576443
#> BRAF 0.0294049472 0.0241067585 0.0068876453 0.068611543
#> CDKN2A 0.0091890460 0.0075333620 0.0021523892 0.021441107
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.0110268552 0.0090400344 0.0025828670 0.025729329
#> EGFR 0.0275671380 0.0226000861 0.0064571675 0.064323322
#> KEAP1 0.0119457598 0.0097933706 0.0027981059 0.027873440
#> KRAS 0.1415113083 0.1160137753 0.0331467929 0.330193053
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.0009189046 0.0007533362 0.0002152389 0.002144111
#> PIK3CA 0.0174591874 0.0143133879 0.0040895394 0.040738104
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.0009189046 0.0007533362 0.0002152389 0.002144111
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.0018378092 0.0015066724 0.0004304778 0.004288221
#> SMAD4 0.0064323322 0.0052733534 0.0015066724 0.015008775
#> SMARCA4 0.0027567138 0.0022600086 0.0006457167 0.006432332
#> STK11 0.0073512368 0.0060266896 0.0017219113 0.017152886
#> TP53 0.1167008841 0.0956736978 0.0273353422 0.272302063
#> U2AF1 0.0110268552 0.0090400344 0.0025828670 0.025729329
#> TCGA-MP-A4TD-01 TCGA-MP-A4TE-01 TCGA-MP-A4TF-01 TCGA-MP-A4TI-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0019537071 0.0035431637 0.010761946 0.005993576
#> BRAF 0.0156296566 0.0283453094 0.086095566 0.047948608
#> CDKN2A 0.0048842677 0.0088579092 0.026904864 0.014983940
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0058611212 0.0106294910 0.032285837 0.017980728
#> EGFR 0.0146528031 0.0265737276 0.080714593 0.044951820
#> KEAP1 0.0063495480 0.0115152820 0.034976324 0.019479122
#> KRAS 0.0752177224 0.1364118017 0.414334912 0.230752674
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0004884268 0.0008857909 0.002690486 0.001498394
#> PIK3CA 0.0092801086 0.0168300275 0.051119242 0.028469486
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0004884268 0.0008857909 0.002690486 0.001498394
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0009768535 0.0017715818 0.005380973 0.002996788
#> SMAD4 0.0034189874 0.0062005364 0.018833405 0.010488758
#> SMARCA4 0.0014652803 0.0026573728 0.008071459 0.004495182
#> STK11 0.0039074142 0.0070863274 0.021523892 0.011987152
#> TP53 0.0620301997 0.1124954469 0.341691778 0.190296036
#> U2AF1 0.0058611212 0.0106294910 0.032285837 0.017980728
#> TCGA-MP-A4TK-01 TCGA-NJ-A4YG-01 TCGA-NJ-A4YI-01 TCGA-NJ-A4YP-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.008874466 0.0038411868 0.010861287 0.012814994
#> BRAF 0.070995728 0.0307294944 0.086890294 0.102519951
#> CDKN2A 0.022186165 0.0096029670 0.027153217 0.032037485
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.026623398 0.0115235604 0.032583860 0.038444982
#> EGFR 0.066558495 0.0288089010 0.081459651 0.096112454
#> KEAP1 0.028842015 0.0124838571 0.035299182 0.041648730
#> KRAS 0.341666943 0.1478856916 0.418159542 0.493377264
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.002218617 0.0009602967 0.002715322 0.003203748
#> PIK3CA 0.042153714 0.0182456373 0.051591112 0.060871221
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.002218617 0.0009602967 0.002715322 0.003203748
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.004437233 0.0019205934 0.005430643 0.006407497
#> SMAD4 0.015530316 0.0067220769 0.019007252 0.022426239
#> SMARCA4 0.006655850 0.0028808901 0.008145965 0.009611245
#> STK11 0.017748932 0.0076823736 0.021722574 0.025629988
#> TP53 0.281764297 0.1219576807 0.344845856 0.406876055
#> U2AF1 0.026623398 0.0115235604 0.032583860 0.038444982
#> TCGA-NJ-A4YQ-01 TCGA-NJ-A55O-01 TCGA-NJ-A55R-01 TCGA-05-4398-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.027914832 0.0035431637 0.006324713 0.018676115
#> BRAF 0.223318653 0.0283453094 0.050597702 0.149408921
#> CDKN2A 0.069787079 0.0088579092 0.015811782 0.046690288
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.083744495 0.0106294910 0.018974138 0.056028345
#> EGFR 0.209361237 0.0265737276 0.047435346 0.140070863
#> KEAP1 0.090723203 0.0115152820 0.020555316 0.060697374
#> KRAS 1.000000000 0.1364118017 0.243501440 0.719030431
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.006978708 0.0008857909 0.001581178 0.004669029
#> PIK3CA 0.132595450 0.0168300275 0.030042386 0.088711547
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.006978708 0.0008857909 0.001581178 0.004669029
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.013957416 0.0017715818 0.003162356 0.009338058
#> SMAD4 0.048850955 0.0062005364 0.011068247 0.032683201
#> SMARCA4 0.020936124 0.0026573728 0.004743535 0.014007086
#> STK11 0.055829663 0.0070863274 0.012649425 0.037352230
#> TP53 0.886295904 0.1124954469 0.200809629 0.592966655
#> U2AF1 0.083744495 0.0106294910 0.018974138 0.056028345
#> TCGA-05-4402-01 TCGA-05-4424-01 TCGA-05-4426-01 TCGA-05-4434-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0033444816 0.019239048 0.0012252061 0.0010927514
#> BRAF 0.0267558528 0.153912381 0.0098016491 0.0087420113
#> CDKN2A 0.0083612040 0.048097619 0.0030630153 0.0027318785
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0100334448 0.057717143 0.0036756184 0.0032782542
#> EGFR 0.0250836120 0.144292857 0.0091890460 0.0081956356
#> KEAP1 0.0108695652 0.062526905 0.0039819199 0.0035514421
#> KRAS 0.1287625418 0.740703335 0.0471704361 0.0420709295
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0008361204 0.004809762 0.0003063015 0.0002731879
#> PIK3CA 0.0158862876 0.091385476 0.0058197291 0.0051905692
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0008361204 0.004809762 0.0003063015 0.0002731879
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0016722408 0.009619524 0.0006126031 0.0005463757
#> SMAD4 0.0058528428 0.033668333 0.0021441107 0.0019123150
#> SMARCA4 0.0025083612 0.014429286 0.0009189046 0.0008195636
#> STK11 0.0066889632 0.038478095 0.0024504123 0.0021855028
#> TP53 0.1061872910 0.610839763 0.0389002947 0.0346948574
#> U2AF1 0.0100334448 0.057717143 0.0036756184 0.0032782542
#> TCGA-05-5715-01 TCGA-38-4626-01 TCGA-38-4628-01 TCGA-38-7271-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0029140038 0.006688963 0.0032120269 0.002284844
#> BRAF 0.0233120302 0.053511706 0.0256962151 0.018278751
#> CDKN2A 0.0072850094 0.016722408 0.0080300672 0.005712110
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0087420113 0.020066890 0.0096360807 0.006854532
#> EGFR 0.0218550283 0.050167224 0.0240902017 0.017136329
#> KEAP1 0.0094705123 0.021739130 0.0104390874 0.007425743
#> KRAS 0.1121891453 0.257525084 0.1236630352 0.087966489
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0007285009 0.001672241 0.0008030067 0.000571211
#> PIK3CA 0.0138415179 0.031772575 0.0152571277 0.010853008
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0007285009 0.001672241 0.0008030067 0.000571211
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0014570019 0.003344482 0.0016060134 0.001142422
#> SMAD4 0.0050995066 0.011705686 0.0056210471 0.003998477
#> SMARCA4 0.0021855028 0.005016722 0.0024090202 0.001713633
#> STK11 0.0058280075 0.013377926 0.0064240538 0.004569688
#> TP53 0.0925196199 0.212374582 0.1019818537 0.072543793
#> U2AF1 0.0087420113 0.020066890 0.0096360807 0.006854532
#> TCGA-38-A44F-01 TCGA-44-2655-01 TCGA-44-2659-01 TCGA-44-3398-01
#> ARID1A 0.000000e+00 0.000000000 0.000000000 0.000000000
#> ATM 2.980231e-04 0.004669029 0.010828173 0.004933938
#> BRAF 2.384185e-03 0.037352230 0.086625385 0.039471506
#> CDKN2A 7.450578e-04 0.011672572 0.027070433 0.012334846
#> CMTR2 0.000000e+00 0.000000000 0.000000000 0.000000000
#> CTNNB1 8.940693e-04 0.014007086 0.032484519 0.014801815
#> EGFR 2.235173e-03 0.035017716 0.081211298 0.037004537
#> KEAP1 9.685751e-04 0.015174344 0.035191563 0.016035299
#> KRAS 1.147389e-02 0.179757608 0.416884665 0.189956621
#> MGA 0.000000e+00 0.000000000 0.000000000 0.000000000
#> NF1 7.450578e-05 0.001167257 0.002707043 0.001233485
#> PIK3CA 1.415610e-03 0.022177887 0.051433822 0.023436206
#> PTPRD 0.000000e+00 0.000000000 0.000000000 0.000000000
#> PTPRT 7.450578e-05 0.001167257 0.002707043 0.001233485
#> RB1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> RBM10 0.000000e+00 0.000000000 0.000000000 0.000000000
#> SETBP1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> SETD2 1.490116e-04 0.002334514 0.005414087 0.002466969
#> SMAD4 5.215404e-04 0.008170800 0.018949303 0.008634392
#> SMARCA4 2.235173e-04 0.003501772 0.008121130 0.003700454
#> STK11 5.960462e-04 0.009338058 0.021656346 0.009867876
#> TP53 9.462234e-03 0.148241664 0.343794497 0.156652538
#> U2AF1 8.940693e-04 0.014007086 0.032484519 0.014801815
#> TCGA-44-3918-01 TCGA-44-3919-01 TCGA-44-4112-01 TCGA-44-5644-01
#> ARID1A 0.000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.024901487 0.0014901156 0.011788470 0.025497533
#> BRAF 0.199211894 0.0119209245 0.094307759 0.203980264
#> CDKN2A 0.062253717 0.0037252889 0.029471175 0.063743833
#> CMTR2 0.000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.074704460 0.0044703467 0.035365409 0.076492599
#> EGFR 0.186761151 0.0111758668 0.088413524 0.191231498
#> KEAP1 0.080929832 0.0048428756 0.038312527 0.082866982
#> KRAS 0.958707242 0.0573694493 0.453856088 0.981655022
#> MGA 0.000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.006225372 0.0003725289 0.002947117 0.006374383
#> PIK3CA 0.118282062 0.0070780489 0.055995232 0.121113282
#> PTPRD 0.000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.006225372 0.0003725289 0.002947117 0.006374383
#> RB1 0.000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.012450743 0.0007450578 0.005894235 0.012748767
#> SMAD4 0.043577602 0.0026077022 0.020629822 0.044620683
#> SMARCA4 0.018676115 0.0011175867 0.008841352 0.019123150
#> STK11 0.049802974 0.0029802311 0.023576940 0.050995066
#> TP53 0.790622206 0.0473111692 0.374283917 0.809546674
#> U2AF1 0.074704460 0.0044703467 0.035365409 0.076492599
#> TCGA-44-6148-01 TCGA-44-6778-01 TCGA-44-6779-01 TCGA-44-7660-01
#> ARID1A 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> ATM 1.986821e-04 0.010331468 0.0026159807 0.009503626
#> BRAF 1.589457e-03 0.082651743 0.0209278453 0.076029008
#> CDKN2A 4.967052e-04 0.025828670 0.0065399517 0.023759065
#> CMTR2 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> CTNNB1 5.960462e-04 0.030994404 0.0078479420 0.028510878
#> EGFR 1.490116e-03 0.077486009 0.0196198550 0.071277195
#> KEAP1 6.457167e-04 0.033577271 0.0085019372 0.030886784
#> KRAS 7.649260e-03 0.397761515 0.1007152555 0.365889599
#> MGA 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> NF1 4.967052e-05 0.002582867 0.0006539952 0.002375906
#> PIK3CA 9.437399e-04 0.049074473 0.0124259081 0.045142223
#> PTPRD 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> PTPRT 4.967052e-05 0.002582867 0.0006539952 0.002375906
#> RB1 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000e+00 0.000000000 0.0000000000 0.000000000
#> SETD2 9.934104e-05 0.005165734 0.0013079903 0.004751813
#> SMAD4 3.476936e-04 0.018080069 0.0045779662 0.016631345
#> SMARCA4 1.490116e-04 0.007748601 0.0019619855 0.007127719
#> STK11 3.973642e-04 0.020662936 0.0052319613 0.019007252
#> TP53 6.308156e-03 0.328024107 0.0830573860 0.301740124
#> U2AF1 5.960462e-04 0.030994404 0.0078479420 0.028510878
#> TCGA-44-7667-01 TCGA-44-7669-01 TCGA-44-A479-01 TCGA-44-A47B-01
#> ARID1A 0.00000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.01215272 0.011622901 0.008212192 0.0010927514
#> BRAF 0.09722176 0.092983211 0.065697540 0.0087420113
#> CDKN2A 0.03038180 0.029057254 0.020530481 0.0027318785
#> CMTR2 0.00000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.03645816 0.034868704 0.024636577 0.0032782542
#> EGFR 0.09114540 0.087171761 0.061591443 0.0081956356
#> KEAP1 0.03949634 0.037774430 0.026689625 0.0035514421
#> KRAS 0.46787973 0.447481705 0.316169410 0.0420709295
#> MGA 0.00000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.00303818 0.002905725 0.002053048 0.0002731879
#> PIK3CA 0.05772542 0.055208782 0.039007914 0.0051905692
#> PTPRD 0.00000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.00303818 0.002905725 0.002053048 0.0002731879
#> RB1 0.00000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.00000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.00000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.00607636 0.005811451 0.004106096 0.0005463757
#> SMAD4 0.02126726 0.020340077 0.014371337 0.0019123150
#> SMARCA4 0.00911454 0.008717176 0.006159144 0.0008195636
#> STK11 0.02430544 0.023245803 0.016424385 0.0021855028
#> TP53 0.38584887 0.369027120 0.260737111 0.0346948574
#> U2AF1 0.03645816 0.034868704 0.024636577 0.0032782542
#> TCGA-49-4487-01 TCGA-49-4501-01 TCGA-49-4512-01 TCGA-49-6742-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.009636081 0.0013576608 0.0010596377 0.006920759
#> BRAF 0.077088645 0.0108612868 0.0084771019 0.055366072
#> CDKN2A 0.024090202 0.0033941521 0.0026490943 0.017301897
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.028908242 0.0040729825 0.0031789132 0.020762277
#> EGFR 0.072270605 0.0101824564 0.0079472830 0.051905692
#> KEAP1 0.031317262 0.0044123978 0.0034438226 0.022492467
#> KRAS 0.370989106 0.0522699427 0.0407960528 0.266449220
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.002409020 0.0003394152 0.0002649094 0.001730190
#> PIK3CA 0.045771383 0.0064488890 0.0050332792 0.032873605
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.002409020 0.0003394152 0.0002649094 0.001730190
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.004818040 0.0006788304 0.0005298189 0.003460379
#> SMAD4 0.016863141 0.0023759065 0.0018543660 0.012111328
#> SMARCA4 0.007227060 0.0010182456 0.0007947283 0.005190569
#> STK11 0.019272161 0.0027153217 0.0021192755 0.013841518
#> TP53 0.305945561 0.0431057320 0.0336434981 0.219734097
#> U2AF1 0.028908242 0.0040729825 0.0031789132 0.020762277
#> TCGA-49-6743-01 TCGA-49-6761-01 TCGA-49-6767-01 TCGA-49-AAR0-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.019537071 0.007583033 0.011920925 0.0035431637
#> BRAF 0.156296566 0.060664260 0.095367396 0.0283453094
#> CDKN2A 0.048842677 0.018957581 0.029802311 0.0088579092
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.058611212 0.022749098 0.035762774 0.0106294910
#> EGFR 0.146528031 0.056872744 0.089406934 0.0265737276
#> KEAP1 0.063495480 0.024644856 0.038743005 0.0115152820
#> KRAS 0.752177224 0.291946753 0.458955595 0.1364118017
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.004884268 0.001895758 0.002980231 0.0008857909
#> PIK3CA 0.092801086 0.036019405 0.056624392 0.0168300275
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.004884268 0.001895758 0.002980231 0.0008857909
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.009768535 0.003791516 0.005960462 0.0017715818
#> SMAD4 0.034189874 0.013270307 0.020861618 0.0062005364
#> SMARCA4 0.014652803 0.005687274 0.008940693 0.0026573728
#> STK11 0.039074142 0.015166065 0.023841849 0.0070863274
#> TP53 0.620301997 0.240761283 0.378489354 0.1124954469
#> U2AF1 0.058611212 0.022749098 0.035762774 0.0106294910
#> TCGA-49-AAR2-01 TCGA-49-AAR3-01 TCGA-49-AAR4-01 TCGA-49-AARR-01
#> ARID1A 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> ATM 0.010165900 0.0038743005 0.01529852 6.622736e-05
#> BRAF 0.081327196 0.0309944038 0.12238816 5.298189e-04
#> CDKN2A 0.025414749 0.0096857512 0.03824630 1.655684e-04
#> CMTR2 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> CTNNB1 0.030497699 0.0116229014 0.04589556 1.986821e-04
#> EGFR 0.076244246 0.0290572536 0.11473890 4.967052e-04
#> KEAP1 0.033039173 0.0125914765 0.04972019 2.152389e-04
#> KRAS 0.391387132 0.1491605682 0.58899301 2.549753e-03
#> MGA 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> NF1 0.002541475 0.0009685751 0.00382463 1.655684e-05
#> PIK3CA 0.048288023 0.0184029272 0.07266797 3.145800e-04
#> PTPRD 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> PTPRT 0.002541475 0.0009685751 0.00382463 1.655684e-05
#> RB1 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> RBM10 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> SETBP1 0.000000000 0.0000000000 0.00000000 0.000000e+00
#> SETD2 0.005082950 0.0019371502 0.00764926 3.311368e-05
#> SMAD4 0.017790324 0.0067800258 0.02677241 1.158979e-04
#> SMARCA4 0.007624425 0.0029057254 0.01147389 4.967052e-05
#> STK11 0.020331799 0.0077486009 0.03059704 1.324547e-04
#> TP53 0.322767310 0.1230090400 0.48572800 2.102719e-03
#> U2AF1 0.030497699 0.0116229014 0.04589556 1.986821e-04
#> TCGA-50-5045-01 TCGA-50-5049-01 TCGA-50-5055-01 TCGA-50-5072-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.008212192 0.021126527 0.0006291599 0.004172324
#> BRAF 0.065697540 0.169012219 0.0050332792 0.033378589
#> CDKN2A 0.020530481 0.052816318 0.0015728998 0.010430809
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.024636577 0.063379582 0.0018874797 0.012516971
#> EGFR 0.061591443 0.158448955 0.0047186993 0.031292427
#> KEAP1 0.026689625 0.068661214 0.0020447697 0.013560052
#> KRAS 0.316169410 0.813371304 0.0242226564 0.160634458
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.002053048 0.005281632 0.0001572900 0.001043081
#> PIK3CA 0.039007914 0.100351005 0.0029885096 0.019818537
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.002053048 0.005281632 0.0001572900 0.001043081
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.004106096 0.010563264 0.0003145800 0.002086162
#> SMAD4 0.014371337 0.036971423 0.0011010298 0.007301566
#> SMARCA4 0.006159144 0.015844896 0.0004718699 0.003129243
#> STK11 0.016424385 0.042253055 0.0012583198 0.008344647
#> TP53 0.260737111 0.670767244 0.0199758270 0.132471274
#> U2AF1 0.024636577 0.063379582 0.0018874797 0.012516971
#> TCGA-50-5931-01 TCGA-50-5935-01 TCGA-50-6590-01 TCGA-50-6597-01
#> ARID1A 0.000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.007814828 0.002682208 0.023974304 0.0013907745
#> BRAF 0.062518626 0.021457664 0.191794430 0.0111261962
#> CDKN2A 0.019537071 0.006705520 0.059935759 0.0034769363
#> CMTR2 0.000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.023444485 0.008046624 0.071922911 0.0041723236
#> EGFR 0.058611212 0.020116560 0.179807278 0.0104308090
#> KEAP1 0.025398192 0.008717176 0.077916487 0.0045200172
#> KRAS 0.300870890 0.103265009 0.923010696 0.0535448194
#> MGA 0.000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.001953707 0.000670552 0.005993576 0.0003476936
#> PIK3CA 0.037120434 0.012740488 0.113877943 0.0066061790
#> PTPRD 0.000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.001953707 0.000670552 0.005993576 0.0003476936
#> RB1 0.000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.003907414 0.001341104 0.011987152 0.0006953873
#> SMAD4 0.013675950 0.004693864 0.041955032 0.0024338554
#> SMARCA4 0.005861121 0.002011656 0.017980728 0.0010430809
#> STK11 0.015629657 0.005364416 0.047948608 0.0027815491
#> TP53 0.248120799 0.085160105 0.761184145 0.0441570913
#> U2AF1 0.023444485 0.008046624 0.071922911 0.0041723236
#> TCGA-50-8457-01 TCGA-53-7624-01 TCGA-55-1594-01 TCGA-55-5899-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0013576608 0.021225868 0.004834597 0.011258651
#> BRAF 0.0108612868 0.169806947 0.038676777 0.090069208
#> CDKN2A 0.0033941521 0.053064671 0.012086493 0.028146627
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0040729825 0.063677605 0.014503792 0.033775953
#> EGFR 0.0101824564 0.159194013 0.036259479 0.084439882
#> KEAP1 0.0044123978 0.068984072 0.015712441 0.036590616
#> KRAS 0.0522699427 0.817195934 0.186131991 0.433458062
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0003394152 0.005306467 0.001208649 0.002814663
#> PIK3CA 0.0064488890 0.100822875 0.022964337 0.053478592
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0003394152 0.005306467 0.001208649 0.002814663
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0006788304 0.010612934 0.002417299 0.005629325
#> SMAD4 0.0023759065 0.037145270 0.008460545 0.019702639
#> SMARCA4 0.0010182456 0.015919401 0.003625948 0.008443988
#> STK11 0.0027153217 0.042451737 0.009669194 0.022517302
#> TP53 0.0431057320 0.673921322 0.153498460 0.357462168
#> U2AF1 0.0040729825 0.063677605 0.014503792 0.033775953
#> TCGA-55-6543-01 TCGA-55-6712-01 TCGA-55-6971-01 TCGA-55-6972-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0006291599 0.0033444816 0.005728667 0.007417464
#> BRAF 0.0050332792 0.0267558528 0.045829332 0.059339713
#> CDKN2A 0.0015728998 0.0083612040 0.014321666 0.018543660
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0018874797 0.0100334448 0.017186000 0.022252392
#> EGFR 0.0047186993 0.0250836120 0.042964999 0.055630981
#> KEAP1 0.0020447697 0.0108695652 0.018618166 0.024106759
#> KRAS 0.0242226564 0.1287625418 0.220553661 0.285572370
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0001572900 0.0008361204 0.001432167 0.001854366
#> PIK3CA 0.0029885096 0.0158862876 0.027211166 0.035232955
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0001572900 0.0008361204 0.001432167 0.001854366
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0003145800 0.0016722408 0.002864333 0.003708732
#> SMAD4 0.0011010298 0.0058528428 0.010025166 0.012980562
#> SMARCA4 0.0004718699 0.0025083612 0.004296500 0.005563098
#> STK11 0.0012583198 0.0066889632 0.011457333 0.014834928
#> TP53 0.0199758270 0.1061872910 0.181885162 0.235504487
#> U2AF1 0.0018874797 0.0100334448 0.017186000 0.022252392
#> TCGA-55-6978-01 TCGA-55-6980-01 TCGA-55-6982-01 TCGA-55-6985-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0014901156 0.0008609557 0.006225372 0.012550084
#> BRAF 0.0119209245 0.0068876453 0.049802974 0.100400676
#> CDKN2A 0.0037252889 0.0021523892 0.015563429 0.031375211
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0044703467 0.0025828670 0.018676115 0.037650253
#> EGFR 0.0111758668 0.0064571675 0.046690288 0.094125633
#> KEAP1 0.0048428756 0.0027981059 0.020232458 0.040787774
#> KRAS 0.0573694493 0.0331467929 0.239676810 0.483178251
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0003725289 0.0002152389 0.001556343 0.003137521
#> PIK3CA 0.0070780489 0.0040895394 0.029570516 0.059612901
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0003725289 0.0002152389 0.001556343 0.003137521
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0007450578 0.0004304778 0.003112686 0.006275042
#> SMAD4 0.0026077022 0.0015066724 0.010894400 0.021962648
#> SMARCA4 0.0011175867 0.0006457167 0.004669029 0.009412563
#> STK11 0.0029802311 0.0017219113 0.012450743 0.025100169
#> TP53 0.0473111692 0.0273353422 0.197655552 0.398465181
#> U2AF1 0.0044703467 0.0025828670 0.018676115 0.037650253
#> TCGA-55-6986-01 TCGA-55-6987-01 TCGA-55-7574-01 TCGA-55-8087-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0006291599 0.006059803 0.007218782 0.0009271830
#> BRAF 0.0050332792 0.048478426 0.057750257 0.0074174642
#> CDKN2A 0.0015728998 0.015149508 0.018046955 0.0023179575
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0018874797 0.018179410 0.021656346 0.0027815491
#> EGFR 0.0047186993 0.045448525 0.054140866 0.0069538726
#> KEAP1 0.0020447697 0.019694361 0.023461042 0.0030133448
#> KRAS 0.0242226564 0.233302427 0.277923110 0.0356965462
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0001572900 0.001514951 0.001804696 0.0002317958
#> PIK3CA 0.0029885096 0.028784066 0.034289215 0.0044041193
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0001572900 0.001514951 0.001804696 0.0002317958
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0003145800 0.003029902 0.003609391 0.0004635915
#> SMAD4 0.0011010298 0.010604656 0.012632869 0.0016225703
#> SMARCA4 0.0004718699 0.004544852 0.005414087 0.0006953873
#> STK11 0.0012583198 0.012119607 0.014437564 0.0018543660
#> TP53 0.0199758270 0.192398755 0.229196331 0.0294380609
#> U2AF1 0.0018874797 0.018179410 0.021656346 0.0027815491
#> TCGA-55-8091-01 TCGA-55-8204-01 TCGA-55-8206-01 TCGA-55-8507-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0009602967 0.005563098 0.0007285009 0.025133283
#> BRAF 0.0076823736 0.044504785 0.0058280075 0.201066260
#> CDKN2A 0.0024007417 0.013907745 0.0018212524 0.062833206
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0028808901 0.016689294 0.0021855028 0.075399848
#> EGFR 0.0072022252 0.041723236 0.0054637571 0.188499619
#> KEAP1 0.0031209643 0.018080069 0.0023676281 0.081683168
#> KRAS 0.0369714229 0.214179277 0.0280472863 0.967631379
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0002400742 0.001390775 0.0001821252 0.006283321
#> PIK3CA 0.0045614093 0.026424716 0.0034603795 0.119383092
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0002400742 0.001390775 0.0001821252 0.006283321
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0004801483 0.002781549 0.0003642505 0.012566641
#> SMAD4 0.0016805192 0.009735422 0.0012748767 0.043983244
#> SMARCA4 0.0007202225 0.004172324 0.0005463757 0.018849962
#> STK11 0.0019205934 0.011126196 0.0014570019 0.050266565
#> TP53 0.0304894202 0.176628365 0.0231299050 0.797981721
#> U2AF1 0.0028808901 0.016689294 0.0021855028 0.075399848
#> TCGA-55-8510-01 TCGA-55-8513-01 TCGA-55-8619-01 TCGA-55-8621-01
#> ARID1A 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> ATM 0.007781715 1.986821e-04 0.0005960462 0.0019537071
#> BRAF 0.062253717 1.589457e-03 0.0047683698 0.0156296566
#> CDKN2A 0.019454287 4.967052e-04 0.0014901156 0.0048842677
#> CMTR2 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> CTNNB1 0.023345144 5.960462e-04 0.0017881387 0.0058611212
#> EGFR 0.058362860 1.490116e-03 0.0044703467 0.0146528031
#> KEAP1 0.025290573 6.457167e-04 0.0019371502 0.0063495480
#> KRAS 0.299596013 7.649260e-03 0.0229477797 0.0752177224
#> MGA 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> NF1 0.001945429 4.967052e-05 0.0001490116 0.0004884268
#> PIK3CA 0.036963144 9.437399e-04 0.0028312196 0.0092801086
#> PTPRD 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> PTPRT 0.001945429 4.967052e-05 0.0001490116 0.0004884268
#> RB1 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000e+00 0.0000000000 0.0000000000
#> SETD2 0.003890857 9.934104e-05 0.0002980231 0.0009768535
#> SMAD4 0.013618001 3.476936e-04 0.0010430809 0.0034189874
#> SMARCA4 0.005836286 1.490116e-04 0.0004470347 0.0014652803
#> STK11 0.015563429 3.973642e-04 0.0011920925 0.0039074142
#> TP53 0.247069439 6.308156e-03 0.0189244677 0.0620301997
#> U2AF1 0.023345144 5.960462e-04 0.0017881387 0.0058611212
#> TCGA-55-A4DF-01 TCGA-62-8397-01 TCGA-62-A46O-01 TCGA-62-A46P-01
#> ARID1A 0.00000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.01907348 0.0005960462 0.022252392 0.007218782
#> BRAF 0.15258783 0.0047683698 0.178019140 0.057750257
#> CDKN2A 0.04768370 0.0014901156 0.055630981 0.018046955
#> CMTR2 0.00000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.05722044 0.0017881387 0.066757177 0.021656346
#> EGFR 0.14305109 0.0044703467 0.166892943 0.054140866
#> KEAP1 0.06198881 0.0019371502 0.072320276 0.023461042
#> KRAS 0.73432895 0.0229477797 0.856717110 0.277923110
#> MGA 0.00000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.00476837 0.0001490116 0.005563098 0.001804696
#> PIK3CA 0.09059903 0.0028312196 0.105698864 0.034289215
#> PTPRD 0.00000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.00476837 0.0001490116 0.005563098 0.001804696
#> RB1 0.00000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.00000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.00000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.00953674 0.0002980231 0.011126196 0.003609391
#> SMAD4 0.03337859 0.0010430809 0.038941687 0.012632869
#> SMARCA4 0.01430511 0.0004470347 0.016689294 0.005414087
#> STK11 0.03814696 0.0011920925 0.044504785 0.014437564
#> TP53 0.60558297 0.0189244677 0.706513461 0.229196331
#> U2AF1 0.05722044 0.0017881387 0.066757177 0.021656346
#> TCGA-62-A46Y-01 TCGA-64-5779-01 TCGA-64-5781-01 TCGA-69-7760-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.0000000000
#> ATM 0.0008609557 0.009271830 0.028477764 0.0016887976
#> BRAF 0.0068876453 0.074174642 0.227822113 0.0135103811
#> CDKN2A 0.0021523892 0.023179575 0.071194410 0.0042219941
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.0000000000
#> CTNNB1 0.0025828670 0.027815491 0.085433292 0.0050663929
#> EGFR 0.0064571675 0.069538726 0.213583231 0.0126659823
#> KEAP1 0.0027981059 0.030133448 0.092552734 0.0054885923
#> KRAS 0.0331467929 0.356965462 1.000000000 0.0650187092
#> MGA 0.0000000000 0.000000000 0.000000000 0.0000000000
#> NF1 0.0002152389 0.002317958 0.007119441 0.0004221994
#> PIK3CA 0.0040895394 0.044041193 0.135269380 0.0080217888
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.0000000000
#> PTPRT 0.0002152389 0.002317958 0.007119441 0.0004221994
#> RB1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> SETD2 0.0004304778 0.004635915 0.014238882 0.0008443988
#> SMAD4 0.0015066724 0.016225703 0.049836087 0.0029553959
#> SMARCA4 0.0006457167 0.006953873 0.021358323 0.0012665982
#> STK11 0.0017219113 0.018543660 0.056955528 0.0033775953
#> TP53 0.0273353422 0.294380609 0.904169012 0.0536193251
#> U2AF1 0.0025828670 0.027815491 0.085433292 0.0050663929
#> TCGA-69-7761-01 TCGA-69-7763-01 TCGA-69-7764-01 TCGA-69-7979-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> ATM 0.0007285009 0.0018543660 0.0023179575 0.03708732
#> BRAF 0.0058280075 0.0148349283 0.0185436604 0.29669857
#> CDKN2A 0.0018212524 0.0046359151 0.0057948939 0.09271830
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> CTNNB1 0.0021855028 0.0055630981 0.0069538726 0.11126196
#> EGFR 0.0054637571 0.0139077453 0.0173846816 0.27815491
#> KEAP1 0.0023676281 0.0060266896 0.0075333620 0.12053379
#> KRAS 0.0280472863 0.0713930925 0.0892413656 1.00000000
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> NF1 0.0001821252 0.0004635915 0.0005794894 0.00927183
#> PIK3CA 0.0034603795 0.0088082387 0.0110102984 0.17616477
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> PTPRT 0.0001821252 0.0004635915 0.0005794894 0.00927183
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETD2 0.0003642505 0.0009271830 0.0011589788 0.01854366
#> SMAD4 0.0012748767 0.0032451406 0.0040564257 0.06490281
#> SMARCA4 0.0005463757 0.0013907745 0.0017384682 0.02781549
#> STK11 0.0014570019 0.0037087321 0.0046359151 0.07417464
#> TP53 0.0231299050 0.0588761217 0.0735951522 1.00000000
#> U2AF1 0.0021855028 0.0055630981 0.0069538726 0.11126196
#> TCGA-69-8255-01 TCGA-69-A59K-01 TCGA-71-6725-01 TCGA-73-4659-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.007417464 0.012285175 0.0015894566 0.005231961
#> BRAF 0.059339713 0.098281400 0.0127156528 0.041855691
#> CDKN2A 0.018543660 0.030712938 0.0039736415 0.013079903
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.022252392 0.036855525 0.0047683698 0.015695884
#> EGFR 0.055630981 0.092138813 0.0119209245 0.039239710
#> KEAP1 0.024106759 0.039926819 0.0051657340 0.017003874
#> KRAS 0.285572370 0.472979238 0.0611940793 0.201430511
#> MGA 0.000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.001854366 0.003071294 0.0003973642 0.001307990
#> PIK3CA 0.035232955 0.058354581 0.0075499189 0.024851816
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.001854366 0.003071294 0.0003973642 0.001307990
#> RB1 0.000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.003708732 0.006142588 0.0007947283 0.002615981
#> SMAD4 0.012980562 0.021499056 0.0027815491 0.009155932
#> SMARCA4 0.005563098 0.009213881 0.0011920925 0.003923971
#> STK11 0.014834928 0.024570350 0.0031789132 0.010463923
#> TP53 0.235504487 0.390054306 0.0504652472 0.166114772
#> U2AF1 0.022252392 0.036855525 0.0047683698 0.015695884
#> TCGA-73-4668-01 TCGA-73-4675-01 TCGA-75-5122-01 TCGA-75-5125-01
#> ARID1A 0.000000000 0.0000000000 0.0000000000 0.000000000
#> ATM 0.013212358 0.0015563429 0.0034107090 0.004503460
#> BRAF 0.105698864 0.0124507434 0.0272856717 0.036027683
#> CDKN2A 0.033030895 0.0038908573 0.0085267724 0.011258651
#> CMTR2 0.000000000 0.0000000000 0.0000000000 0.000000000
#> CTNNB1 0.039637074 0.0046690288 0.0102321269 0.013510381
#> EGFR 0.099092685 0.0116725719 0.0255803172 0.033775953
#> KEAP1 0.042940164 0.0050581145 0.0110848041 0.014636246
#> KRAS 0.508675784 0.0599192026 0.1313122951 0.173383225
#> MGA 0.000000000 0.0000000000 0.0000000000 0.000000000
#> NF1 0.003303090 0.0003890857 0.0008526772 0.001125865
#> PIK3CA 0.062758701 0.0073926289 0.0162008676 0.021391437
#> PTPRD 0.000000000 0.0000000000 0.0000000000 0.000000000
#> PTPRT 0.003303090 0.0003890857 0.0008526772 0.001125865
#> RB1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> RBM10 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETBP1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> SETD2 0.006606179 0.0007781715 0.0017053545 0.002251730
#> SMAD4 0.023121627 0.0027236001 0.0059687407 0.007881056
#> SMARCA4 0.009909269 0.0011672572 0.0025580317 0.003377595
#> STK11 0.026424716 0.0031126859 0.0068214179 0.009006921
#> TP53 0.419492367 0.0494138879 0.1082900096 0.142984867
#> U2AF1 0.039637074 0.0046690288 0.0102321269 0.013510381
#> TCGA-75-6203-01 TCGA-75-6205-01 TCGA-75-6207-01 TCGA-75-6212-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0003311368 0.0014238882 0.0017219113 0.0005298189
#> BRAF 0.0026490943 0.0113911057 0.0137752906 0.0042385509
#> CDKN2A 0.0008278420 0.0035597205 0.0043047783 0.0013245472
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0009934104 0.0042716646 0.0051657340 0.0015894566
#> EGFR 0.0024835259 0.0106791616 0.0129143349 0.0039736415
#> KEAP1 0.0010761946 0.0046276367 0.0055962118 0.0017219113
#> KRAS 0.0127487665 0.0548196960 0.0662935859 0.0203980264
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0000827842 0.0003559721 0.0004304778 0.0001324547
#> PIK3CA 0.0015728998 0.0067634690 0.0081790788 0.0025166396
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0000827842 0.0003559721 0.0004304778 0.0001324547
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0001655684 0.0007119441 0.0008609557 0.0002649094
#> SMAD4 0.0005794894 0.0024918044 0.0030133448 0.0009271830
#> SMARCA4 0.0002483526 0.0010679162 0.0012914335 0.0003973642
#> STK11 0.0006622736 0.0028477764 0.0034438226 0.0010596377
#> TP53 0.0105135932 0.0452084506 0.0546706845 0.0168217491
#> U2AF1 0.0009934104 0.0042716646 0.0051657340 0.0015894566
#> TCGA-75-7025-01 TCGA-75-7031-01 TCGA-78-7154-01 TCGA-78-7156-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0.000000000
#> ATM 0.0008278420 0.005132620 0.006026690 0.008377761
#> BRAF 0.0066227359 0.041060962 0.048213517 0.067022087
#> CDKN2A 0.0020696050 0.012831551 0.015066724 0.020944402
#> CMTR2 0.0000000000 0.000000000 0.000000000 0.000000000
#> CTNNB1 0.0024835259 0.015397861 0.018080069 0.025133283
#> EGFR 0.0062088149 0.038494652 0.045200172 0.062833206
#> KEAP1 0.0026904864 0.016681016 0.019586741 0.027227723
#> KRAS 0.0318719163 0.197605881 0.232027551 0.322543793
#> MGA 0.0000000000 0.000000000 0.000000000 0.000000000
#> NF1 0.0002069605 0.001283155 0.001506672 0.002094440
#> PIK3CA 0.0039322494 0.024379946 0.028626776 0.039794364
#> PTPRD 0.0000000000 0.000000000 0.000000000 0.000000000
#> PTPRT 0.0002069605 0.001283155 0.001506672 0.002094440
#> RB1 0.0000000000 0.000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.000000000 0.000000000
#> SETD2 0.0004139210 0.002566310 0.003013345 0.004188880
#> SMAD4 0.0014487235 0.008982085 0.010546707 0.014661081
#> SMARCA4 0.0006208815 0.003849465 0.004520017 0.006283321
#> STK11 0.0016556840 0.010265241 0.012053379 0.016755522
#> TP53 0.0262839829 0.162960694 0.191347396 0.265993907
#> U2AF1 0.0024835259 0.015397861 0.018080069 0.025133283
#> TCGA-78-7162-01 TCGA-78-7163-01 TCGA-78-7535-01 TCGA-78-7536-01
#> ARID1A 0.0000000000 0.0000000000 0.000000000 0.000000000
#> ATM 0.0022186165 0.0012914335 0.004304778 0.016722408
#> BRAF 0.0177489321 0.0103314679 0.034438226 0.133779264
#> CDKN2A 0.0055465413 0.0032285837 0.010761946 0.041806020
#> CMTR2 0.0000000000 0.0000000000 0.000000000 0.000000000
#> CTNNB1 0.0066558495 0.0038743005 0.012914335 0.050167224
#> EGFR 0.0166396238 0.0096857512 0.032285837 0.125418060
#> KEAP1 0.0072105037 0.0041971588 0.013990529 0.054347826
#> KRAS 0.0854167357 0.0497201894 0.165733965 0.643812709
#> MGA 0.0000000000 0.0000000000 0.000000000 0.000000000
#> NF1 0.0005546541 0.0003228584 0.001076195 0.004180602
#> PIK3CA 0.0105384284 0.0061343091 0.020447697 0.079431438
#> PTPRD 0.0000000000 0.0000000000 0.000000000 0.000000000
#> PTPRT 0.0005546541 0.0003228584 0.001076195 0.004180602
#> RB1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> RBM10 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETBP1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> SETD2 0.0011093083 0.0006457167 0.002152389 0.008361204
#> SMAD4 0.0038825789 0.0022600086 0.007533362 0.029264214
#> SMARCA4 0.0016639624 0.0009685751 0.003228584 0.012541806
#> STK11 0.0044372330 0.0025828670 0.008609557 0.033444816
#> TP53 0.0704410742 0.0410030133 0.136676711 0.530936455
#> U2AF1 0.0066558495 0.0038743005 0.012914335 0.050167224
#> TCGA-78-7542-01 TCGA-78-8648-01 TCGA-80-5611-01 TCGA-86-6562-01
#> ARID1A 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> ATM 0.009338058 3.973642e-04 0.005496871 0.0015232292
#> BRAF 0.074704460 3.178913e-03 0.043974966 0.0121858340
#> CDKN2A 0.023345144 9.934104e-04 0.013742177 0.0038080731
#> CMTR2 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> CTNNB1 0.028014173 1.192092e-03 0.016490612 0.0045696877
#> EGFR 0.070035432 2.980231e-03 0.041226531 0.0114242193
#> KEAP1 0.030348687 1.291433e-03 0.017864830 0.0049504950
#> KRAS 0.359515216 1.529852e-02 0.211629524 0.0586443260
#> MGA 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> NF1 0.002334514 9.934104e-05 0.001374218 0.0003808073
#> PIK3CA 0.044355773 1.887480e-03 0.026110136 0.0072353389
#> PTPRD 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> PTPRT 0.002334514 9.934104e-05 0.001374218 0.0003808073
#> RB1 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> RBM10 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.000000e+00 0.000000000 0.0000000000
#> SETD2 0.004669029 1.986821e-04 0.002748435 0.0007616146
#> SMAD4 0.016341601 6.953873e-04 0.009619524 0.0026656512
#> SMARCA4 0.007003543 2.980231e-04 0.004122653 0.0011424219
#> STK11 0.018676115 7.947283e-04 0.010993742 0.0030464585
#> TP53 0.296483327 1.261631e-02 0.174525647 0.0483625286
#> U2AF1 0.028014173 1.192092e-03 0.016490612 0.0045696877
#> TCGA-86-7701-01 TCGA-86-7955-01 TCGA-86-8073-01 TCGA-86-8358-01
#> ARID1A 0.000000000 0.000000000 0.00000000 0.000000000
#> ATM 0.010331468 0.007881056 0.03834564 0.026855194
#> BRAF 0.082651743 0.063048445 0.30676512 0.214841551
#> CDKN2A 0.025828670 0.019702639 0.09586410 0.067137985
#> CMTR2 0.000000000 0.000000000 0.00000000 0.000000000
#> CTNNB1 0.030994404 0.023643167 0.11503692 0.080565582
#> EGFR 0.077486009 0.059107917 0.28759230 0.201413954
#> KEAP1 0.033577271 0.025613431 0.12462333 0.087279380
#> KRAS 0.397761515 0.303420643 1.00000000 1.000000000
#> MGA 0.000000000 0.000000000 0.00000000 0.000000000
#> NF1 0.002582867 0.001970264 0.00958641 0.006713798
#> PIK3CA 0.049074473 0.037435014 0.18214179 0.127562171
#> PTPRD 0.000000000 0.000000000 0.00000000 0.000000000
#> PTPRT 0.002582867 0.001970264 0.00958641 0.006713798
#> RB1 0.000000000 0.000000000 0.00000000 0.000000000
#> RBM10 0.000000000 0.000000000 0.00000000 0.000000000
#> SETBP1 0.000000000 0.000000000 0.00000000 0.000000000
#> SETD2 0.005165734 0.003940528 0.01917282 0.013427597
#> SMAD4 0.018080069 0.013791847 0.06710487 0.046996589
#> SMARCA4 0.007748601 0.005910792 0.02875923 0.020141395
#> STK11 0.020662936 0.015762111 0.07669128 0.053710388
#> TP53 0.328024107 0.250223517 1.00000000 0.852652406
#> U2AF1 0.030994404 0.023643167 0.11503692 0.080565582
#> TCGA-86-8669-01 TCGA-86-8671-01 TCGA-86-8672-01 TCGA-86-A4P8-01
#> ARID1A 0.0000000000 0.000000000 0.000000000 0
#> ATM 0.0032782542 0.001026524 0.007251896 0
#> BRAF 0.0262260340 0.008212192 0.058015166 0
#> CDKN2A 0.0081956356 0.002566310 0.018129739 0
#> CMTR2 0.0000000000 0.000000000 0.000000000 0
#> CTNNB1 0.0098347627 0.003079572 0.021755687 0
#> EGFR 0.0245869069 0.007698930 0.054389218 0
#> KEAP1 0.0106543263 0.003336203 0.023568661 0
#> KRAS 0.1262127885 0.039521176 0.279197987 0
#> MGA 0.0000000000 0.000000000 0.000000000 0
#> NF1 0.0008195636 0.000256631 0.001812974 0
#> PIK3CA 0.0155717077 0.004875989 0.034446505 0
#> PTPRD 0.0000000000 0.000000000 0.000000000 0
#> PTPRT 0.0008195636 0.000256631 0.001812974 0
#> RB1 0.0000000000 0.000000000 0.000000000 0
#> RBM10 0.0000000000 0.000000000 0.000000000 0
#> SETBP1 0.0000000000 0.000000000 0.000000000 0
#> SETD2 0.0016391271 0.000513262 0.003625948 0
#> SMAD4 0.0057369449 0.001796417 0.012690818 0
#> SMARCA4 0.0024586907 0.000769893 0.005438922 0
#> STK11 0.0065565085 0.002053048 0.014503792 0
#> TP53 0.1040845723 0.032592139 0.230247690 0
#> U2AF1 0.0098347627 0.003079572 0.021755687 0
#> TCGA-91-6831-01 TCGA-91-7771-01 TCGA-91-8496-01 TCGA-91-8497-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.007417464 0.005463757 0.0007947283 0.0011258651
#> BRAF 0.059339713 0.043710057 0.0063578264 0.0090069208
#> CDKN2A 0.018543660 0.013659393 0.0019868208 0.0028146627
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.022252392 0.016391271 0.0023841849 0.0033775953
#> EGFR 0.055630981 0.040978178 0.0059604623 0.0084439882
#> KEAP1 0.024106759 0.017757211 0.0025828670 0.0036590616
#> KRAS 0.285572370 0.210354648 0.0305970396 0.0433458062
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.001854366 0.001365939 0.0001986821 0.0002814663
#> PIK3CA 0.035232955 0.025952846 0.0037749594 0.0053478592
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.001854366 0.001365939 0.0001986821 0.0002814663
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.003708732 0.002731879 0.0003973642 0.0005629325
#> SMAD4 0.012980562 0.009561575 0.0013907745 0.0019702639
#> SMARCA4 0.005563098 0.004097818 0.0005960462 0.0008443988
#> STK11 0.014834928 0.010927514 0.0015894566 0.0022517302
#> TP53 0.235504487 0.173474287 0.0252326236 0.0357462168
#> U2AF1 0.022252392 0.016391271 0.0023841849 0.0033775953
#> TCGA-91-8499-01 TCGA-91-A4BC-01 TCGA-93-A4JQ-01 TCGA-95-8039-01
#> ARID1A 0.000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.007781715 0.011391106 0.0031457995 0.0024504123
#> BRAF 0.062253717 0.091128845 0.0251663962 0.0196032981
#> CDKN2A 0.019454287 0.028477764 0.0078644988 0.0061260307
#> CMTR2 0.000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.023345144 0.034173317 0.0094373986 0.0073512368
#> EGFR 0.058362860 0.085433292 0.0235934965 0.0183780920
#> KEAP1 0.025290573 0.037021093 0.0102238485 0.0079638399
#> KRAS 0.299596013 0.438557568 0.1211132819 0.0943408722
#> MGA 0.000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.001945429 0.002847776 0.0007864499 0.0006126031
#> PIK3CA 0.036963144 0.054107752 0.0149425478 0.0116394583
#> PTPRD 0.000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.001945429 0.002847776 0.0007864499 0.0006126031
#> RB1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.003890857 0.005695553 0.0015728998 0.0012252061
#> SMAD4 0.013618001 0.019934435 0.0055051492 0.0042882215
#> SMARCA4 0.005836286 0.008543329 0.0023593496 0.0018378092
#> STK11 0.015563429 0.022782211 0.0062915991 0.0049008245
#> TP53 0.247069439 0.361667605 0.0998791351 0.0778005894
#> U2AF1 0.023345144 0.034173317 0.0094373986 0.0073512368
#> TCGA-95-8494-01 TCGA-97-7547-01 TCGA-97-7552-01 TCGA-97-8172-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.000000000
#> ATM 0.0025497533 0.004536574 0.0009271830 0.006556508
#> BRAF 0.0203980264 0.036292592 0.0074174642 0.052452068
#> CDKN2A 0.0063743833 0.011341435 0.0023179575 0.016391271
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.000000000
#> CTNNB1 0.0076492599 0.013609722 0.0027815491 0.019669525
#> EGFR 0.0191231498 0.034024305 0.0069538726 0.049173814
#> KEAP1 0.0082866982 0.014743866 0.0030133448 0.021308653
#> KRAS 0.0981655022 0.174658101 0.0356965462 0.252425577
#> MGA 0.0000000000 0.000000000 0.0000000000 0.000000000
#> NF1 0.0006374383 0.001134144 0.0002317958 0.001639127
#> PIK3CA 0.0121113282 0.021548727 0.0044041193 0.031143415
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.000000000
#> PTPRT 0.0006374383 0.001134144 0.0002317958 0.001639127
#> RB1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> SETD2 0.0012748767 0.002268287 0.0004635915 0.003278254
#> SMAD4 0.0044620683 0.007939005 0.0016225703 0.011473890
#> SMARCA4 0.0019123150 0.003402431 0.0006953873 0.004917381
#> STK11 0.0050995066 0.009073148 0.0018543660 0.013113017
#> TP53 0.0809546674 0.144036226 0.0294380609 0.208169145
#> U2AF1 0.0076492599 0.013609722 0.0027815491 0.019669525
#> TCGA-97-8552-01 TCGA-97-A4M2-01 TCGA-97-A4M6-01 TCGA-99-7458-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> ATM 0.0005629325 0.0008278420 0.0007616146 0.01215272
#> BRAF 0.0045034604 0.0066227359 0.0060929170 0.09722176
#> CDKN2A 0.0014073314 0.0020696050 0.0019040366 0.03038180
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> CTNNB1 0.0016887976 0.0024835259 0.0022848439 0.03645816
#> EGFR 0.0042219941 0.0062088149 0.0057121097 0.09114540
#> KEAP1 0.0018295308 0.0026904864 0.0024752475 0.03949634
#> KRAS 0.0216729031 0.0318719163 0.0293221630 0.46787973
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> NF1 0.0001407331 0.0002069605 0.0001904037 0.00303818
#> PIK3CA 0.0026739296 0.0039322494 0.0036176695 0.05772542
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> PTPRT 0.0001407331 0.0002069605 0.0001904037 0.00303818
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.00000000
#> SETD2 0.0002814663 0.0004139210 0.0003808073 0.00607636
#> SMAD4 0.0009851320 0.0014487235 0.0013328256 0.02126726
#> SMARCA4 0.0004221994 0.0006208815 0.0005712110 0.00911454
#> STK11 0.0011258651 0.0016556840 0.0015232292 0.02430544
#> TP53 0.0178731084 0.0262839829 0.0241812643 0.38584887
#> U2AF1 0.0016887976 0.0024835259 0.0022848439 0.03645816
#> TCGA-99-AA5R-01 TCGA-J2-8192-01 TCGA-J2-A4AE-01 TCGA-L4-A4E6-01
#> ARID1A 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> ATM 0.0014570019 0.0018874797 0.0011920925 0.0003311368
#> BRAF 0.0116560151 0.0150998377 0.0095367396 0.0026490943
#> CDKN2A 0.0036425047 0.0047186993 0.0029802311 0.0008278420
#> CMTR2 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0043710057 0.0056624392 0.0035762774 0.0009934104
#> EGFR 0.0109275142 0.0141560979 0.0089406934 0.0024835259
#> KEAP1 0.0047352561 0.0061343091 0.0038743005 0.0010761946
#> KRAS 0.0560945727 0.0726679691 0.0458955595 0.0127487665
#> MGA 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> NF1 0.0003642505 0.0004718699 0.0002980231 0.0000827842
#> PIK3CA 0.0069207590 0.0089655287 0.0056624392 0.0015728998
#> PTPRD 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003642505 0.0004718699 0.0002980231 0.0000827842
#> RB1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> SETD2 0.0007285009 0.0009437399 0.0005960462 0.0001655684
#> SMAD4 0.0025497533 0.0033030895 0.0020861618 0.0005794894
#> SMARCA4 0.0010927514 0.0014156098 0.0008940693 0.0002483526
#> STK11 0.0029140038 0.0037749594 0.0023841849 0.0006622736
#> TP53 0.0462598099 0.0599274810 0.0378489354 0.0105135932
#> U2AF1 0.0043710057 0.0056624392 0.0035762774 0.0009934104
#> TCGA-MP-A4T6-01 TCGA-MP-A4TC-01 TCGA-MP-A4TH-01 TCGA-MP-A4TJ-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0017219113 0.006324713 0.0028477764 0.0024504123
#> BRAF 0.0137752906 0.050597702 0.0227822113 0.0196032981
#> CDKN2A 0.0043047783 0.015811782 0.0071194410 0.0061260307
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0051657340 0.018974138 0.0085433292 0.0073512368
#> EGFR 0.0129143349 0.047435346 0.0213583231 0.0183780920
#> KEAP1 0.0055962118 0.020555316 0.0092552734 0.0079638399
#> KRAS 0.0662935859 0.243501440 0.1096393920 0.0943408722
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0004304778 0.001581178 0.0007119441 0.0006126031
#> PIK3CA 0.0081790788 0.030042386 0.0135269380 0.0116394583
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0004304778 0.001581178 0.0007119441 0.0006126031
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0008609557 0.003162356 0.0014238882 0.0012252061
#> SMAD4 0.0030133448 0.011068247 0.0049836087 0.0042882215
#> SMARCA4 0.0012914335 0.004743535 0.0021358323 0.0018378092
#> STK11 0.0034438226 0.012649425 0.0056955528 0.0049008245
#> TP53 0.0546706845 0.200809629 0.0904169012 0.0778005894
#> U2AF1 0.0051657340 0.018974138 0.0085433292 0.0073512368
#> TCGA-MP-A5C7-01 TCGA-NJ-A4YF-01 TCGA-NJ-A55A-01 TCGA-NJ-A7XG-01
#> ARID1A 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> ATM 0.0015894566 0.015000497 0.0030464585 0.0007285009
#> BRAF 0.0127156528 0.120003974 0.0243716679 0.0058280075
#> CDKN2A 0.0039736415 0.037501242 0.0076161462 0.0018212524
#> CMTR2 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> CTNNB1 0.0047683698 0.045001490 0.0091393755 0.0021855028
#> EGFR 0.0119209245 0.112503725 0.0228484387 0.0054637571
#> KEAP1 0.0051657340 0.048751614 0.0099009901 0.0023676281
#> KRAS 0.0611940793 0.577519123 0.1172886519 0.0280472863
#> MGA 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> NF1 0.0003973642 0.003750124 0.0007616146 0.0001821252
#> PIK3CA 0.0075499189 0.071252359 0.0144706778 0.0034603795
#> PTPRD 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> PTPRT 0.0003973642 0.003750124 0.0007616146 0.0001821252
#> RB1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> RBM10 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETBP1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> SETD2 0.0007947283 0.007500248 0.0015232292 0.0003642505
#> SMAD4 0.0027815491 0.026250869 0.0053313024 0.0012748767
#> SMARCA4 0.0011920925 0.011250373 0.0022848439 0.0005463757
#> STK11 0.0031789132 0.030000993 0.0060929170 0.0014570019
#> TP53 0.0504652472 0.476265770 0.0967250571 0.0231299050
#> U2AF1 0.0047683698 0.045001490 0.0091393755 0.0021855028
#> TCGA-O1-A52J-01 TCGA-S2-AA1A-01
#> ARID1A 0.000000000 0.0000000000
#> ATM 0.004304778 0.0029471175
#> BRAF 0.034438226 0.0235769396
#> CDKN2A 0.010761946 0.0073677936
#> CMTR2 0.000000000 0.0000000000
#> CTNNB1 0.012914335 0.0088413524
#> EGFR 0.032285837 0.0221033809
#> KEAP1 0.013990529 0.0095781317
#> KRAS 0.165733965 0.1134640220
#> MGA 0.000000000 0.0000000000
#> NF1 0.001076195 0.0007367794
#> PIK3CA 0.020447697 0.0139988079
#> PTPRD 0.000000000 0.0000000000
#> PTPRT 0.001076195 0.0007367794
#> RB1 0.000000000 0.0000000000
#> RBM10 0.000000000 0.0000000000
#> SETBP1 0.000000000 0.0000000000
#> SETD2 0.002152389 0.0014735587
#> SMAD4 0.007533362 0.0051574555
#> SMARCA4 0.003228584 0.0022103381
#> STK11 0.008609557 0.0058942349
#> TP53 0.136676711 0.0935709792
#> U2AF1 0.012914335 0.0088413524
#>
#> $temp_mat$truncating
#> TCGA-05-4244-01 TCGA-05-4249-01 TCGA-05-4250-01 TCGA-05-4382-01
#> ARID1A 0.022116418 0.041468284 0.036860697 0.18983259
#> ATM 0.022116418 0.041468284 0.036860697 0.18983259
#> BRAF 0.004914760 0.009215174 0.008191266 0.04218502
#> CDKN2A 0.008600829 0.016126555 0.014334716 0.07382379
#> CMTR2 0.020887728 0.039164491 0.034812881 0.17928634
#> CTNNB1 0.001228690 0.002303794 0.002047817 0.01054626
#> EGFR 0.036860697 0.069113807 0.061434495 0.31638765
#> KEAP1 0.024573798 0.046075872 0.040956330 0.21092510
#> KRAS 0.001228690 0.002303794 0.002047817 0.01054626
#> MGA 0.030717248 0.057594840 0.051195413 0.26365638
#> NF1 0.038089387 0.071417601 0.063482312 0.32693391
#> PIK3CA 0.001228690 0.002303794 0.002047817 0.01054626
#> PTPRD 0.017201659 0.032253110 0.028669431 0.14764757
#> PTPRT 0.014744279 0.027645523 0.024573798 0.12655506
#> RB1 0.023345108 0.043772078 0.038908514 0.20037885
#> RBM10 0.035632007 0.066810014 0.059386679 0.30584140
#> SETBP1 0.013515589 0.025341729 0.022525982 0.11600881
#> SETD2 0.025802488 0.048379665 0.043004147 0.22147136
#> SMAD4 0.008600829 0.016126555 0.014334716 0.07382379
#> SMARCA4 0.025802488 0.048379665 0.043004147 0.22147136
#> STK11 0.062663185 0.117493473 0.104438642 0.53785901
#> TP53 0.119182921 0.223467977 0.198638202 1.00000000
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-05-4384-01 TCGA-05-4389-01 TCGA-05-4390-01 TCGA-05-4395-01
#> ARID1A 0.015665796 0.0165873138 0.067270773 0.028567040
#> ATM 0.015665796 0.0165873138 0.067270773 0.028567040
#> BRAF 0.003481288 0.0036860697 0.014949061 0.006348231
#> CDKN2A 0.006092254 0.0064506220 0.026160856 0.011109405
#> CMTR2 0.014795474 0.0156657963 0.063533507 0.026979983
#> CTNNB1 0.000870322 0.0009215174 0.003737265 0.001587058
#> EGFR 0.026109661 0.0276455230 0.112117954 0.047611734
#> KEAP1 0.017406440 0.0184303486 0.074745303 0.031741156
#> KRAS 0.000870322 0.0009215174 0.003737265 0.001587058
#> MGA 0.021758050 0.0230379358 0.093431629 0.039676445
#> NF1 0.026979983 0.0285670404 0.115855219 0.049198792
#> PIK3CA 0.000870322 0.0009215174 0.003737265 0.001587058
#> PTPRD 0.012184508 0.0129012440 0.052321712 0.022218809
#> PTPRT 0.010443864 0.0110582092 0.044847182 0.019044694
#> RB1 0.016536118 0.0175088312 0.071008038 0.030154098
#> RBM10 0.025239339 0.0267240055 0.108380689 0.046024676
#> SETBP1 0.009573542 0.0101366918 0.041109917 0.017457636
#> SETD2 0.018276762 0.0193518661 0.078482568 0.033328214
#> SMAD4 0.006092254 0.0064506220 0.026160856 0.011109405
#> SMARCA4 0.018276762 0.0193518661 0.078482568 0.033328214
#> STK11 0.044386423 0.0469973890 0.190600522 0.080939948
#> TP53 0.084421236 0.0893871909 0.362514719 0.153944607
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-05-4396-01 TCGA-05-4397-01 TCGA-05-4403-01 TCGA-05-4405-01
#> ARID1A 0.162187068 0.099523883 0.018430349 0.045154354
#> ATM 0.162187068 0.099523883 0.018430349 0.045154354
#> BRAF 0.036041571 0.022116418 0.004095633 0.010034301
#> CDKN2A 0.063072749 0.038703732 0.007167358 0.017560027
#> CMTR2 0.153176675 0.093994778 0.017406440 0.042645779
#> CTNNB1 0.009010393 0.005529105 0.001023908 0.002508575
#> EGFR 0.270311780 0.165873138 0.030717248 0.075257257
#> KEAP1 0.180207853 0.110582092 0.020478165 0.050171505
#> KRAS 0.009010393 0.005529105 0.001023908 0.002508575
#> MGA 0.225259817 0.138227615 0.025597706 0.062714381
#> NF1 0.279322173 0.171402242 0.031741156 0.077765832
#> PIK3CA 0.009010393 0.005529105 0.001023908 0.002508575
#> PTPRD 0.126145497 0.077407464 0.014334716 0.035120053
#> PTPRT 0.108124712 0.066349255 0.012286899 0.030102903
#> RB1 0.171197461 0.105052987 0.019454257 0.047662929
#> RBM10 0.261301387 0.160344033 0.029693339 0.072748682
#> SETBP1 0.099114319 0.060820151 0.011262991 0.027594328
#> SETD2 0.189218246 0.116111196 0.021502073 0.052680080
#> SMAD4 0.063072749 0.038703732 0.007167358 0.017560027
#> SMARCA4 0.189218246 0.116111196 0.021502073 0.052680080
#> STK11 0.459530026 0.281984334 0.052219321 0.127937337
#> TP53 0.874008089 0.536323145 0.099319101 0.243331797
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-05-4410-01 TCGA-05-4415-01 TCGA-05-4417-01 TCGA-05-4418-01
#> ARID1A 0.117954231 0.020273384 0.040546767 0.023959453
#> ATM 0.117954231 0.020273384 0.040546767 0.023959453
#> BRAF 0.026212051 0.004505196 0.009010393 0.005324323
#> CDKN2A 0.045871090 0.007884094 0.015768187 0.009317565
#> CMTR2 0.111401218 0.019147084 0.038294169 0.022628372
#> CTNNB1 0.006553013 0.001126299 0.002252598 0.001331081
#> EGFR 0.196590386 0.033788973 0.067577945 0.039932422
#> KEAP1 0.131060257 0.022525982 0.045051963 0.026621615
#> KRAS 0.006553013 0.001126299 0.002252598 0.001331081
#> MGA 0.163825321 0.028157477 0.056314954 0.033277018
#> NF1 0.203143398 0.034915272 0.069830543 0.041263503
#> PIK3CA 0.006553013 0.001126299 0.002252598 0.001331081
#> PTPRD 0.091742180 0.015768187 0.031536374 0.018635130
#> PTPRT 0.078636154 0.013515589 0.027031178 0.015972969
#> RB1 0.124507244 0.021399683 0.042799365 0.025290534
#> RBM10 0.190037373 0.032662673 0.065325347 0.038601341
#> SETBP1 0.072083141 0.012389290 0.024778580 0.014641888
#> SETD2 0.137613270 0.023652281 0.047304562 0.027952695
#> SMAD4 0.045871090 0.007884094 0.015768187 0.009317565
#> SMARCA4 0.137613270 0.023652281 0.047304562 0.027952695
#> STK11 0.334203655 0.057441253 0.114882507 0.067885117
#> TP53 0.635642246 0.109251011 0.218502022 0.129114831
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-05-4420-01 TCGA-05-4422-01 TCGA-05-4425-01 TCGA-05-4427-01
#> ARID1A 0.033174628 0.0092151743 0.0055291046 0.115189679
#> ATM 0.033174628 0.0092151743 0.0055291046 0.115189679
#> BRAF 0.007372139 0.0020478165 0.0012286899 0.025597706
#> CDKN2A 0.012901244 0.0035836789 0.0021502073 0.044795986
#> CMTR2 0.031331593 0.0087032202 0.0052219321 0.108790252
#> CTNNB1 0.001843035 0.0005119541 0.0003071725 0.006399427
#> EGFR 0.055291046 0.0153586239 0.0092151743 0.191982798
#> KEAP1 0.036860697 0.0102390826 0.0061434495 0.127988532
#> KRAS 0.001843035 0.0005119541 0.0003071725 0.006399427
#> MGA 0.046075872 0.0127988532 0.0076793119 0.159985665
#> NF1 0.057134081 0.0158705780 0.0095223468 0.198382225
#> PIK3CA 0.001843035 0.0005119541 0.0003071725 0.006399427
#> PTPRD 0.025802488 0.0071673578 0.0043004147 0.089591973
#> PTPRT 0.022116418 0.0061434495 0.0036860697 0.076793119
#> RB1 0.035017662 0.0097271284 0.0058362771 0.121589106
#> RBM10 0.053448011 0.0148466697 0.0089080018 0.185583372
#> SETBP1 0.020273384 0.0056314954 0.0033788973 0.070393693
#> SETD2 0.038703732 0.0107510367 0.0064506220 0.134387959
#> SMAD4 0.012901244 0.0035836789 0.0021502073 0.044795986
#> SMARCA4 0.038703732 0.0107510367 0.0064506220 0.134387959
#> STK11 0.093994778 0.0261096606 0.0156657963 0.326370757
#> TP53 0.178774382 0.0496595505 0.0297957303 0.620744381
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-05-4430-01 TCGA-05-4432-01 TCGA-05-4433-01 TCGA-05-5423-01
#> ARID1A 0.025802488 0.074642912 0.0027645523 0.0165873138
#> ATM 0.025802488 0.074642912 0.0027645523 0.0165873138
#> BRAF 0.005733886 0.016587314 0.0006143450 0.0036860697
#> CDKN2A 0.010034301 0.029027799 0.0010751037 0.0064506220
#> CMTR2 0.024369017 0.070496084 0.0026109661 0.0156657963
#> CTNNB1 0.001433472 0.004146828 0.0001535862 0.0009215174
#> EGFR 0.043004147 0.124404853 0.0046075872 0.0276455230
#> KEAP1 0.028669431 0.082936569 0.0030717248 0.0184303486
#> KRAS 0.001433472 0.004146828 0.0001535862 0.0009215174
#> MGA 0.035836789 0.103670711 0.0038396560 0.0230379358
#> NF1 0.044437618 0.128551682 0.0047611734 0.0285670404
#> PIK3CA 0.001433472 0.004146828 0.0001535862 0.0009215174
#> PTPRD 0.020068602 0.058055598 0.0021502073 0.0129012440
#> PTPRT 0.017201659 0.049761941 0.0018430349 0.0110582092
#> RB1 0.027235960 0.078789740 0.0029181385 0.0175088312
#> RBM10 0.041570675 0.120258025 0.0044540009 0.0267240055
#> SETBP1 0.015768187 0.045615113 0.0016894486 0.0101366918
#> SETD2 0.030102903 0.087083397 0.0032253110 0.0193518661
#> SMAD4 0.010034301 0.029027799 0.0010751037 0.0064506220
#> SMARCA4 0.030102903 0.087083397 0.0032253110 0.0193518661
#> STK11 0.073107050 0.211488251 0.0078328982 0.0469973890
#> TP53 0.139046741 0.402242359 0.0148978652 0.0893871909
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-05-5425-01 TCGA-05-5428-01 TCGA-05-5429-01 TCGA-35-3615-01
#> ARID1A 0.073721395 0.046075872 0.0073721395 0.0129012440
#> ATM 0.073721395 0.046075872 0.0073721395 0.0129012440
#> BRAF 0.016382532 0.010239083 0.0016382532 0.0028669431
#> CDKN2A 0.028669431 0.017918395 0.0028669431 0.0050171505
#> CMTR2 0.069625762 0.043516101 0.0069625762 0.0121845083
#> CTNNB1 0.004095633 0.002559771 0.0004095633 0.0007167358
#> EGFR 0.122868991 0.076793119 0.0122868991 0.0215020734
#> KEAP1 0.081912661 0.051195413 0.0081912661 0.0143347156
#> KRAS 0.004095633 0.002559771 0.0004095633 0.0007167358
#> MGA 0.102390826 0.063994266 0.0102390826 0.0179183945
#> NF1 0.126964624 0.079352890 0.0126964624 0.0222188092
#> PIK3CA 0.004095633 0.002559771 0.0004095633 0.0007167358
#> PTPRD 0.057338862 0.035836789 0.0057338862 0.0100343009
#> PTPRT 0.049147596 0.030717248 0.0049147596 0.0086008294
#> RB1 0.077817028 0.048635642 0.0077817028 0.0136179798
#> RBM10 0.118773358 0.074233349 0.0118773358 0.0207853376
#> SETBP1 0.045051963 0.028157477 0.0045051963 0.0078840936
#> SETD2 0.086008294 0.053755184 0.0086008294 0.0150514514
#> SMAD4 0.028669431 0.017918395 0.0028669431 0.0050171505
#> SMARCA4 0.086008294 0.053755184 0.0086008294 0.0150514514
#> STK11 0.208877285 0.130548303 0.0208877285 0.0365535248
#> TP53 0.397276404 0.248297753 0.0397276404 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-35-4122-01 TCGA-35-4123-01 TCGA-35-5375-01 TCGA-38-4625-01
#> ARID1A 0.032253110 0.030410075 0.051604976 0.070035325
#> ATM 0.032253110 0.030410075 0.051604976 0.070035325
#> BRAF 0.007167358 0.006757795 0.011467772 0.015563406
#> CDKN2A 0.012542876 0.011826140 0.020068602 0.027235960
#> CMTR2 0.030461271 0.028720627 0.048738033 0.066144473
#> CTNNB1 0.001791839 0.001689449 0.002866943 0.003890851
#> EGFR 0.053755184 0.050683459 0.086008294 0.116725541
#> KEAP1 0.035836789 0.033788973 0.057338862 0.077817028
#> KRAS 0.001791839 0.001689449 0.002866943 0.003890851
#> MGA 0.044795986 0.042236216 0.071673578 0.097271284
#> NF1 0.055547023 0.052372907 0.088875237 0.120616393
#> PIK3CA 0.001791839 0.001689449 0.002866943 0.003890851
#> PTPRD 0.025085752 0.023652281 0.040137204 0.054471919
#> PTPRT 0.021502073 0.020273384 0.034403317 0.046690217
#> RB1 0.034044950 0.032099524 0.054471919 0.073926176
#> RBM10 0.051963344 0.048994010 0.083141351 0.112834690
#> SETBP1 0.019710234 0.018583935 0.031536374 0.042799365
#> SETD2 0.037628628 0.035478421 0.060205806 0.081707879
#> SMAD4 0.012542876 0.011826140 0.020068602 0.027235960
#> SMARCA4 0.037628628 0.035478421 0.060205806 0.081707879
#> STK11 0.091383812 0.086161880 0.146214099 0.198433420
#> TP53 0.173808427 0.163876517 0.278093483 0.377412584
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-38-4627-01 TCGA-38-4631-01 TCGA-38-4632-01 TCGA-38-6178-01
#> ARID1A 0.0046075872 0.105974505 0.068192290 0.0119797266
#> ATM 0.0046075872 0.105974505 0.068192290 0.0119797266
#> BRAF 0.0010239083 0.023549890 0.015153842 0.0026621615
#> CDKN2A 0.0017918395 0.041212307 0.026519224 0.0046587826
#> CMTR2 0.0043516101 0.100087032 0.064403829 0.0113141862
#> CTNNB1 0.0002559771 0.005887472 0.003788461 0.0006655404
#> EGFR 0.0076793119 0.176624174 0.113653817 0.0199662110
#> KEAP1 0.0051195413 0.117749450 0.075769211 0.0133108074
#> KRAS 0.0002559771 0.005887472 0.003788461 0.0006655404
#> MGA 0.0063994266 0.147186812 0.094711514 0.0166385092
#> NF1 0.0079352890 0.182511647 0.117442277 0.0206317514
#> PIK3CA 0.0002559771 0.005887472 0.003788461 0.0006655404
#> PTPRD 0.0035836789 0.082424615 0.053038448 0.0093175651
#> PTPRT 0.0030717248 0.070649670 0.045461527 0.0079864844
#> RB1 0.0048635642 0.111861977 0.071980751 0.0126452670
#> RBM10 0.0074233349 0.170736702 0.109865356 0.0193006707
#> SETBP1 0.0028157477 0.064762197 0.041673066 0.0073209440
#> SETD2 0.0053755184 0.123636922 0.079557672 0.0139763477
#> SMAD4 0.0017918395 0.041212307 0.026519224 0.0046587826
#> SMARCA4 0.0053755184 0.123636922 0.079557672 0.0139763477
#> STK11 0.0130548303 0.300261097 0.193211488 0.0339425587
#> TP53 0.0248297753 0.571084831 0.367480674 0.0645574157
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-2656-01 TCGA-44-2657-01 TCGA-44-2662-01 TCGA-44-2665-01
#> ARID1A 0.109660574 0.036860697 0.020273384 0.0036860697
#> ATM 0.109660574 0.036860697 0.020273384 0.0036860697
#> BRAF 0.024369017 0.008191266 0.004505196 0.0008191266
#> CDKN2A 0.042645779 0.014334716 0.007884094 0.0014334716
#> CMTR2 0.103568320 0.034812881 0.019147084 0.0034812881
#> CTNNB1 0.006092254 0.002047817 0.001126299 0.0002047817
#> EGFR 0.182767624 0.061434495 0.033788973 0.0061434495
#> KEAP1 0.121845083 0.040956330 0.022525982 0.0040956330
#> KRAS 0.006092254 0.002047817 0.001126299 0.0002047817
#> MGA 0.152306353 0.051195413 0.028157477 0.0051195413
#> NF1 0.188859878 0.063482312 0.034915272 0.0063482312
#> PIK3CA 0.006092254 0.002047817 0.001126299 0.0002047817
#> PTPRD 0.085291558 0.028669431 0.015768187 0.0028669431
#> PTPRT 0.073107050 0.024573798 0.013515589 0.0024573798
#> RB1 0.115752829 0.038908514 0.021399683 0.0038908514
#> RBM10 0.176675370 0.059386679 0.032662673 0.0059386679
#> SETBP1 0.067014795 0.022525982 0.012389290 0.0022525982
#> SETD2 0.127937337 0.043004147 0.023652281 0.0043004147
#> SMAD4 0.042645779 0.014334716 0.007884094 0.0014334716
#> SMARCA4 0.127937337 0.043004147 0.023652281 0.0043004147
#> STK11 0.310704961 0.104438642 0.057441253 0.0104438642
#> TP53 0.590948651 0.198638202 0.109251011 0.0198638202
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-2666-01 TCGA-44-2668-01 TCGA-44-3396-01 TCGA-44-5643-01
#> ARID1A 9.215174e-04 0.052526494 0.022116418 0.018430349
#> ATM 9.215174e-04 0.052526494 0.022116418 0.018430349
#> BRAF 2.047817e-04 0.011672554 0.004914760 0.004095633
#> CDKN2A 3.583679e-04 0.020426970 0.008600829 0.007167358
#> CMTR2 8.703220e-04 0.049608355 0.020887728 0.017406440
#> CTNNB1 5.119541e-05 0.002918139 0.001228690 0.001023908
#> EGFR 1.535862e-03 0.087544156 0.036860697 0.030717248
#> KEAP1 1.023908e-03 0.058362771 0.024573798 0.020478165
#> KRAS 5.119541e-05 0.002918139 0.001228690 0.001023908
#> MGA 1.279885e-03 0.072953463 0.030717248 0.025597706
#> NF1 1.587058e-03 0.090462295 0.038089387 0.031741156
#> PIK3CA 5.119541e-05 0.002918139 0.001228690 0.001023908
#> PTPRD 7.167358e-04 0.040853939 0.017201659 0.014334716
#> PTPRT 6.143450e-04 0.035017662 0.014744279 0.012286899
#> RB1 9.727128e-04 0.055444632 0.023345108 0.019454257
#> RBM10 1.484667e-03 0.084626018 0.035632007 0.029693339
#> SETBP1 5.631495e-04 0.032099524 0.013515589 0.011262991
#> SETD2 1.075104e-03 0.061280909 0.025802488 0.021502073
#> SMAD4 3.583679e-04 0.020426970 0.008600829 0.007167358
#> SMARCA4 1.075104e-03 0.061280909 0.025802488 0.021502073
#> STK11 2.610966e-03 0.148825065 0.062663185 0.052219321
#> TP53 4.965955e-03 0.283059438 0.119182921 0.099319101
#> U2AF1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> TCGA-44-5645-01 TCGA-44-6145-01 TCGA-44-6146-01 TCGA-44-6774-01
#> ARID1A 0.0082936569 0.037782215 0.0073721395 0.040546767
#> ATM 0.0082936569 0.037782215 0.0073721395 0.040546767
#> BRAF 0.0018430349 0.008396048 0.0016382532 0.009010393
#> CDKN2A 0.0032253110 0.014693083 0.0028669431 0.015768187
#> CMTR2 0.0078328982 0.035683203 0.0069625762 0.038294169
#> CTNNB1 0.0004607587 0.002099012 0.0004095633 0.002252598
#> EGFR 0.0138227615 0.062970358 0.0122868991 0.067577945
#> KEAP1 0.0092151743 0.041980239 0.0081912661 0.045051963
#> KRAS 0.0004607587 0.002099012 0.0004095633 0.002252598
#> MGA 0.0115189679 0.052475298 0.0102390826 0.056314954
#> NF1 0.0142835202 0.065069370 0.0126964624 0.069830543
#> PIK3CA 0.0004607587 0.002099012 0.0004095633 0.002252598
#> PTPRD 0.0064506220 0.029386167 0.0057338862 0.031536374
#> PTPRT 0.0055291046 0.025188143 0.0049147596 0.027031178
#> RB1 0.0087544156 0.039881227 0.0077817028 0.042799365
#> RBM10 0.0133620028 0.060871346 0.0118773358 0.065325347
#> SETBP1 0.0050683459 0.023089131 0.0045051963 0.024778580
#> SETD2 0.0096759330 0.044079250 0.0086008294 0.047304562
#> SMAD4 0.0032253110 0.014693083 0.0028669431 0.015768187
#> SMARCA4 0.0096759330 0.044079250 0.0086008294 0.047304562
#> STK11 0.0234986945 0.107049608 0.0208877285 0.114882507
#> TP53 0.0446935955 0.203604157 0.0397276404 0.218502022
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-44-6775-01 TCGA-44-6776-01 TCGA-44-6777-01 TCGA-44-7659-01
#> ARID1A 0.0101366918 0.022116418 0.043311319 0.0175088312
#> ATM 0.0101366918 0.022116418 0.043311319 0.0175088312
#> BRAF 0.0022525982 0.004914760 0.009624738 0.0038908514
#> CDKN2A 0.0039420468 0.008600829 0.016843291 0.0068089899
#> CMTR2 0.0095735422 0.020887728 0.040905135 0.0165361184
#> CTNNB1 0.0005631495 0.001228690 0.002406184 0.0009727128
#> EGFR 0.0168944863 0.036860697 0.072185532 0.0291813853
#> KEAP1 0.0112629908 0.024573798 0.048123688 0.0194542569
#> KRAS 0.0005631495 0.001228690 0.002406184 0.0009727128
#> MGA 0.0140787385 0.030717248 0.060154610 0.0243178211
#> NF1 0.0174576358 0.038089387 0.074591717 0.0301540982
#> PIK3CA 0.0005631495 0.001228690 0.002406184 0.0009727128
#> PTPRD 0.0078840936 0.017201659 0.033686582 0.0136179798
#> PTPRT 0.0067577945 0.014744279 0.028874213 0.0116725541
#> RB1 0.0106998413 0.023345108 0.045717504 0.0184815441
#> RBM10 0.0163313367 0.035632007 0.069779348 0.0282086725
#> SETBP1 0.0061946450 0.013515589 0.026468028 0.0106998413
#> SETD2 0.0118261404 0.025802488 0.050529873 0.0204269697
#> SMAD4 0.0039420468 0.008600829 0.016843291 0.0068089899
#> SMARCA4 0.0118261404 0.025802488 0.050529873 0.0204269697
#> STK11 0.0287206266 0.062663185 0.122715405 0.0496083551
#> TP53 0.0546255056 0.119182921 0.233399887 0.0943531460
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-44-7661-01 TCGA-44-7662-01 TCGA-44-7670-01 TCGA-44-7671-01
#> ARID1A 0.032253110 0.05621256 0.13454155 0.029488558
#> ATM 0.032253110 0.05621256 0.13454155 0.029488558
#> BRAF 0.007167358 0.01249168 0.02989812 0.006553013
#> CDKN2A 0.012542876 0.02186044 0.05232171 0.011467772
#> CMTR2 0.030461271 0.05308964 0.12706701 0.027850305
#> CTNNB1 0.001791839 0.00312292 0.00747453 0.001638253
#> EGFR 0.053755184 0.09368761 0.22423591 0.049147596
#> KEAP1 0.035836789 0.06245840 0.14949061 0.032765064
#> KRAS 0.001791839 0.00312292 0.00747453 0.001638253
#> MGA 0.044795986 0.07807300 0.18686326 0.040956330
#> NF1 0.055547023 0.09681053 0.23171044 0.050785850
#> PIK3CA 0.001791839 0.00312292 0.00747453 0.001638253
#> PTPRD 0.025085752 0.04372088 0.10464342 0.022935545
#> PTPRT 0.021502073 0.03747504 0.08969436 0.019659039
#> RB1 0.034044950 0.05933548 0.14201608 0.031126811
#> RBM10 0.051963344 0.09056469 0.21676138 0.047509343
#> SETBP1 0.019710234 0.03435212 0.08221983 0.018020785
#> SETD2 0.037628628 0.06558132 0.15696514 0.034403317
#> SMAD4 0.012542876 0.02186044 0.05232171 0.011467772
#> SMARCA4 0.037628628 0.06558132 0.15696514 0.034403317
#> STK11 0.091383812 0.15926893 0.38120104 0.083550914
#> TP53 0.173808427 0.30292326 0.72502944 0.158910562
#> U2AF1 0.000000000 0.00000000 0.00000000 0.000000000
#> TCGA-44-7672-01 TCGA-44-8117-01 TCGA-44-8119-01 TCGA-44-8120-01
#> ARID1A 0.021194901 0.08846567 0.059898633 0.077407464
#> ATM 0.021194901 0.08846567 0.059898633 0.077407464
#> BRAF 0.004709978 0.01965904 0.013310807 0.017201659
#> CDKN2A 0.008242461 0.03440332 0.023293913 0.030102903
#> CMTR2 0.020017406 0.08355091 0.056570931 0.073107050
#> CTNNB1 0.001177494 0.00491476 0.003327702 0.004300415
#> EGFR 0.035324835 0.14744279 0.099831055 0.129012440
#> KEAP1 0.023549890 0.09829519 0.066554037 0.086008294
#> KRAS 0.001177494 0.00491476 0.003327702 0.004300415
#> MGA 0.029437362 0.12286899 0.083192546 0.107510367
#> NF1 0.036502329 0.15235755 0.103158757 0.133312855
#> PIK3CA 0.001177494 0.00491476 0.003327702 0.004300415
#> PTPRD 0.016484923 0.06880663 0.046587826 0.060205806
#> PTPRT 0.014129934 0.05897712 0.039932422 0.051604976
#> RB1 0.022372395 0.09338043 0.063226335 0.081707879
#> RBM10 0.034147340 0.14252803 0.096503353 0.124712026
#> SETBP1 0.012952439 0.05406236 0.036604720 0.047304562
#> SETD2 0.024727384 0.10320995 0.069881739 0.090308708
#> SMAD4 0.008242461 0.03440332 0.023293913 0.030102903
#> SMARCA4 0.024727384 0.10320995 0.069881739 0.090308708
#> STK11 0.060052219 0.25065274 0.169712794 0.219321149
#> TP53 0.114216966 0.47673168 0.322787078 0.417140224
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-44-A47A-01 TCGA-44-A47G-01 TCGA-44-A4SS-01 TCGA-44-A4SU-01
#> ARID1A 0.028567040 0.011058209 0.052526494 0.0119797266
#> ATM 0.028567040 0.011058209 0.052526494 0.0119797266
#> BRAF 0.006348231 0.002457380 0.011672554 0.0026621615
#> CDKN2A 0.011109405 0.004300415 0.020426970 0.0046587826
#> CMTR2 0.026979983 0.010443864 0.049608355 0.0113141862
#> CTNNB1 0.001587058 0.000614345 0.002918139 0.0006655404
#> EGFR 0.047611734 0.018430349 0.087544156 0.0199662110
#> KEAP1 0.031741156 0.012286899 0.058362771 0.0133108074
#> KRAS 0.001587058 0.000614345 0.002918139 0.0006655404
#> MGA 0.039676445 0.015358624 0.072953463 0.0166385092
#> NF1 0.049198792 0.019044694 0.090462295 0.0206317514
#> PIK3CA 0.001587058 0.000614345 0.002918139 0.0006655404
#> PTPRD 0.022218809 0.008600829 0.040853939 0.0093175651
#> PTPRT 0.019044694 0.007372139 0.035017662 0.0079864844
#> RB1 0.030154098 0.011672554 0.055444632 0.0126452670
#> RBM10 0.046024676 0.017816004 0.084626018 0.0193006707
#> SETBP1 0.017457636 0.006757795 0.032099524 0.0073209440
#> SETD2 0.033328214 0.012901244 0.061280909 0.0139763477
#> SMAD4 0.011109405 0.004300415 0.020426970 0.0046587826
#> SMARCA4 0.033328214 0.012901244 0.061280909 0.0139763477
#> STK11 0.080939948 0.031331593 0.148825065 0.0339425587
#> TP53 0.153944607 0.059591461 0.283059438 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4486-01 TCGA-49-4488-01 TCGA-49-4490-01 TCGA-49-4494-01
#> ARID1A 0.0147442789 0.038703732 0.0018430349 0.019351866
#> ATM 0.0147442789 0.038703732 0.0018430349 0.019351866
#> BRAF 0.0032765064 0.008600829 0.0004095633 0.004300415
#> CDKN2A 0.0057338862 0.015051451 0.0007167358 0.007525726
#> CMTR2 0.0139251523 0.036553525 0.0017406440 0.018276762
#> CTNNB1 0.0008191266 0.002150207 0.0001023908 0.001075104
#> EGFR 0.0245737982 0.064506220 0.0030717248 0.032253110
#> KEAP1 0.0163825321 0.043004147 0.0020478165 0.021502073
#> KRAS 0.0008191266 0.002150207 0.0001023908 0.001075104
#> MGA 0.0204781652 0.053755184 0.0025597706 0.026877592
#> NF1 0.0253929248 0.066656428 0.0031741156 0.033328214
#> PIK3CA 0.0008191266 0.002150207 0.0001023908 0.001075104
#> PTPRD 0.0114677725 0.030102903 0.0014334716 0.015051451
#> PTPRT 0.0098295193 0.025802488 0.0012286899 0.012901244
#> RB1 0.0155634055 0.040853939 0.0019454257 0.020426970
#> RBM10 0.0237546716 0.062356013 0.0029693339 0.031178006
#> SETBP1 0.0090103927 0.023652281 0.0011262991 0.011826140
#> SETD2 0.0172016587 0.045154354 0.0021502073 0.022577177
#> SMAD4 0.0057338862 0.015051451 0.0007167358 0.007525726
#> SMARCA4 0.0172016587 0.045154354 0.0021502073 0.022577177
#> STK11 0.0417754569 0.109660574 0.0052219321 0.054830287
#> TP53 0.0794552808 0.208570112 0.0099319101 0.104285056
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-49-4505-01 TCGA-49-4506-01 TCGA-49-4507-01 TCGA-49-4510-01
#> ARID1A 0.020273384 0.021194901 0.018430349 0.0082936569
#> ATM 0.020273384 0.021194901 0.018430349 0.0082936569
#> BRAF 0.004505196 0.004709978 0.004095633 0.0018430349
#> CDKN2A 0.007884094 0.008242461 0.007167358 0.0032253110
#> CMTR2 0.019147084 0.020017406 0.017406440 0.0078328982
#> CTNNB1 0.001126299 0.001177494 0.001023908 0.0004607587
#> EGFR 0.033788973 0.035324835 0.030717248 0.0138227615
#> KEAP1 0.022525982 0.023549890 0.020478165 0.0092151743
#> KRAS 0.001126299 0.001177494 0.001023908 0.0004607587
#> MGA 0.028157477 0.029437362 0.025597706 0.0115189679
#> NF1 0.034915272 0.036502329 0.031741156 0.0142835202
#> PIK3CA 0.001126299 0.001177494 0.001023908 0.0004607587
#> PTPRD 0.015768187 0.016484923 0.014334716 0.0064506220
#> PTPRT 0.013515589 0.014129934 0.012286899 0.0055291046
#> RB1 0.021399683 0.022372395 0.019454257 0.0087544156
#> RBM10 0.032662673 0.034147340 0.029693339 0.0133620028
#> SETBP1 0.012389290 0.012952439 0.011262991 0.0050683459
#> SETD2 0.023652281 0.024727384 0.021502073 0.0096759330
#> SMAD4 0.007884094 0.008242461 0.007167358 0.0032253110
#> SMARCA4 0.023652281 0.024727384 0.021502073 0.0096759330
#> STK11 0.057441253 0.060052219 0.052219321 0.0234986945
#> TP53 0.109251011 0.114216966 0.099319101 0.0446935955
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4514-01 TCGA-49-6744-01 TCGA-49-6745-01 TCGA-49-AAQV-01
#> ARID1A 0.037782215 0.031331593 0.0165873138 0.0046075872
#> ATM 0.037782215 0.031331593 0.0165873138 0.0046075872
#> BRAF 0.008396048 0.006962576 0.0036860697 0.0010239083
#> CDKN2A 0.014693083 0.012184508 0.0064506220 0.0017918395
#> CMTR2 0.035683203 0.029590949 0.0156657963 0.0043516101
#> CTNNB1 0.002099012 0.001740644 0.0009215174 0.0002559771
#> EGFR 0.062970358 0.052219321 0.0276455230 0.0076793119
#> KEAP1 0.041980239 0.034812881 0.0184303486 0.0051195413
#> KRAS 0.002099012 0.001740644 0.0009215174 0.0002559771
#> MGA 0.052475298 0.043516101 0.0230379358 0.0063994266
#> NF1 0.065069370 0.053959965 0.0285670404 0.0079352890
#> PIK3CA 0.002099012 0.001740644 0.0009215174 0.0002559771
#> PTPRD 0.029386167 0.024369017 0.0129012440 0.0035836789
#> PTPRT 0.025188143 0.020887728 0.0110582092 0.0030717248
#> RB1 0.039881227 0.033072237 0.0175088312 0.0048635642
#> RBM10 0.060871346 0.050478677 0.0267240055 0.0074233349
#> SETBP1 0.023089131 0.019147084 0.0101366918 0.0028157477
#> SETD2 0.044079250 0.036553525 0.0193518661 0.0053755184
#> SMAD4 0.014693083 0.012184508 0.0064506220 0.0017918395
#> SMARCA4 0.044079250 0.036553525 0.0193518661 0.0053755184
#> STK11 0.107049608 0.088772846 0.0469973890 0.0130548303
#> TP53 0.203604157 0.168842472 0.0893871909 0.0248297753
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-49-AAR9-01 TCGA-49-AARE-01 TCGA-49-AARN-01 TCGA-49-AARO-01
#> ARID1A 0.063584703 0.136384580 0.064506220 0.06634926
#> ATM 0.063584703 0.136384580 0.064506220 0.06634926
#> BRAF 0.014129934 0.030307684 0.014334716 0.01474428
#> CDKN2A 0.024727384 0.053038448 0.025085752 0.02580249
#> CMTR2 0.060052219 0.128807659 0.060922541 0.06266319
#> CTNNB1 0.003532483 0.007576921 0.003583679 0.00368607
#> EGFR 0.105974505 0.227307633 0.107510367 0.11058209
#> KEAP1 0.070649670 0.151538422 0.071673578 0.07372139
#> KRAS 0.003532483 0.007576921 0.003583679 0.00368607
#> MGA 0.088312087 0.189423028 0.089591973 0.09215174
#> NF1 0.109506988 0.234884554 0.111094046 0.11426816
#> PIK3CA 0.003532483 0.007576921 0.003583679 0.00368607
#> PTPRD 0.049454769 0.106076896 0.050171505 0.05160498
#> PTPRT 0.042389802 0.090923053 0.043004147 0.04423284
#> RB1 0.067117186 0.143961501 0.068089899 0.07003532
#> RBM10 0.102442021 0.219730712 0.103926688 0.10689602
#> SETBP1 0.038857318 0.083346132 0.039420468 0.04054677
#> SETD2 0.074182153 0.159115343 0.075257257 0.07740746
#> SMAD4 0.024727384 0.053038448 0.025085752 0.02580249
#> SMARCA4 0.074182153 0.159115343 0.075257257 0.07740746
#> STK11 0.180156658 0.386422977 0.182767624 0.18798956
#> TP53 0.342650898 0.734961347 0.347616854 0.35754876
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-49-AARQ-01 TCGA-4B-A93V-01 TCGA-50-5044-01 TCGA-50-5051-01
#> ARID1A 0.077407464 0.011058209 0.0101366918 0.0119797266
#> ATM 0.077407464 0.011058209 0.0101366918 0.0119797266
#> BRAF 0.017201659 0.002457380 0.0022525982 0.0026621615
#> CDKN2A 0.030102903 0.004300415 0.0039420468 0.0046587826
#> CMTR2 0.073107050 0.010443864 0.0095735422 0.0113141862
#> CTNNB1 0.004300415 0.000614345 0.0005631495 0.0006655404
#> EGFR 0.129012440 0.018430349 0.0168944863 0.0199662110
#> KEAP1 0.086008294 0.012286899 0.0112629908 0.0133108074
#> KRAS 0.004300415 0.000614345 0.0005631495 0.0006655404
#> MGA 0.107510367 0.015358624 0.0140787385 0.0166385092
#> NF1 0.133312855 0.019044694 0.0174576358 0.0206317514
#> PIK3CA 0.004300415 0.000614345 0.0005631495 0.0006655404
#> PTPRD 0.060205806 0.008600829 0.0078840936 0.0093175651
#> PTPRT 0.051604976 0.007372139 0.0067577945 0.0079864844
#> RB1 0.081707879 0.011672554 0.0106998413 0.0126452670
#> RBM10 0.124712026 0.017816004 0.0163313367 0.0193006707
#> SETBP1 0.047304562 0.006757795 0.0061946450 0.0073209440
#> SETD2 0.090308708 0.012901244 0.0118261404 0.0139763477
#> SMAD4 0.030102903 0.004300415 0.0039420468 0.0046587826
#> SMARCA4 0.090308708 0.012901244 0.0118261404 0.0139763477
#> STK11 0.219321149 0.031331593 0.0287206266 0.0339425587
#> TP53 0.417140224 0.059591461 0.0546255056 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-50-5066-01 TCGA-50-5068-01 TCGA-50-5930-01 TCGA-50-5932-01
#> ARID1A 0.026724006 0.0082936569 0.130855475 0.011058209
#> ATM 0.026724006 0.0082936569 0.130855475 0.011058209
#> BRAF 0.005938668 0.0018430349 0.029078995 0.002457380
#> CDKN2A 0.010392669 0.0032253110 0.050888240 0.004300415
#> CMTR2 0.025239339 0.0078328982 0.123585727 0.010443864
#> CTNNB1 0.001484667 0.0004607587 0.007269749 0.000614345
#> EGFR 0.044540009 0.0138227615 0.218092459 0.018430349
#> KEAP1 0.029693339 0.0092151743 0.145394973 0.012286899
#> KRAS 0.001484667 0.0004607587 0.007269749 0.000614345
#> MGA 0.037116674 0.0115189679 0.181743716 0.015358624
#> NF1 0.046024676 0.0142835202 0.225362208 0.019044694
#> PIK3CA 0.001484667 0.0004607587 0.007269749 0.000614345
#> PTPRD 0.020785338 0.0064506220 0.101776481 0.008600829
#> PTPRT 0.017816004 0.0055291046 0.087236984 0.007372139
#> RB1 0.028208673 0.0087544156 0.138125224 0.011672554
#> RBM10 0.043055342 0.0133620028 0.210822710 0.017816004
#> SETBP1 0.016331337 0.0050683459 0.079967235 0.006757795
#> SETD2 0.031178006 0.0096759330 0.152664721 0.012901244
#> SMAD4 0.010392669 0.0032253110 0.050888240 0.004300415
#> SMARCA4 0.031178006 0.0096759330 0.152664721 0.012901244
#> STK11 0.075718016 0.0234986945 0.370757180 0.031331593
#> TP53 0.144012696 0.0446935955 0.705165617 0.059591461
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-50-5933-01 TCGA-50-5936-01 TCGA-50-5939-01 TCGA-50-5941-01
#> ARID1A 0.050683459 0.0101366918 0.0101366918 0.045154354
#> ATM 0.050683459 0.0101366918 0.0101366918 0.045154354
#> BRAF 0.011262991 0.0022525982 0.0022525982 0.010034301
#> CDKN2A 0.019710234 0.0039420468 0.0039420468 0.017560027
#> CMTR2 0.047867711 0.0095735422 0.0095735422 0.042645779
#> CTNNB1 0.002815748 0.0005631495 0.0005631495 0.002508575
#> EGFR 0.084472431 0.0168944863 0.0168944863 0.075257257
#> KEAP1 0.056314954 0.0112629908 0.0112629908 0.050171505
#> KRAS 0.002815748 0.0005631495 0.0005631495 0.002508575
#> MGA 0.070393693 0.0140787385 0.0140787385 0.062714381
#> NF1 0.087288179 0.0174576358 0.0174576358 0.077765832
#> PIK3CA 0.002815748 0.0005631495 0.0005631495 0.002508575
#> PTPRD 0.039420468 0.0078840936 0.0078840936 0.035120053
#> PTPRT 0.033788973 0.0067577945 0.0067577945 0.030102903
#> RB1 0.053499206 0.0106998413 0.0106998413 0.047662929
#> RBM10 0.081656684 0.0163313367 0.0163313367 0.072748682
#> SETBP1 0.030973225 0.0061946450 0.0061946450 0.027594328
#> SETD2 0.059130702 0.0118261404 0.0118261404 0.052680080
#> SMAD4 0.019710234 0.0039420468 0.0039420468 0.017560027
#> SMARCA4 0.059130702 0.0118261404 0.0118261404 0.052680080
#> STK11 0.143603133 0.0287206266 0.0287206266 0.127937337
#> TP53 0.273127528 0.0546255056 0.0546255056 0.243331797
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-50-5942-01 TCGA-50-5944-01 TCGA-50-5946-01 TCGA-50-6591-01
#> ARID1A 0.0092151743 0.0055291046 0.075564429 0.0082936569
#> ATM 0.0092151743 0.0055291046 0.075564429 0.0082936569
#> BRAF 0.0020478165 0.0012286899 0.016792095 0.0018430349
#> CDKN2A 0.0035836789 0.0021502073 0.029386167 0.0032253110
#> CMTR2 0.0087032202 0.0052219321 0.071366406 0.0078328982
#> CTNNB1 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> EGFR 0.0153586239 0.0092151743 0.125940716 0.0138227615
#> KEAP1 0.0102390826 0.0061434495 0.083960477 0.0092151743
#> KRAS 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> MGA 0.0127988532 0.0076793119 0.104950596 0.0115189679
#> NF1 0.0158705780 0.0095223468 0.130138740 0.0142835202
#> PIK3CA 0.0005119541 0.0003071725 0.004198024 0.0004607587
#> PTPRD 0.0071673578 0.0043004147 0.058772334 0.0064506220
#> PTPRT 0.0061434495 0.0036860697 0.050376286 0.0055291046
#> RB1 0.0097271284 0.0058362771 0.079762453 0.0087544156
#> RBM10 0.0148466697 0.0089080018 0.121742692 0.0133620028
#> SETBP1 0.0056314954 0.0033788973 0.046178262 0.0050683459
#> SETD2 0.0107510367 0.0064506220 0.088158501 0.0096759330
#> SMAD4 0.0035836789 0.0021502073 0.029386167 0.0032253110
#> SMARCA4 0.0107510367 0.0064506220 0.088158501 0.0096759330
#> STK11 0.0261096606 0.0156657963 0.214099217 0.0234986945
#> TP53 0.0496595505 0.0297957303 0.407208314 0.0446935955
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-50-6592-01 TCGA-50-6593-01 TCGA-50-6594-01 TCGA-50-6595-01
#> ARID1A 0.035017662 0.034096145 0.081093534 0.0092151743
#> ATM 0.035017662 0.034096145 0.081093534 0.0092151743
#> BRAF 0.007781703 0.007576921 0.018020785 0.0020478165
#> CDKN2A 0.013617980 0.013259612 0.031536374 0.0035836789
#> CMTR2 0.033072237 0.032201915 0.076588338 0.0087032202
#> CTNNB1 0.001945426 0.001894230 0.004505196 0.0005119541
#> EGFR 0.058362771 0.056826908 0.135155890 0.0153586239
#> KEAP1 0.038908514 0.037884606 0.090103927 0.0102390826
#> KRAS 0.001945426 0.001894230 0.004505196 0.0005119541
#> MGA 0.048635642 0.047355757 0.112629908 0.0127988532
#> NF1 0.060308196 0.058721139 0.139661086 0.0158705780
#> PIK3CA 0.001945426 0.001894230 0.004505196 0.0005119541
#> PTPRD 0.027235960 0.026519224 0.063072749 0.0071673578
#> PTPRT 0.023345108 0.022730763 0.054062356 0.0061434495
#> RB1 0.036963088 0.035990375 0.085598730 0.0097271284
#> RBM10 0.056417345 0.054932678 0.130650694 0.0148466697
#> SETBP1 0.021399683 0.020836533 0.049557160 0.0056314954
#> SETD2 0.040853939 0.039778836 0.094609123 0.0107510367
#> SMAD4 0.013617980 0.013259612 0.031536374 0.0035836789
#> SMARCA4 0.040853939 0.039778836 0.094609123 0.0107510367
#> STK11 0.099216710 0.096605744 0.229765013 0.0261096606
#> TP53 0.188706292 0.183740337 0.437004044 0.0496595505
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-50-6673-01 TCGA-50-7109-01 TCGA-50-8459-01 TCGA-50-8460-01
#> ARID1A 0.0138227615 0.027645523 0.0101366918 0.0036860697
#> ATM 0.0138227615 0.027645523 0.0101366918 0.0036860697
#> BRAF 0.0030717248 0.006143450 0.0022525982 0.0008191266
#> CDKN2A 0.0053755184 0.010751037 0.0039420468 0.0014334716
#> CMTR2 0.0130548303 0.026109661 0.0095735422 0.0034812881
#> CTNNB1 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> EGFR 0.0230379358 0.046075872 0.0168944863 0.0061434495
#> KEAP1 0.0153586239 0.030717248 0.0112629908 0.0040956330
#> KRAS 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> MGA 0.0191982798 0.038396560 0.0140787385 0.0051195413
#> NF1 0.0238058670 0.047611734 0.0174576358 0.0063482312
#> PIK3CA 0.0007679312 0.001535862 0.0005631495 0.0002047817
#> PTPRD 0.0107510367 0.021502073 0.0078840936 0.0028669431
#> PTPRT 0.0092151743 0.018430349 0.0067577945 0.0024573798
#> RB1 0.0145906927 0.029181385 0.0106998413 0.0038908514
#> RBM10 0.0222700046 0.044540009 0.0163313367 0.0059386679
#> SETBP1 0.0084472431 0.016894486 0.0061946450 0.0022525982
#> SETD2 0.0161265551 0.032253110 0.0118261404 0.0043004147
#> SMAD4 0.0053755184 0.010751037 0.0039420468 0.0014334716
#> SMARCA4 0.0161265551 0.032253110 0.0118261404 0.0043004147
#> STK11 0.0391644909 0.078328982 0.0287206266 0.0104438642
#> TP53 0.0744893258 0.148978652 0.0546255056 0.0198638202
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-53-7626-01 TCGA-53-7813-01 TCGA-53-A4EZ-01 TCGA-55-1592-01
#> ARID1A 0.155736446 0.028567040 0.054369528 0.041468284
#> ATM 0.155736446 0.028567040 0.054369528 0.041468284
#> BRAF 0.034608099 0.006348231 0.012082117 0.009215174
#> CDKN2A 0.060564173 0.011109405 0.021143706 0.016126555
#> CMTR2 0.147084421 0.026979983 0.051348999 0.039164491
#> CTNNB1 0.008652025 0.001587058 0.003020529 0.002303794
#> EGFR 0.259560743 0.047611734 0.090615881 0.069113807
#> KEAP1 0.173040496 0.031741156 0.060410587 0.046075872
#> KRAS 0.008652025 0.001587058 0.003020529 0.002303794
#> MGA 0.216300619 0.039676445 0.075513234 0.057594840
#> NF1 0.268212768 0.049198792 0.093636410 0.071417601
#> PIK3CA 0.008652025 0.001587058 0.003020529 0.002303794
#> PTPRD 0.121128347 0.022218809 0.042287411 0.032253110
#> PTPRT 0.103824297 0.019044694 0.036246352 0.027645523
#> RB1 0.164388471 0.030154098 0.057390058 0.043772078
#> RBM10 0.250908719 0.046024676 0.087595351 0.066810014
#> SETBP1 0.095172273 0.017457636 0.033225823 0.025341729
#> SETD2 0.181692520 0.033328214 0.063431117 0.048379665
#> SMAD4 0.060564173 0.011109405 0.021143706 0.016126555
#> SMARCA4 0.181692520 0.033328214 0.063431117 0.048379665
#> STK11 0.441253264 0.080939948 0.154046997 0.117493473
#> TP53 0.839246404 0.153944607 0.292991348 0.223467977
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-1595-01 TCGA-55-1596-01 TCGA-55-6642-01 TCGA-55-6968-01
#> ARID1A 0.038703732 0.021194901 0.019351866 0.052526494
#> ATM 0.038703732 0.021194901 0.019351866 0.052526494
#> BRAF 0.008600829 0.004709978 0.004300415 0.011672554
#> CDKN2A 0.015051451 0.008242461 0.007525726 0.020426970
#> CMTR2 0.036553525 0.020017406 0.018276762 0.049608355
#> CTNNB1 0.002150207 0.001177494 0.001075104 0.002918139
#> EGFR 0.064506220 0.035324835 0.032253110 0.087544156
#> KEAP1 0.043004147 0.023549890 0.021502073 0.058362771
#> KRAS 0.002150207 0.001177494 0.001075104 0.002918139
#> MGA 0.053755184 0.029437362 0.026877592 0.072953463
#> NF1 0.066656428 0.036502329 0.033328214 0.090462295
#> PIK3CA 0.002150207 0.001177494 0.001075104 0.002918139
#> PTPRD 0.030102903 0.016484923 0.015051451 0.040853939
#> PTPRT 0.025802488 0.014129934 0.012901244 0.035017662
#> RB1 0.040853939 0.022372395 0.020426970 0.055444632
#> RBM10 0.062356013 0.034147340 0.031178006 0.084626018
#> SETBP1 0.023652281 0.012952439 0.011826140 0.032099524
#> SETD2 0.045154354 0.024727384 0.022577177 0.061280909
#> SMAD4 0.015051451 0.008242461 0.007525726 0.020426970
#> SMARCA4 0.045154354 0.024727384 0.022577177 0.061280909
#> STK11 0.109660574 0.060052219 0.054830287 0.148825065
#> TP53 0.208570112 0.114216966 0.104285056 0.283059438
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-6969-01 TCGA-55-6970-01 TCGA-55-6975-01 TCGA-55-6979-01
#> ARID1A 0.051604976 0.028567040 0.0129012440 0.048840424
#> ATM 0.051604976 0.028567040 0.0129012440 0.048840424
#> BRAF 0.011467772 0.006348231 0.0028669431 0.010853428
#> CDKN2A 0.020068602 0.011109405 0.0050171505 0.018993498
#> CMTR2 0.048738033 0.026979983 0.0121845083 0.046127067
#> CTNNB1 0.002866943 0.001587058 0.0007167358 0.002713357
#> EGFR 0.086008294 0.047611734 0.0215020734 0.081400706
#> KEAP1 0.057338862 0.031741156 0.0143347156 0.054267138
#> KRAS 0.002866943 0.001587058 0.0007167358 0.002713357
#> MGA 0.071673578 0.039676445 0.0179183945 0.067833922
#> NF1 0.088875237 0.049198792 0.0222188092 0.084114063
#> PIK3CA 0.002866943 0.001587058 0.0007167358 0.002713357
#> PTPRD 0.040137204 0.022218809 0.0100343009 0.037986996
#> PTPRT 0.034403317 0.019044694 0.0086008294 0.032560283
#> RB1 0.054471919 0.030154098 0.0136179798 0.051553781
#> RBM10 0.083141351 0.046024676 0.0207853376 0.078687350
#> SETBP1 0.031536374 0.017457636 0.0078840936 0.029846926
#> SETD2 0.060205806 0.033328214 0.0150514514 0.056980495
#> SMAD4 0.020068602 0.011109405 0.0050171505 0.018993498
#> SMARCA4 0.060205806 0.033328214 0.0150514514 0.056980495
#> STK11 0.146214099 0.080939948 0.0365535248 0.138381201
#> TP53 0.278093483 0.153944607 0.0695233707 0.263195618
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-55-6981-01 TCGA-55-6983-01 TCGA-55-6984-01 TCGA-55-7281-01
#> ARID1A 0.0165873138 0.0147442789 0.0055291046 0.054369528
#> ATM 0.0165873138 0.0147442789 0.0055291046 0.054369528
#> BRAF 0.0036860697 0.0032765064 0.0012286899 0.012082117
#> CDKN2A 0.0064506220 0.0057338862 0.0021502073 0.021143706
#> CMTR2 0.0156657963 0.0139251523 0.0052219321 0.051348999
#> CTNNB1 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> EGFR 0.0276455230 0.0245737982 0.0092151743 0.090615881
#> KEAP1 0.0184303486 0.0163825321 0.0061434495 0.060410587
#> KRAS 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> MGA 0.0230379358 0.0204781652 0.0076793119 0.075513234
#> NF1 0.0285670404 0.0253929248 0.0095223468 0.093636410
#> PIK3CA 0.0009215174 0.0008191266 0.0003071725 0.003020529
#> PTPRD 0.0129012440 0.0114677725 0.0043004147 0.042287411
#> PTPRT 0.0110582092 0.0098295193 0.0036860697 0.036246352
#> RB1 0.0175088312 0.0155634055 0.0058362771 0.057390058
#> RBM10 0.0267240055 0.0237546716 0.0089080018 0.087595351
#> SETBP1 0.0101366918 0.0090103927 0.0033788973 0.033225823
#> SETD2 0.0193518661 0.0172016587 0.0064506220 0.063431117
#> SMAD4 0.0064506220 0.0057338862 0.0021502073 0.021143706
#> SMARCA4 0.0193518661 0.0172016587 0.0064506220 0.063431117
#> STK11 0.0469973890 0.0417754569 0.0156657963 0.154046997
#> TP53 0.0893871909 0.0794552808 0.0297957303 0.292991348
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-55-7283-01 TCGA-55-7284-01 TCGA-55-7570-01 TCGA-55-7573-01
#> ARID1A 0.026724006 0.0036860697 0.044232837 0.0082936569
#> ATM 0.026724006 0.0036860697 0.044232837 0.0082936569
#> BRAF 0.005938668 0.0008191266 0.009829519 0.0018430349
#> CDKN2A 0.010392669 0.0014334716 0.017201659 0.0032253110
#> CMTR2 0.025239339 0.0034812881 0.041775457 0.0078328982
#> CTNNB1 0.001484667 0.0002047817 0.002457380 0.0004607587
#> EGFR 0.044540009 0.0061434495 0.073721395 0.0138227615
#> KEAP1 0.029693339 0.0040956330 0.049147596 0.0092151743
#> KRAS 0.001484667 0.0002047817 0.002457380 0.0004607587
#> MGA 0.037116674 0.0051195413 0.061434495 0.0115189679
#> NF1 0.046024676 0.0063482312 0.076178774 0.0142835202
#> PIK3CA 0.001484667 0.0002047817 0.002457380 0.0004607587
#> PTPRD 0.020785338 0.0028669431 0.034403317 0.0064506220
#> PTPRT 0.017816004 0.0024573798 0.029488558 0.0055291046
#> RB1 0.028208673 0.0038908514 0.046690217 0.0087544156
#> RBM10 0.043055342 0.0059386679 0.071264015 0.0133620028
#> SETBP1 0.016331337 0.0022525982 0.027031178 0.0050683459
#> SETD2 0.031178006 0.0043004147 0.051604976 0.0096759330
#> SMAD4 0.010392669 0.0014334716 0.017201659 0.0032253110
#> SMARCA4 0.031178006 0.0043004147 0.051604976 0.0096759330
#> STK11 0.075718016 0.0104438642 0.125326371 0.0234986945
#> TP53 0.144012696 0.0198638202 0.238365842 0.0446935955
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-55-7576-01 TCGA-55-7724-01 TCGA-55-7725-01 TCGA-55-7726-01
#> ARID1A 0.037782215 0.026724006 0.020273384 0.015665796
#> ATM 0.037782215 0.026724006 0.020273384 0.015665796
#> BRAF 0.008396048 0.005938668 0.004505196 0.003481288
#> CDKN2A 0.014693083 0.010392669 0.007884094 0.006092254
#> CMTR2 0.035683203 0.025239339 0.019147084 0.014795474
#> CTNNB1 0.002099012 0.001484667 0.001126299 0.000870322
#> EGFR 0.062970358 0.044540009 0.033788973 0.026109661
#> KEAP1 0.041980239 0.029693339 0.022525982 0.017406440
#> KRAS 0.002099012 0.001484667 0.001126299 0.000870322
#> MGA 0.052475298 0.037116674 0.028157477 0.021758050
#> NF1 0.065069370 0.046024676 0.034915272 0.026979983
#> PIK3CA 0.002099012 0.001484667 0.001126299 0.000870322
#> PTPRD 0.029386167 0.020785338 0.015768187 0.012184508
#> PTPRT 0.025188143 0.017816004 0.013515589 0.010443864
#> RB1 0.039881227 0.028208673 0.021399683 0.016536118
#> RBM10 0.060871346 0.043055342 0.032662673 0.025239339
#> SETBP1 0.023089131 0.016331337 0.012389290 0.009573542
#> SETD2 0.044079250 0.031178006 0.023652281 0.018276762
#> SMAD4 0.014693083 0.010392669 0.007884094 0.006092254
#> SMARCA4 0.044079250 0.031178006 0.023652281 0.018276762
#> STK11 0.107049608 0.075718016 0.057441253 0.044386423
#> TP53 0.203604157 0.144012696 0.109251011 0.084421236
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-7727-01 TCGA-55-7728-01 TCGA-55-7815-01 TCGA-55-7903-01
#> ARID1A 0.021194901 0.011058209 0.0101366918 0.0175088312
#> ATM 0.021194901 0.011058209 0.0101366918 0.0175088312
#> BRAF 0.004709978 0.002457380 0.0022525982 0.0038908514
#> CDKN2A 0.008242461 0.004300415 0.0039420468 0.0068089899
#> CMTR2 0.020017406 0.010443864 0.0095735422 0.0165361184
#> CTNNB1 0.001177494 0.000614345 0.0005631495 0.0009727128
#> EGFR 0.035324835 0.018430349 0.0168944863 0.0291813853
#> KEAP1 0.023549890 0.012286899 0.0112629908 0.0194542569
#> KRAS 0.001177494 0.000614345 0.0005631495 0.0009727128
#> MGA 0.029437362 0.015358624 0.0140787385 0.0243178211
#> NF1 0.036502329 0.019044694 0.0174576358 0.0301540982
#> PIK3CA 0.001177494 0.000614345 0.0005631495 0.0009727128
#> PTPRD 0.016484923 0.008600829 0.0078840936 0.0136179798
#> PTPRT 0.014129934 0.007372139 0.0067577945 0.0116725541
#> RB1 0.022372395 0.011672554 0.0106998413 0.0184815441
#> RBM10 0.034147340 0.017816004 0.0163313367 0.0282086725
#> SETBP1 0.012952439 0.006757795 0.0061946450 0.0106998413
#> SETD2 0.024727384 0.012901244 0.0118261404 0.0204269697
#> SMAD4 0.008242461 0.004300415 0.0039420468 0.0068089899
#> SMARCA4 0.024727384 0.012901244 0.0118261404 0.0204269697
#> STK11 0.060052219 0.031331593 0.0287206266 0.0496083551
#> TP53 0.114216966 0.059591461 0.0546255056 0.0943531460
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-55-7907-01 TCGA-55-7910-01 TCGA-55-7911-01 TCGA-55-7913-01
#> ARID1A 0.136384580 0.033174628 0.023959453 0.029488558
#> ATM 0.136384580 0.033174628 0.023959453 0.029488558
#> BRAF 0.030307684 0.007372139 0.005324323 0.006553013
#> CDKN2A 0.053038448 0.012901244 0.009317565 0.011467772
#> CMTR2 0.128807659 0.031331593 0.022628372 0.027850305
#> CTNNB1 0.007576921 0.001843035 0.001331081 0.001638253
#> EGFR 0.227307633 0.055291046 0.039932422 0.049147596
#> KEAP1 0.151538422 0.036860697 0.026621615 0.032765064
#> KRAS 0.007576921 0.001843035 0.001331081 0.001638253
#> MGA 0.189423028 0.046075872 0.033277018 0.040956330
#> NF1 0.234884554 0.057134081 0.041263503 0.050785850
#> PIK3CA 0.007576921 0.001843035 0.001331081 0.001638253
#> PTPRD 0.106076896 0.025802488 0.018635130 0.022935545
#> PTPRT 0.090923053 0.022116418 0.015972969 0.019659039
#> RB1 0.143961501 0.035017662 0.025290534 0.031126811
#> RBM10 0.219730712 0.053448011 0.038601341 0.047509343
#> SETBP1 0.083346132 0.020273384 0.014641888 0.018020785
#> SETD2 0.159115343 0.038703732 0.027952695 0.034403317
#> SMAD4 0.053038448 0.012901244 0.009317565 0.011467772
#> SMARCA4 0.159115343 0.038703732 0.027952695 0.034403317
#> STK11 0.386422977 0.093994778 0.067885117 0.083550914
#> TP53 0.734961347 0.178774382 0.129114831 0.158910562
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-7914-01 TCGA-55-7994-01 TCGA-55-7995-01 TCGA-55-8085-01
#> ARID1A 0.015665796 0.18246045 0.05621256 0.027645523
#> ATM 0.015665796 0.18246045 0.05621256 0.027645523
#> BRAF 0.003481288 0.04054677 0.01249168 0.006143450
#> CDKN2A 0.006092254 0.07095684 0.02186044 0.010751037
#> CMTR2 0.014795474 0.17232376 0.05308964 0.026109661
#> CTNNB1 0.000870322 0.01013669 0.00312292 0.001535862
#> EGFR 0.026109661 0.30410075 0.09368761 0.046075872
#> KEAP1 0.017406440 0.20273384 0.06245840 0.030717248
#> KRAS 0.000870322 0.01013669 0.00312292 0.001535862
#> MGA 0.021758050 0.25341729 0.07807300 0.038396560
#> NF1 0.026979983 0.31423744 0.09681053 0.047611734
#> PIK3CA 0.000870322 0.01013669 0.00312292 0.001535862
#> PTPRD 0.012184508 0.14191368 0.04372088 0.021502073
#> PTPRT 0.010443864 0.12164030 0.03747504 0.018430349
#> RB1 0.016536118 0.19259714 0.05933548 0.029181385
#> RBM10 0.025239339 0.29396406 0.09056469 0.044540009
#> SETBP1 0.009573542 0.11150361 0.03435212 0.016894486
#> SETD2 0.018276762 0.21287053 0.06558132 0.032253110
#> SMAD4 0.006092254 0.07095684 0.02186044 0.010751037
#> SMARCA4 0.018276762 0.21287053 0.06558132 0.032253110
#> STK11 0.044386423 0.51697128 0.15926893 0.078328982
#> TP53 0.084421236 0.98325910 0.30292326 0.148978652
#> U2AF1 0.000000000 0.00000000 0.00000000 0.000000000
#> TCGA-55-8089-01 TCGA-55-8090-01 TCGA-55-8092-01 TCGA-55-8094-01
#> ARID1A 0.111503609 0.0101366918 0.052526494 0.051604976
#> ATM 0.111503609 0.0101366918 0.052526494 0.051604976
#> BRAF 0.024778580 0.0022525982 0.011672554 0.011467772
#> CDKN2A 0.043362515 0.0039420468 0.020426970 0.020068602
#> CMTR2 0.105308964 0.0095735422 0.049608355 0.048738033
#> CTNNB1 0.006194645 0.0005631495 0.002918139 0.002866943
#> EGFR 0.185839349 0.0168944863 0.087544156 0.086008294
#> KEAP1 0.123892899 0.0112629908 0.058362771 0.057338862
#> KRAS 0.006194645 0.0005631495 0.002918139 0.002866943
#> MGA 0.154866124 0.0140787385 0.072953463 0.071673578
#> NF1 0.192033994 0.0174576358 0.090462295 0.088875237
#> PIK3CA 0.006194645 0.0005631495 0.002918139 0.002866943
#> PTPRD 0.086725029 0.0078840936 0.040853939 0.040137204
#> PTPRT 0.074335740 0.0067577945 0.035017662 0.034403317
#> RB1 0.117698254 0.0106998413 0.055444632 0.054471919
#> RBM10 0.179644704 0.0163313367 0.084626018 0.083141351
#> SETBP1 0.068141095 0.0061946450 0.032099524 0.031536374
#> SETD2 0.130087544 0.0118261404 0.061280909 0.060205806
#> SMAD4 0.043362515 0.0039420468 0.020426970 0.020068602
#> SMARCA4 0.130087544 0.0118261404 0.061280909 0.060205806
#> STK11 0.315926893 0.0287206266 0.148825065 0.146214099
#> TP53 0.600880561 0.0546255056 0.283059438 0.278093483
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-8096-01 TCGA-55-8097-01 TCGA-55-8203-01 TCGA-55-8205-01
#> ARID1A 0.0165873138 0.0101366918 0.035017662 0.06634926
#> ATM 0.0165873138 0.0101366918 0.035017662 0.06634926
#> BRAF 0.0036860697 0.0022525982 0.007781703 0.01474428
#> CDKN2A 0.0064506220 0.0039420468 0.013617980 0.02580249
#> CMTR2 0.0156657963 0.0095735422 0.033072237 0.06266319
#> CTNNB1 0.0009215174 0.0005631495 0.001945426 0.00368607
#> EGFR 0.0276455230 0.0168944863 0.058362771 0.11058209
#> KEAP1 0.0184303486 0.0112629908 0.038908514 0.07372139
#> KRAS 0.0009215174 0.0005631495 0.001945426 0.00368607
#> MGA 0.0230379358 0.0140787385 0.048635642 0.09215174
#> NF1 0.0285670404 0.0174576358 0.060308196 0.11426816
#> PIK3CA 0.0009215174 0.0005631495 0.001945426 0.00368607
#> PTPRD 0.0129012440 0.0078840936 0.027235960 0.05160498
#> PTPRT 0.0110582092 0.0067577945 0.023345108 0.04423284
#> RB1 0.0175088312 0.0106998413 0.036963088 0.07003532
#> RBM10 0.0267240055 0.0163313367 0.056417345 0.10689602
#> SETBP1 0.0101366918 0.0061946450 0.021399683 0.04054677
#> SETD2 0.0193518661 0.0118261404 0.040853939 0.07740746
#> SMAD4 0.0064506220 0.0039420468 0.013617980 0.02580249
#> SMARCA4 0.0193518661 0.0118261404 0.040853939 0.07740746
#> STK11 0.0469973890 0.0287206266 0.099216710 0.18798956
#> TP53 0.0893871909 0.0546255056 0.188706292 0.35754876
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.00000000
#> TCGA-55-8207-01 TCGA-55-8208-01 TCGA-55-8299-01 TCGA-55-8301-01
#> ARID1A 0.031331593 0.031331593 0.018430349 0.038703732
#> ATM 0.031331593 0.031331593 0.018430349 0.038703732
#> BRAF 0.006962576 0.006962576 0.004095633 0.008600829
#> CDKN2A 0.012184508 0.012184508 0.007167358 0.015051451
#> CMTR2 0.029590949 0.029590949 0.017406440 0.036553525
#> CTNNB1 0.001740644 0.001740644 0.001023908 0.002150207
#> EGFR 0.052219321 0.052219321 0.030717248 0.064506220
#> KEAP1 0.034812881 0.034812881 0.020478165 0.043004147
#> KRAS 0.001740644 0.001740644 0.001023908 0.002150207
#> MGA 0.043516101 0.043516101 0.025597706 0.053755184
#> NF1 0.053959965 0.053959965 0.031741156 0.066656428
#> PIK3CA 0.001740644 0.001740644 0.001023908 0.002150207
#> PTPRD 0.024369017 0.024369017 0.014334716 0.030102903
#> PTPRT 0.020887728 0.020887728 0.012286899 0.025802488
#> RB1 0.033072237 0.033072237 0.019454257 0.040853939
#> RBM10 0.050478677 0.050478677 0.029693339 0.062356013
#> SETBP1 0.019147084 0.019147084 0.011262991 0.023652281
#> SETD2 0.036553525 0.036553525 0.021502073 0.045154354
#> SMAD4 0.012184508 0.012184508 0.007167358 0.015051451
#> SMARCA4 0.036553525 0.036553525 0.021502073 0.045154354
#> STK11 0.088772846 0.088772846 0.052219321 0.109660574
#> TP53 0.168842472 0.168842472 0.099319101 0.208570112
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-8302-01 TCGA-55-8505-01 TCGA-55-8506-01 TCGA-55-8508-01
#> ARID1A 0.081093534 0.0027645523 0.26908309 0.025802488
#> ATM 0.081093534 0.0027645523 0.26908309 0.025802488
#> BRAF 0.018020785 0.0006143450 0.05979624 0.005733886
#> CDKN2A 0.031536374 0.0010751037 0.10464342 0.010034301
#> CMTR2 0.076588338 0.0026109661 0.25413403 0.024369017
#> CTNNB1 0.004505196 0.0001535862 0.01494906 0.001433472
#> EGFR 0.135155890 0.0046075872 0.44847182 0.043004147
#> KEAP1 0.090103927 0.0030717248 0.29898121 0.028669431
#> KRAS 0.004505196 0.0001535862 0.01494906 0.001433472
#> MGA 0.112629908 0.0038396560 0.37372651 0.035836789
#> NF1 0.139661086 0.0047611734 0.46342088 0.044437618
#> PIK3CA 0.004505196 0.0001535862 0.01494906 0.001433472
#> PTPRD 0.063072749 0.0021502073 0.20928685 0.020068602
#> PTPRT 0.054062356 0.0018430349 0.17938873 0.017201659
#> RB1 0.085598730 0.0029181385 0.28403215 0.027235960
#> RBM10 0.130650694 0.0044540009 0.43352276 0.041570675
#> SETBP1 0.049557160 0.0016894486 0.16443967 0.015768187
#> SETD2 0.094609123 0.0032253110 0.31393027 0.030102903
#> SMAD4 0.031536374 0.0010751037 0.10464342 0.010034301
#> SMARCA4 0.094609123 0.0032253110 0.31393027 0.030102903
#> STK11 0.229765013 0.0078328982 0.76240209 0.073107050
#> TP53 0.437004044 0.0148978652 1.00000000 0.139046741
#> U2AF1 0.000000000 0.0000000000 0.00000000 0.000000000
#> TCGA-55-8511-01 TCGA-55-8512-01 TCGA-55-8514-01 TCGA-55-8614-01
#> ARID1A 0.068192290 0.0027645523 0.036860697 0.023959453
#> ATM 0.068192290 0.0027645523 0.036860697 0.023959453
#> BRAF 0.015153842 0.0006143450 0.008191266 0.005324323
#> CDKN2A 0.026519224 0.0010751037 0.014334716 0.009317565
#> CMTR2 0.064403829 0.0026109661 0.034812881 0.022628372
#> CTNNB1 0.003788461 0.0001535862 0.002047817 0.001331081
#> EGFR 0.113653817 0.0046075872 0.061434495 0.039932422
#> KEAP1 0.075769211 0.0030717248 0.040956330 0.026621615
#> KRAS 0.003788461 0.0001535862 0.002047817 0.001331081
#> MGA 0.094711514 0.0038396560 0.051195413 0.033277018
#> NF1 0.117442277 0.0047611734 0.063482312 0.041263503
#> PIK3CA 0.003788461 0.0001535862 0.002047817 0.001331081
#> PTPRD 0.053038448 0.0021502073 0.028669431 0.018635130
#> PTPRT 0.045461527 0.0018430349 0.024573798 0.015972969
#> RB1 0.071980751 0.0029181385 0.038908514 0.025290534
#> RBM10 0.109865356 0.0044540009 0.059386679 0.038601341
#> SETBP1 0.041673066 0.0016894486 0.022525982 0.014641888
#> SETD2 0.079557672 0.0032253110 0.043004147 0.027952695
#> SMAD4 0.026519224 0.0010751037 0.014334716 0.009317565
#> SMARCA4 0.079557672 0.0032253110 0.043004147 0.027952695
#> STK11 0.193211488 0.0078328982 0.104438642 0.067885117
#> TP53 0.367480674 0.0148978652 0.198638202 0.129114831
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-8615-01 TCGA-55-8616-01 TCGA-55-8620-01 TCGA-55-A48X-01
#> ARID1A 0.011058209 0.05621256 0.068192290 0.043311319
#> ATM 0.011058209 0.05621256 0.068192290 0.043311319
#> BRAF 0.002457380 0.01249168 0.015153842 0.009624738
#> CDKN2A 0.004300415 0.02186044 0.026519224 0.016843291
#> CMTR2 0.010443864 0.05308964 0.064403829 0.040905135
#> CTNNB1 0.000614345 0.00312292 0.003788461 0.002406184
#> EGFR 0.018430349 0.09368761 0.113653817 0.072185532
#> KEAP1 0.012286899 0.06245840 0.075769211 0.048123688
#> KRAS 0.000614345 0.00312292 0.003788461 0.002406184
#> MGA 0.015358624 0.07807300 0.094711514 0.060154610
#> NF1 0.019044694 0.09681053 0.117442277 0.074591717
#> PIK3CA 0.000614345 0.00312292 0.003788461 0.002406184
#> PTPRD 0.008600829 0.04372088 0.053038448 0.033686582
#> PTPRT 0.007372139 0.03747504 0.045461527 0.028874213
#> RB1 0.011672554 0.05933548 0.071980751 0.045717504
#> RBM10 0.017816004 0.09056469 0.109865356 0.069779348
#> SETBP1 0.006757795 0.03435212 0.041673066 0.026468028
#> SETD2 0.012901244 0.06558132 0.079557672 0.050529873
#> SMAD4 0.004300415 0.02186044 0.026519224 0.016843291
#> SMARCA4 0.012901244 0.06558132 0.079557672 0.050529873
#> STK11 0.031331593 0.15926893 0.193211488 0.122715405
#> TP53 0.059591461 0.30292326 0.367480674 0.233399887
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-55-A48Y-01 TCGA-55-A48Z-01 TCGA-55-A490-01 TCGA-55-A491-01
#> ARID1A 0.031331593 0.0064506220 0.157579481 0.039625250
#> ATM 0.031331593 0.0064506220 0.157579481 0.039625250
#> BRAF 0.006962576 0.0014334716 0.035017662 0.008805611
#> CDKN2A 0.012184508 0.0025085752 0.061280909 0.015409819
#> CMTR2 0.029590949 0.0060922541 0.148825065 0.037423847
#> CTNNB1 0.001740644 0.0003583679 0.008754416 0.002201403
#> EGFR 0.052219321 0.0107510367 0.262632468 0.066042083
#> KEAP1 0.034812881 0.0071673578 0.175088312 0.044028055
#> KRAS 0.001740644 0.0003583679 0.008754416 0.002201403
#> MGA 0.043516101 0.0089591973 0.218860390 0.055035069
#> NF1 0.053959965 0.0111094046 0.271386884 0.068243485
#> PIK3CA 0.001740644 0.0003583679 0.008754416 0.002201403
#> PTPRD 0.024369017 0.0050171505 0.122561818 0.030819639
#> PTPRT 0.020887728 0.0043004147 0.105052987 0.026416833
#> RB1 0.033072237 0.0068089899 0.166333896 0.041826652
#> RBM10 0.050478677 0.0103926688 0.253878053 0.063840680
#> SETBP1 0.019147084 0.0039420468 0.096298572 0.024215430
#> SETD2 0.036553525 0.0075257257 0.183842728 0.046229458
#> SMAD4 0.012184508 0.0025085752 0.061280909 0.015409819
#> SMARCA4 0.036553525 0.0075257257 0.183842728 0.046229458
#> STK11 0.088772846 0.0182767624 0.446475196 0.112271540
#> TP53 0.168842472 0.0347616854 0.849178314 0.213536067
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-55-A492-01 TCGA-55-A493-01 TCGA-55-A494-01 TCGA-55-A4DG-01
#> ARID1A 0.035017662 0.026724006 0.023959453 0.082015051
#> ATM 0.035017662 0.026724006 0.023959453 0.082015051
#> BRAF 0.007781703 0.005938668 0.005324323 0.018225567
#> CDKN2A 0.013617980 0.010392669 0.009317565 0.031894742
#> CMTR2 0.033072237 0.025239339 0.022628372 0.077458660
#> CTNNB1 0.001945426 0.001484667 0.001331081 0.004556392
#> EGFR 0.058362771 0.044540009 0.039932422 0.136691752
#> KEAP1 0.038908514 0.029693339 0.026621615 0.091127835
#> KRAS 0.001945426 0.001484667 0.001331081 0.004556392
#> MGA 0.048635642 0.037116674 0.033277018 0.113909794
#> NF1 0.060308196 0.046024676 0.041263503 0.141248144
#> PIK3CA 0.001945426 0.001484667 0.001331081 0.004556392
#> PTPRD 0.027235960 0.020785338 0.018635130 0.063789484
#> PTPRT 0.023345108 0.017816004 0.015972969 0.054676701
#> RB1 0.036963088 0.028208673 0.025290534 0.086571443
#> RBM10 0.056417345 0.043055342 0.038601341 0.132135361
#> SETBP1 0.021399683 0.016331337 0.014641888 0.050120309
#> SETD2 0.040853939 0.031178006 0.027952695 0.095684227
#> SMAD4 0.013617980 0.010392669 0.009317565 0.031894742
#> SMARCA4 0.040853939 0.031178006 0.027952695 0.095684227
#> STK11 0.099216710 0.075718016 0.067885117 0.232375979
#> TP53 0.188706292 0.144012696 0.129114831 0.441969999
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-A57B-01 TCGA-62-8394-01 TCGA-62-8395-01 TCGA-62-8398-01
#> ARID1A 0.0046075872 0.0101366918 0.0119797266 0.0073721395
#> ATM 0.0046075872 0.0101366918 0.0119797266 0.0073721395
#> BRAF 0.0010239083 0.0022525982 0.0026621615 0.0016382532
#> CDKN2A 0.0017918395 0.0039420468 0.0046587826 0.0028669431
#> CMTR2 0.0043516101 0.0095735422 0.0113141862 0.0069625762
#> CTNNB1 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> EGFR 0.0076793119 0.0168944863 0.0199662110 0.0122868991
#> KEAP1 0.0051195413 0.0112629908 0.0133108074 0.0081912661
#> KRAS 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> MGA 0.0063994266 0.0140787385 0.0166385092 0.0102390826
#> NF1 0.0079352890 0.0174576358 0.0206317514 0.0126964624
#> PIK3CA 0.0002559771 0.0005631495 0.0006655404 0.0004095633
#> PTPRD 0.0035836789 0.0078840936 0.0093175651 0.0057338862
#> PTPRT 0.0030717248 0.0067577945 0.0079864844 0.0049147596
#> RB1 0.0048635642 0.0106998413 0.0126452670 0.0077817028
#> RBM10 0.0074233349 0.0163313367 0.0193006707 0.0118773358
#> SETBP1 0.0028157477 0.0061946450 0.0073209440 0.0045051963
#> SETD2 0.0053755184 0.0118261404 0.0139763477 0.0086008294
#> SMAD4 0.0017918395 0.0039420468 0.0046587826 0.0028669431
#> SMARCA4 0.0053755184 0.0118261404 0.0139763477 0.0086008294
#> STK11 0.0130548303 0.0287206266 0.0339425587 0.0208877285
#> TP53 0.0248297753 0.0546255056 0.0645574157 0.0397276404
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.0000000000
#> TCGA-62-8399-01 TCGA-62-8402-01 TCGA-62-A46R-01 TCGA-62-A46S-01
#> ARID1A 0.054369528 0.0036860697 0.026724006 0.0119797266
#> ATM 0.054369528 0.0036860697 0.026724006 0.0119797266
#> BRAF 0.012082117 0.0008191266 0.005938668 0.0026621615
#> CDKN2A 0.021143706 0.0014334716 0.010392669 0.0046587826
#> CMTR2 0.051348999 0.0034812881 0.025239339 0.0113141862
#> CTNNB1 0.003020529 0.0002047817 0.001484667 0.0006655404
#> EGFR 0.090615881 0.0061434495 0.044540009 0.0199662110
#> KEAP1 0.060410587 0.0040956330 0.029693339 0.0133108074
#> KRAS 0.003020529 0.0002047817 0.001484667 0.0006655404
#> MGA 0.075513234 0.0051195413 0.037116674 0.0166385092
#> NF1 0.093636410 0.0063482312 0.046024676 0.0206317514
#> PIK3CA 0.003020529 0.0002047817 0.001484667 0.0006655404
#> PTPRD 0.042287411 0.0028669431 0.020785338 0.0093175651
#> PTPRT 0.036246352 0.0024573798 0.017816004 0.0079864844
#> RB1 0.057390058 0.0038908514 0.028208673 0.0126452670
#> RBM10 0.087595351 0.0059386679 0.043055342 0.0193006707
#> SETBP1 0.033225823 0.0022525982 0.016331337 0.0073209440
#> SETD2 0.063431117 0.0043004147 0.031178006 0.0139763477
#> SMAD4 0.021143706 0.0014334716 0.010392669 0.0046587826
#> SMARCA4 0.063431117 0.0043004147 0.031178006 0.0139763477
#> STK11 0.154046997 0.0104438642 0.075718016 0.0339425587
#> TP53 0.292991348 0.0198638202 0.144012696 0.0645574157
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-62-A46U-01 TCGA-62-A46V-01 TCGA-62-A470-01 TCGA-62-A471-01
#> ARID1A 0.0027645523 0.0082936569 0.018430349 0.0064506220
#> ATM 0.0027645523 0.0082936569 0.018430349 0.0064506220
#> BRAF 0.0006143450 0.0018430349 0.004095633 0.0014334716
#> CDKN2A 0.0010751037 0.0032253110 0.007167358 0.0025085752
#> CMTR2 0.0026109661 0.0078328982 0.017406440 0.0060922541
#> CTNNB1 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> EGFR 0.0046075872 0.0138227615 0.030717248 0.0107510367
#> KEAP1 0.0030717248 0.0092151743 0.020478165 0.0071673578
#> KRAS 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> MGA 0.0038396560 0.0115189679 0.025597706 0.0089591973
#> NF1 0.0047611734 0.0142835202 0.031741156 0.0111094046
#> PIK3CA 0.0001535862 0.0004607587 0.001023908 0.0003583679
#> PTPRD 0.0021502073 0.0064506220 0.014334716 0.0050171505
#> PTPRT 0.0018430349 0.0055291046 0.012286899 0.0043004147
#> RB1 0.0029181385 0.0087544156 0.019454257 0.0068089899
#> RBM10 0.0044540009 0.0133620028 0.029693339 0.0103926688
#> SETBP1 0.0016894486 0.0050683459 0.011262991 0.0039420468
#> SETD2 0.0032253110 0.0096759330 0.021502073 0.0075257257
#> SMAD4 0.0010751037 0.0032253110 0.007167358 0.0025085752
#> SMARCA4 0.0032253110 0.0096759330 0.021502073 0.0075257257
#> STK11 0.0078328982 0.0234986945 0.052219321 0.0182767624
#> TP53 0.0148978652 0.0446935955 0.099319101 0.0347616854
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-62-A472-01 TCGA-64-1676-01 TCGA-64-1677-01 TCGA-64-1679-01
#> ARID1A 0.0092151743 0.059898633 0.0175088312 0.067270773
#> ATM 0.0092151743 0.059898633 0.0175088312 0.067270773
#> BRAF 0.0020478165 0.013310807 0.0038908514 0.014949061
#> CDKN2A 0.0035836789 0.023293913 0.0068089899 0.026160856
#> CMTR2 0.0087032202 0.056570931 0.0165361184 0.063533507
#> CTNNB1 0.0005119541 0.003327702 0.0009727128 0.003737265
#> EGFR 0.0153586239 0.099831055 0.0291813853 0.112117954
#> KEAP1 0.0102390826 0.066554037 0.0194542569 0.074745303
#> KRAS 0.0005119541 0.003327702 0.0009727128 0.003737265
#> MGA 0.0127988532 0.083192546 0.0243178211 0.093431629
#> NF1 0.0158705780 0.103158757 0.0301540982 0.115855219
#> PIK3CA 0.0005119541 0.003327702 0.0009727128 0.003737265
#> PTPRD 0.0071673578 0.046587826 0.0136179798 0.052321712
#> PTPRT 0.0061434495 0.039932422 0.0116725541 0.044847182
#> RB1 0.0097271284 0.063226335 0.0184815441 0.071008038
#> RBM10 0.0148466697 0.096503353 0.0282086725 0.108380689
#> SETBP1 0.0056314954 0.036604720 0.0106998413 0.041109917
#> SETD2 0.0107510367 0.069881739 0.0204269697 0.078482568
#> SMAD4 0.0035836789 0.023293913 0.0068089899 0.026160856
#> SMARCA4 0.0107510367 0.069881739 0.0204269697 0.078482568
#> STK11 0.0261096606 0.169712794 0.0496083551 0.190600522
#> TP53 0.0496595505 0.322787078 0.0943531460 0.362514719
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-64-1680-01 TCGA-64-1681-01 TCGA-64-5774-01 TCGA-64-5775-01
#> ARID1A 0.0082936569 0.0119797266 0.0138227615 0.065427738
#> ATM 0.0082936569 0.0119797266 0.0138227615 0.065427738
#> BRAF 0.0018430349 0.0026621615 0.0030717248 0.014539497
#> CDKN2A 0.0032253110 0.0046587826 0.0053755184 0.025444120
#> CMTR2 0.0078328982 0.0113141862 0.0130548303 0.061792863
#> CTNNB1 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> EGFR 0.0138227615 0.0199662110 0.0230379358 0.109046229
#> KEAP1 0.0092151743 0.0133108074 0.0153586239 0.072697486
#> KRAS 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> MGA 0.0115189679 0.0166385092 0.0191982798 0.090871858
#> NF1 0.0142835202 0.0206317514 0.0238058670 0.112681104
#> PIK3CA 0.0004607587 0.0006655404 0.0007679312 0.003634874
#> PTPRD 0.0064506220 0.0093175651 0.0107510367 0.050888240
#> PTPRT 0.0055291046 0.0079864844 0.0092151743 0.043618492
#> RB1 0.0087544156 0.0126452670 0.0145906927 0.069062612
#> RBM10 0.0133620028 0.0193006707 0.0222700046 0.105411355
#> SETBP1 0.0050683459 0.0073209440 0.0084472431 0.039983617
#> SETD2 0.0096759330 0.0139763477 0.0161265551 0.076332361
#> SMAD4 0.0032253110 0.0046587826 0.0053755184 0.025444120
#> SMARCA4 0.0096759330 0.0139763477 0.0161265551 0.076332361
#> STK11 0.0234986945 0.0339425587 0.0391644909 0.185378590
#> TP53 0.0446935955 0.0645574157 0.0744893258 0.352582809
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-64-5778-01 TCGA-64-5815-01 TCGA-67-3771-01 TCGA-67-3772-01
#> ARID1A 0.051604976 0.020273384 0.126247888 0.0092151743
#> ATM 0.051604976 0.020273384 0.126247888 0.0092151743
#> BRAF 0.011467772 0.004505196 0.028055086 0.0020478165
#> CDKN2A 0.020068602 0.007884094 0.049096401 0.0035836789
#> CMTR2 0.048738033 0.019147084 0.119234117 0.0087032202
#> CTNNB1 0.002866943 0.001126299 0.007013772 0.0005119541
#> EGFR 0.086008294 0.033788973 0.210413147 0.0153586239
#> KEAP1 0.057338862 0.022525982 0.140275431 0.0102390826
#> KRAS 0.002866943 0.001126299 0.007013772 0.0005119541
#> MGA 0.071673578 0.028157477 0.175344289 0.0127988532
#> NF1 0.088875237 0.034915272 0.217426919 0.0158705780
#> PIK3CA 0.002866943 0.001126299 0.007013772 0.0005119541
#> PTPRD 0.040137204 0.015768187 0.098192802 0.0071673578
#> PTPRT 0.034403317 0.013515589 0.084165259 0.0061434495
#> RB1 0.054471919 0.021399683 0.133261660 0.0097271284
#> RBM10 0.083141351 0.032662673 0.203399375 0.0148466697
#> SETBP1 0.031536374 0.012389290 0.077151487 0.0056314954
#> SETD2 0.060205806 0.023652281 0.147289203 0.0107510367
#> SMAD4 0.020068602 0.007884094 0.049096401 0.0035836789
#> SMARCA4 0.060205806 0.023652281 0.147289203 0.0107510367
#> STK11 0.146214099 0.057441253 0.357702350 0.0261096606
#> TP53 0.278093483 0.109251011 0.680335842 0.0496595505
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-67-3773-01 TCGA-67-3774-01 TCGA-67-4679-01 TCGA-67-6215-01
#> ARID1A 0.0119797266 0.0101366918 0.045154354 0.0046075872
#> ATM 0.0119797266 0.0101366918 0.045154354 0.0046075872
#> BRAF 0.0026621615 0.0022525982 0.010034301 0.0010239083
#> CDKN2A 0.0046587826 0.0039420468 0.017560027 0.0017918395
#> CMTR2 0.0113141862 0.0095735422 0.042645779 0.0043516101
#> CTNNB1 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> EGFR 0.0199662110 0.0168944863 0.075257257 0.0076793119
#> KEAP1 0.0133108074 0.0112629908 0.050171505 0.0051195413
#> KRAS 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> MGA 0.0166385092 0.0140787385 0.062714381 0.0063994266
#> NF1 0.0206317514 0.0174576358 0.077765832 0.0079352890
#> PIK3CA 0.0006655404 0.0005631495 0.002508575 0.0002559771
#> PTPRD 0.0093175651 0.0078840936 0.035120053 0.0035836789
#> PTPRT 0.0079864844 0.0067577945 0.030102903 0.0030717248
#> RB1 0.0126452670 0.0106998413 0.047662929 0.0048635642
#> RBM10 0.0193006707 0.0163313367 0.072748682 0.0074233349
#> SETBP1 0.0073209440 0.0061946450 0.027594328 0.0028157477
#> SETD2 0.0139763477 0.0118261404 0.052680080 0.0053755184
#> SMAD4 0.0046587826 0.0039420468 0.017560027 0.0017918395
#> SMARCA4 0.0139763477 0.0118261404 0.052680080 0.0053755184
#> STK11 0.0339425587 0.0287206266 0.127937337 0.0130548303
#> TP53 0.0645574157 0.0546255056 0.243331797 0.0248297753
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-67-6216-01 TCGA-67-6217-01 TCGA-69-7765-01 TCGA-69-7973-01
#> ARID1A 0.0101366918 0.021194901 0.062663185 0.033174628
#> ATM 0.0101366918 0.021194901 0.062663185 0.033174628
#> BRAF 0.0022525982 0.004709978 0.013925152 0.007372139
#> CDKN2A 0.0039420468 0.008242461 0.024369017 0.012901244
#> CMTR2 0.0095735422 0.020017406 0.059181897 0.031331593
#> CTNNB1 0.0005631495 0.001177494 0.003481288 0.001843035
#> EGFR 0.0168944863 0.035324835 0.104438642 0.055291046
#> KEAP1 0.0112629908 0.023549890 0.069625762 0.036860697
#> KRAS 0.0005631495 0.001177494 0.003481288 0.001843035
#> MGA 0.0140787385 0.029437362 0.087032202 0.046075872
#> NF1 0.0174576358 0.036502329 0.107919930 0.057134081
#> PIK3CA 0.0005631495 0.001177494 0.003481288 0.001843035
#> PTPRD 0.0078840936 0.016484923 0.048738033 0.025802488
#> PTPRT 0.0067577945 0.014129934 0.041775457 0.022116418
#> RB1 0.0106998413 0.022372395 0.066144473 0.035017662
#> RBM10 0.0163313367 0.034147340 0.100957354 0.053448011
#> SETBP1 0.0061946450 0.012952439 0.038294169 0.020273384
#> SETD2 0.0118261404 0.024727384 0.073107050 0.038703732
#> SMAD4 0.0039420468 0.008242461 0.024369017 0.012901244
#> SMARCA4 0.0118261404 0.024727384 0.073107050 0.038703732
#> STK11 0.0287206266 0.060052219 0.177545692 0.093994778
#> TP53 0.0546255056 0.114216966 0.337684943 0.178774382
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-69-7974-01 TCGA-69-7978-01 TCGA-69-7980-01 TCGA-69-8253-01
#> ARID1A 0.059898633 0.067270773 0.1004454 0.0119797266
#> ATM 0.059898633 0.067270773 0.1004454 0.0119797266
#> BRAF 0.013310807 0.014949061 0.0223212 0.0026621615
#> CDKN2A 0.023293913 0.026160856 0.0390621 0.0046587826
#> CMTR2 0.056570931 0.063533507 0.0948651 0.0113141862
#> CTNNB1 0.003327702 0.003737265 0.0055803 0.0006655404
#> EGFR 0.099831055 0.112117954 0.1674090 0.0199662110
#> KEAP1 0.066554037 0.074745303 0.1116060 0.0133108074
#> KRAS 0.003327702 0.003737265 0.0055803 0.0006655404
#> MGA 0.083192546 0.093431629 0.1395075 0.0166385092
#> NF1 0.103158757 0.115855219 0.1729893 0.0206317514
#> PIK3CA 0.003327702 0.003737265 0.0055803 0.0006655404
#> PTPRD 0.046587826 0.052321712 0.0781242 0.0093175651
#> PTPRT 0.039932422 0.044847182 0.0669636 0.0079864844
#> RB1 0.063226335 0.071008038 0.1060257 0.0126452670
#> RBM10 0.096503353 0.108380689 0.1618287 0.0193006707
#> SETBP1 0.036604720 0.041109917 0.0613833 0.0073209440
#> SETD2 0.069881739 0.078482568 0.1171863 0.0139763477
#> SMAD4 0.023293913 0.026160856 0.0390621 0.0046587826
#> SMARCA4 0.069881739 0.078482568 0.1171863 0.0139763477
#> STK11 0.169712794 0.190600522 0.2845953 0.0339425587
#> TP53 0.322787078 0.362514719 0.5412891 0.0645574157
#> U2AF1 0.000000000 0.000000000 0.0000000 0.0000000000
#> TCGA-69-8254-01 TCGA-73-4658-01 TCGA-73-4662-01 TCGA-73-4666-01
#> ARID1A 0.0147442789 0.043311319 0.023959453 0.037782215
#> ATM 0.0147442789 0.043311319 0.023959453 0.037782215
#> BRAF 0.0032765064 0.009624738 0.005324323 0.008396048
#> CDKN2A 0.0057338862 0.016843291 0.009317565 0.014693083
#> CMTR2 0.0139251523 0.040905135 0.022628372 0.035683203
#> CTNNB1 0.0008191266 0.002406184 0.001331081 0.002099012
#> EGFR 0.0245737982 0.072185532 0.039932422 0.062970358
#> KEAP1 0.0163825321 0.048123688 0.026621615 0.041980239
#> KRAS 0.0008191266 0.002406184 0.001331081 0.002099012
#> MGA 0.0204781652 0.060154610 0.033277018 0.052475298
#> NF1 0.0253929248 0.074591717 0.041263503 0.065069370
#> PIK3CA 0.0008191266 0.002406184 0.001331081 0.002099012
#> PTPRD 0.0114677725 0.033686582 0.018635130 0.029386167
#> PTPRT 0.0098295193 0.028874213 0.015972969 0.025188143
#> RB1 0.0155634055 0.045717504 0.025290534 0.039881227
#> RBM10 0.0237546716 0.069779348 0.038601341 0.060871346
#> SETBP1 0.0090103927 0.026468028 0.014641888 0.023089131
#> SETD2 0.0172016587 0.050529873 0.027952695 0.044079250
#> SMAD4 0.0057338862 0.016843291 0.009317565 0.014693083
#> SMARCA4 0.0172016587 0.050529873 0.027952695 0.044079250
#> STK11 0.0417754569 0.122715405 0.067885117 0.107049608
#> TP53 0.0794552808 0.233399887 0.129114831 0.203604157
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-73-4670-01 TCGA-73-4676-01 TCGA-73-4677-01 TCGA-73-7498-01
#> ARID1A 0.046075872 0.0129012440 0.022116418 0.011058209
#> ATM 0.046075872 0.0129012440 0.022116418 0.011058209
#> BRAF 0.010239083 0.0028669431 0.004914760 0.002457380
#> CDKN2A 0.017918395 0.0050171505 0.008600829 0.004300415
#> CMTR2 0.043516101 0.0121845083 0.020887728 0.010443864
#> CTNNB1 0.002559771 0.0007167358 0.001228690 0.000614345
#> EGFR 0.076793119 0.0215020734 0.036860697 0.018430349
#> KEAP1 0.051195413 0.0143347156 0.024573798 0.012286899
#> KRAS 0.002559771 0.0007167358 0.001228690 0.000614345
#> MGA 0.063994266 0.0179183945 0.030717248 0.015358624
#> NF1 0.079352890 0.0222188092 0.038089387 0.019044694
#> PIK3CA 0.002559771 0.0007167358 0.001228690 0.000614345
#> PTPRD 0.035836789 0.0100343009 0.017201659 0.008600829
#> PTPRT 0.030717248 0.0086008294 0.014744279 0.007372139
#> RB1 0.048635642 0.0136179798 0.023345108 0.011672554
#> RBM10 0.074233349 0.0207853376 0.035632007 0.017816004
#> SETBP1 0.028157477 0.0078840936 0.013515589 0.006757795
#> SETD2 0.053755184 0.0150514514 0.025802488 0.012901244
#> SMAD4 0.017918395 0.0050171505 0.008600829 0.004300415
#> SMARCA4 0.053755184 0.0150514514 0.025802488 0.012901244
#> STK11 0.130548303 0.0365535248 0.062663185 0.031331593
#> TP53 0.248297753 0.0695233707 0.119182921 0.059591461
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-73-7499-01 TCGA-73-A9RS-01 TCGA-75-5126-01 TCGA-75-5146-01
#> ARID1A 0.0036860697 0.11058209 0.071878360 0.023037936
#> ATM 0.0036860697 0.11058209 0.071878360 0.023037936
#> BRAF 0.0008191266 0.02457380 0.015972969 0.005119541
#> CDKN2A 0.0014334716 0.04300415 0.027952695 0.008959197
#> CMTR2 0.0034812881 0.10443864 0.067885117 0.021758050
#> CTNNB1 0.0002047817 0.00614345 0.003993242 0.001279885
#> EGFR 0.0061434495 0.18430349 0.119797266 0.038396560
#> KEAP1 0.0040956330 0.12286899 0.079864844 0.025597706
#> KRAS 0.0002047817 0.00614345 0.003993242 0.001279885
#> MGA 0.0051195413 0.15358624 0.099831055 0.031997133
#> NF1 0.0063482312 0.19044694 0.123790508 0.039676445
#> PIK3CA 0.0002047817 0.00614345 0.003993242 0.001279885
#> PTPRD 0.0028669431 0.08600829 0.055905391 0.017918395
#> PTPRT 0.0024573798 0.07372139 0.047918906 0.015358624
#> RB1 0.0038908514 0.11672554 0.075871602 0.024317821
#> RBM10 0.0059386679 0.17816004 0.115804024 0.037116674
#> SETBP1 0.0022525982 0.06757795 0.043925664 0.014078739
#> SETD2 0.0043004147 0.12901244 0.083858086 0.026877592
#> SMAD4 0.0014334716 0.04300415 0.027952695 0.008959197
#> SMARCA4 0.0043004147 0.12901244 0.083858086 0.026877592
#> STK11 0.0104438642 0.31331593 0.203655352 0.065274151
#> TP53 0.0198638202 0.59591461 0.387344494 0.124148876
#> U2AF1 0.0000000000 0.00000000 0.000000000 0.000000000
#> TCGA-75-5147-01 TCGA-75-6206-01 TCGA-75-6211-01 TCGA-75-6214-01
#> ARID1A 0.0055291046 0.0082936569 0.043311319 0.071878360
#> ATM 0.0055291046 0.0082936569 0.043311319 0.071878360
#> BRAF 0.0012286899 0.0018430349 0.009624738 0.015972969
#> CDKN2A 0.0021502073 0.0032253110 0.016843291 0.027952695
#> CMTR2 0.0052219321 0.0078328982 0.040905135 0.067885117
#> CTNNB1 0.0003071725 0.0004607587 0.002406184 0.003993242
#> EGFR 0.0092151743 0.0138227615 0.072185532 0.119797266
#> KEAP1 0.0061434495 0.0092151743 0.048123688 0.079864844
#> KRAS 0.0003071725 0.0004607587 0.002406184 0.003993242
#> MGA 0.0076793119 0.0115189679 0.060154610 0.099831055
#> NF1 0.0095223468 0.0142835202 0.074591717 0.123790508
#> PIK3CA 0.0003071725 0.0004607587 0.002406184 0.003993242
#> PTPRD 0.0043004147 0.0064506220 0.033686582 0.055905391
#> PTPRT 0.0036860697 0.0055291046 0.028874213 0.047918906
#> RB1 0.0058362771 0.0087544156 0.045717504 0.075871602
#> RBM10 0.0089080018 0.0133620028 0.069779348 0.115804024
#> SETBP1 0.0033788973 0.0050683459 0.026468028 0.043925664
#> SETD2 0.0064506220 0.0096759330 0.050529873 0.083858086
#> SMAD4 0.0021502073 0.0032253110 0.016843291 0.027952695
#> SMARCA4 0.0064506220 0.0096759330 0.050529873 0.083858086
#> STK11 0.0156657963 0.0234986945 0.122715405 0.203655352
#> TP53 0.0297957303 0.0446935955 0.233399887 0.387344494
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-75-7027-01 TCGA-75-7030-01 TCGA-78-7145-01 TCGA-78-7146-01
#> ARID1A 0.024880971 0.0018430349 0.025802488 0.030410075
#> ATM 0.024880971 0.0018430349 0.025802488 0.030410075
#> BRAF 0.005529105 0.0004095633 0.005733886 0.006757795
#> CDKN2A 0.009675933 0.0007167358 0.010034301 0.011826140
#> CMTR2 0.023498695 0.0017406440 0.024369017 0.028720627
#> CTNNB1 0.001382276 0.0001023908 0.001433472 0.001689449
#> EGFR 0.041468284 0.0030717248 0.043004147 0.050683459
#> KEAP1 0.027645523 0.0020478165 0.028669431 0.033788973
#> KRAS 0.001382276 0.0001023908 0.001433472 0.001689449
#> MGA 0.034556904 0.0025597706 0.035836789 0.042236216
#> NF1 0.042850561 0.0031741156 0.044437618 0.052372907
#> PIK3CA 0.001382276 0.0001023908 0.001433472 0.001689449
#> PTPRD 0.019351866 0.0014334716 0.020068602 0.023652281
#> PTPRT 0.016587314 0.0012286899 0.017201659 0.020273384
#> RB1 0.026263247 0.0019454257 0.027235960 0.032099524
#> RBM10 0.040086008 0.0029693339 0.041570675 0.048994010
#> SETBP1 0.015205038 0.0011262991 0.015768187 0.018583935
#> SETD2 0.029027799 0.0021502073 0.030102903 0.035478421
#> SMAD4 0.009675933 0.0007167358 0.010034301 0.011826140
#> SMARCA4 0.029027799 0.0021502073 0.030102903 0.035478421
#> STK11 0.070496084 0.0052219321 0.073107050 0.086161880
#> TP53 0.134080786 0.0099319101 0.139046741 0.163876517
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-78-7147-01 TCGA-78-7148-01 TCGA-78-7149-01 TCGA-78-7150-01
#> ARID1A 0.041468284 0.024880971 0.015665796 0.045154354
#> ATM 0.041468284 0.024880971 0.015665796 0.045154354
#> BRAF 0.009215174 0.005529105 0.003481288 0.010034301
#> CDKN2A 0.016126555 0.009675933 0.006092254 0.017560027
#> CMTR2 0.039164491 0.023498695 0.014795474 0.042645779
#> CTNNB1 0.002303794 0.001382276 0.000870322 0.002508575
#> EGFR 0.069113807 0.041468284 0.026109661 0.075257257
#> KEAP1 0.046075872 0.027645523 0.017406440 0.050171505
#> KRAS 0.002303794 0.001382276 0.000870322 0.002508575
#> MGA 0.057594840 0.034556904 0.021758050 0.062714381
#> NF1 0.071417601 0.042850561 0.026979983 0.077765832
#> PIK3CA 0.002303794 0.001382276 0.000870322 0.002508575
#> PTPRD 0.032253110 0.019351866 0.012184508 0.035120053
#> PTPRT 0.027645523 0.016587314 0.010443864 0.030102903
#> RB1 0.043772078 0.026263247 0.016536118 0.047662929
#> RBM10 0.066810014 0.040086008 0.025239339 0.072748682
#> SETBP1 0.025341729 0.015205038 0.009573542 0.027594328
#> SETD2 0.048379665 0.029027799 0.018276762 0.052680080
#> SMAD4 0.016126555 0.009675933 0.006092254 0.017560027
#> SMARCA4 0.048379665 0.029027799 0.018276762 0.052680080
#> STK11 0.117493473 0.070496084 0.044386423 0.127937337
#> TP53 0.223467977 0.134080786 0.084421236 0.243331797
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-78-7152-01 TCGA-78-7153-01 TCGA-78-7155-01 TCGA-78-7158-01
#> ARID1A 0.020273384 0.0147442789 0.18338197 0.034096145
#> ATM 0.020273384 0.0147442789 0.18338197 0.034096145
#> BRAF 0.004505196 0.0032765064 0.04075155 0.007576921
#> CDKN2A 0.007884094 0.0057338862 0.07131521 0.013259612
#> CMTR2 0.019147084 0.0139251523 0.17319408 0.032201915
#> CTNNB1 0.001126299 0.0008191266 0.01018789 0.001894230
#> EGFR 0.033788973 0.0245737982 0.30563661 0.056826908
#> KEAP1 0.022525982 0.0163825321 0.20375774 0.037884606
#> KRAS 0.001126299 0.0008191266 0.01018789 0.001894230
#> MGA 0.028157477 0.0204781652 0.25469718 0.047355757
#> NF1 0.034915272 0.0253929248 0.31582450 0.058721139
#> PIK3CA 0.001126299 0.0008191266 0.01018789 0.001894230
#> PTPRD 0.015768187 0.0114677725 0.14263042 0.026519224
#> PTPRT 0.013515589 0.0098295193 0.12225465 0.022730763
#> RB1 0.021399683 0.0155634055 0.19356986 0.035990375
#> RBM10 0.032662673 0.0237546716 0.29544873 0.054932678
#> SETBP1 0.012389290 0.0090103927 0.11206676 0.020836533
#> SETD2 0.023652281 0.0172016587 0.21394563 0.039778836
#> SMAD4 0.007884094 0.0057338862 0.07131521 0.013259612
#> SMARCA4 0.023652281 0.0172016587 0.21394563 0.039778836
#> STK11 0.057441253 0.0417754569 0.51958225 0.096605744
#> TP53 0.109251011 0.0794552808 0.98822506 0.183740337
#> U2AF1 0.000000000 0.0000000000 0.00000000 0.000000000
#> TCGA-78-7159-01 TCGA-78-7160-01 TCGA-78-7161-01 TCGA-78-7166-01
#> ARID1A 0.043311319 0.0092151743 0.0175088312 0.024880971
#> ATM 0.043311319 0.0092151743 0.0175088312 0.024880971
#> BRAF 0.009624738 0.0020478165 0.0038908514 0.005529105
#> CDKN2A 0.016843291 0.0035836789 0.0068089899 0.009675933
#> CMTR2 0.040905135 0.0087032202 0.0165361184 0.023498695
#> CTNNB1 0.002406184 0.0005119541 0.0009727128 0.001382276
#> EGFR 0.072185532 0.0153586239 0.0291813853 0.041468284
#> KEAP1 0.048123688 0.0102390826 0.0194542569 0.027645523
#> KRAS 0.002406184 0.0005119541 0.0009727128 0.001382276
#> MGA 0.060154610 0.0127988532 0.0243178211 0.034556904
#> NF1 0.074591717 0.0158705780 0.0301540982 0.042850561
#> PIK3CA 0.002406184 0.0005119541 0.0009727128 0.001382276
#> PTPRD 0.033686582 0.0071673578 0.0136179798 0.019351866
#> PTPRT 0.028874213 0.0061434495 0.0116725541 0.016587314
#> RB1 0.045717504 0.0097271284 0.0184815441 0.026263247
#> RBM10 0.069779348 0.0148466697 0.0282086725 0.040086008
#> SETBP1 0.026468028 0.0056314954 0.0106998413 0.015205038
#> SETD2 0.050529873 0.0107510367 0.0204269697 0.029027799
#> SMAD4 0.016843291 0.0035836789 0.0068089899 0.009675933
#> SMARCA4 0.050529873 0.0107510367 0.0204269697 0.029027799
#> STK11 0.122715405 0.0261096606 0.0496083551 0.070496084
#> TP53 0.233399887 0.0496595505 0.0943531460 0.134080786
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-78-7167-01 TCGA-78-7220-01 TCGA-78-7537-01 TCGA-78-7539-01
#> ARID1A 0.0138227615 0.1004454 0.023959453 0.046997389
#> ATM 0.0138227615 0.1004454 0.023959453 0.046997389
#> BRAF 0.0030717248 0.0223212 0.005324323 0.010443864
#> CDKN2A 0.0053755184 0.0390621 0.009317565 0.018276762
#> CMTR2 0.0130548303 0.0948651 0.022628372 0.044386423
#> CTNNB1 0.0007679312 0.0055803 0.001331081 0.002610966
#> EGFR 0.0230379358 0.1674090 0.039932422 0.078328982
#> KEAP1 0.0153586239 0.1116060 0.026621615 0.052219321
#> KRAS 0.0007679312 0.0055803 0.001331081 0.002610966
#> MGA 0.0191982798 0.1395075 0.033277018 0.065274151
#> NF1 0.0238058670 0.1729893 0.041263503 0.080939948
#> PIK3CA 0.0007679312 0.0055803 0.001331081 0.002610966
#> PTPRD 0.0107510367 0.0781242 0.018635130 0.036553525
#> PTPRT 0.0092151743 0.0669636 0.015972969 0.031331593
#> RB1 0.0145906927 0.1060257 0.025290534 0.049608355
#> RBM10 0.0222700046 0.1618287 0.038601341 0.075718016
#> SETBP1 0.0084472431 0.0613833 0.014641888 0.028720627
#> SETD2 0.0161265551 0.1171863 0.027952695 0.054830287
#> SMAD4 0.0053755184 0.0390621 0.009317565 0.018276762
#> SMARCA4 0.0161265551 0.1171863 0.027952695 0.054830287
#> STK11 0.0391644909 0.2845953 0.067885117 0.133159269
#> TP53 0.0744893258 0.5412891 0.129114831 0.253263708
#> U2AF1 0.0000000000 0.0000000 0.000000000 0.000000000
#> TCGA-78-7540-01 TCGA-78-7633-01 TCGA-78-8640-01 TCGA-78-8655-01
#> ARID1A 0.038703732 0.021194901 0.080172017 0.0129012440
#> ATM 0.038703732 0.021194901 0.080172017 0.0129012440
#> BRAF 0.008600829 0.004709978 0.017816004 0.0028669431
#> CDKN2A 0.015051451 0.008242461 0.031178006 0.0050171505
#> CMTR2 0.036553525 0.020017406 0.075718016 0.0121845083
#> CTNNB1 0.002150207 0.001177494 0.004454001 0.0007167358
#> EGFR 0.064506220 0.035324835 0.133620028 0.0215020734
#> KEAP1 0.043004147 0.023549890 0.089080018 0.0143347156
#> KRAS 0.002150207 0.001177494 0.004454001 0.0007167358
#> MGA 0.053755184 0.029437362 0.111350023 0.0179183945
#> NF1 0.066656428 0.036502329 0.138074029 0.0222188092
#> PIK3CA 0.002150207 0.001177494 0.004454001 0.0007167358
#> PTPRD 0.030102903 0.016484923 0.062356013 0.0100343009
#> PTPRT 0.025802488 0.014129934 0.053448011 0.0086008294
#> RB1 0.040853939 0.022372395 0.084626018 0.0136179798
#> RBM10 0.062356013 0.034147340 0.129166027 0.0207853376
#> SETBP1 0.023652281 0.012952439 0.048994010 0.0078840936
#> SETD2 0.045154354 0.024727384 0.093534019 0.0150514514
#> SMAD4 0.015051451 0.008242461 0.031178006 0.0050171505
#> SMARCA4 0.045154354 0.024727384 0.093534019 0.0150514514
#> STK11 0.109660574 0.060052219 0.227154047 0.0365535248
#> TP53 0.208570112 0.114216966 0.432038089 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-78-8660-01 TCGA-78-8662-01 TCGA-80-5607-01 TCGA-80-5608-01
#> ARID1A 0.030410075 0.11242513 0.018430349 0.058055598
#> ATM 0.030410075 0.11242513 0.018430349 0.058055598
#> BRAF 0.006757795 0.02498336 0.004095633 0.012901244
#> CDKN2A 0.011826140 0.04372088 0.007167358 0.022577177
#> CMTR2 0.028720627 0.10617929 0.017406440 0.054830287
#> CTNNB1 0.001689449 0.00624584 0.001023908 0.003225311
#> EGFR 0.050683459 0.18737521 0.030717248 0.096759330
#> KEAP1 0.033788973 0.12491681 0.020478165 0.064506220
#> KRAS 0.001689449 0.00624584 0.001023908 0.003225311
#> MGA 0.042236216 0.15614601 0.025597706 0.080632775
#> NF1 0.052372907 0.19362105 0.031741156 0.099984641
#> PIK3CA 0.001689449 0.00624584 0.001023908 0.003225311
#> PTPRD 0.023652281 0.08744177 0.014334716 0.045154354
#> PTPRT 0.020273384 0.07495008 0.012286899 0.038703732
#> RB1 0.032099524 0.11867097 0.019454257 0.061280909
#> RBM10 0.048994010 0.18112937 0.029693339 0.093534019
#> SETBP1 0.018583935 0.06870424 0.011262991 0.035478421
#> SETD2 0.035478421 0.13116265 0.021502073 0.067731531
#> SMAD4 0.011826140 0.04372088 0.007167358 0.022577177
#> SMARCA4 0.035478421 0.13116265 0.021502073 0.067731531
#> STK11 0.086161880 0.31853786 0.052219321 0.164490862
#> TP53 0.163876517 0.60584652 0.099319101 0.312855168
#> U2AF1 0.000000000 0.00000000 0.000000000 0.000000000
#> TCGA-83-5908-01 TCGA-86-6851-01 TCGA-86-7711-01 TCGA-86-7713-01
#> ARID1A 0.030410075 0.108739057 0.030410075 0.022116418
#> ATM 0.030410075 0.108739057 0.030410075 0.022116418
#> BRAF 0.006757795 0.024164235 0.006757795 0.004914760
#> CDKN2A 0.011826140 0.042287411 0.011826140 0.008600829
#> CMTR2 0.028720627 0.102697998 0.028720627 0.020887728
#> CTNNB1 0.001689449 0.006041059 0.001689449 0.001228690
#> EGFR 0.050683459 0.181231762 0.050683459 0.036860697
#> KEAP1 0.033788973 0.120821174 0.033788973 0.024573798
#> KRAS 0.001689449 0.006041059 0.001689449 0.001228690
#> MGA 0.042236216 0.151026468 0.042236216 0.030717248
#> NF1 0.052372907 0.187272820 0.052372907 0.038089387
#> PIK3CA 0.001689449 0.006041059 0.001689449 0.001228690
#> PTPRD 0.023652281 0.084574822 0.023652281 0.017201659
#> PTPRT 0.020273384 0.072492705 0.020273384 0.014744279
#> RB1 0.032099524 0.114780116 0.032099524 0.023345108
#> RBM10 0.048994010 0.175190703 0.048994010 0.035632007
#> SETBP1 0.018583935 0.066451646 0.018583935 0.013515589
#> SETD2 0.035478421 0.126862233 0.035478421 0.025802488
#> SMAD4 0.011826140 0.042287411 0.011826140 0.008600829
#> SMARCA4 0.035478421 0.126862233 0.035478421 0.025802488
#> STK11 0.086161880 0.308093995 0.086161880 0.062663185
#> TP53 0.163876517 0.585982696 0.163876517 0.119182921
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-86-7714-01 TCGA-86-7953-01 TCGA-86-7954-01 TCGA-86-8054-01
#> ARID1A 0.0082936569 0.0036860697 0.021194901 0.023037936
#> ATM 0.0082936569 0.0036860697 0.021194901 0.023037936
#> BRAF 0.0018430349 0.0008191266 0.004709978 0.005119541
#> CDKN2A 0.0032253110 0.0014334716 0.008242461 0.008959197
#> CMTR2 0.0078328982 0.0034812881 0.020017406 0.021758050
#> CTNNB1 0.0004607587 0.0002047817 0.001177494 0.001279885
#> EGFR 0.0138227615 0.0061434495 0.035324835 0.038396560
#> KEAP1 0.0092151743 0.0040956330 0.023549890 0.025597706
#> KRAS 0.0004607587 0.0002047817 0.001177494 0.001279885
#> MGA 0.0115189679 0.0051195413 0.029437362 0.031997133
#> NF1 0.0142835202 0.0063482312 0.036502329 0.039676445
#> PIK3CA 0.0004607587 0.0002047817 0.001177494 0.001279885
#> PTPRD 0.0064506220 0.0028669431 0.016484923 0.017918395
#> PTPRT 0.0055291046 0.0024573798 0.014129934 0.015358624
#> RB1 0.0087544156 0.0038908514 0.022372395 0.024317821
#> RBM10 0.0133620028 0.0059386679 0.034147340 0.037116674
#> SETBP1 0.0050683459 0.0022525982 0.012952439 0.014078739
#> SETD2 0.0096759330 0.0043004147 0.024727384 0.026877592
#> SMAD4 0.0032253110 0.0014334716 0.008242461 0.008959197
#> SMARCA4 0.0096759330 0.0043004147 0.024727384 0.026877592
#> STK11 0.0234986945 0.0104438642 0.060052219 0.065274151
#> TP53 0.0446935955 0.0198638202 0.114216966 0.124148876
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-86-8055-01 TCGA-86-8056-01 TCGA-86-8074-01 TCGA-86-8075-01
#> ARID1A 9.215174e-04 0.022116418 0.0092151743 0.0055291046
#> ATM 9.215174e-04 0.022116418 0.0092151743 0.0055291046
#> BRAF 2.047817e-04 0.004914760 0.0020478165 0.0012286899
#> CDKN2A 3.583679e-04 0.008600829 0.0035836789 0.0021502073
#> CMTR2 8.703220e-04 0.020887728 0.0087032202 0.0052219321
#> CTNNB1 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> EGFR 1.535862e-03 0.036860697 0.0153586239 0.0092151743
#> KEAP1 1.023908e-03 0.024573798 0.0102390826 0.0061434495
#> KRAS 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> MGA 1.279885e-03 0.030717248 0.0127988532 0.0076793119
#> NF1 1.587058e-03 0.038089387 0.0158705780 0.0095223468
#> PIK3CA 5.119541e-05 0.001228690 0.0005119541 0.0003071725
#> PTPRD 7.167358e-04 0.017201659 0.0071673578 0.0043004147
#> PTPRT 6.143450e-04 0.014744279 0.0061434495 0.0036860697
#> RB1 9.727128e-04 0.023345108 0.0097271284 0.0058362771
#> RBM10 1.484667e-03 0.035632007 0.0148466697 0.0089080018
#> SETBP1 5.631495e-04 0.013515589 0.0056314954 0.0033788973
#> SETD2 1.075104e-03 0.025802488 0.0107510367 0.0064506220
#> SMAD4 3.583679e-04 0.008600829 0.0035836789 0.0021502073
#> SMARCA4 1.075104e-03 0.025802488 0.0107510367 0.0064506220
#> STK11 2.610966e-03 0.062663185 0.0261096606 0.0156657963
#> TP53 4.965955e-03 0.119182921 0.0496595505 0.0297957303
#> U2AF1 0.000000e+00 0.000000000 0.0000000000 0.0000000000
#> TCGA-86-8076-01 TCGA-86-8278-01 TCGA-86-8279-01 TCGA-86-8280-01
#> ARID1A 0.0046075872 0.011058209 0.052526494 9.215174e-04
#> ATM 0.0046075872 0.011058209 0.052526494 9.215174e-04
#> BRAF 0.0010239083 0.002457380 0.011672554 2.047817e-04
#> CDKN2A 0.0017918395 0.004300415 0.020426970 3.583679e-04
#> CMTR2 0.0043516101 0.010443864 0.049608355 8.703220e-04
#> CTNNB1 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> EGFR 0.0076793119 0.018430349 0.087544156 1.535862e-03
#> KEAP1 0.0051195413 0.012286899 0.058362771 1.023908e-03
#> KRAS 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> MGA 0.0063994266 0.015358624 0.072953463 1.279885e-03
#> NF1 0.0079352890 0.019044694 0.090462295 1.587058e-03
#> PIK3CA 0.0002559771 0.000614345 0.002918139 5.119541e-05
#> PTPRD 0.0035836789 0.008600829 0.040853939 7.167358e-04
#> PTPRT 0.0030717248 0.007372139 0.035017662 6.143450e-04
#> RB1 0.0048635642 0.011672554 0.055444632 9.727128e-04
#> RBM10 0.0074233349 0.017816004 0.084626018 1.484667e-03
#> SETBP1 0.0028157477 0.006757795 0.032099524 5.631495e-04
#> SETD2 0.0053755184 0.012901244 0.061280909 1.075104e-03
#> SMAD4 0.0017918395 0.004300415 0.020426970 3.583679e-04
#> SMARCA4 0.0053755184 0.012901244 0.061280909 1.075104e-03
#> STK11 0.0130548303 0.031331593 0.148825065 2.610966e-03
#> TP53 0.0248297753 0.059591461 0.283059438 4.965955e-03
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000e+00
#> TCGA-86-8281-01 TCGA-86-8359-01 TCGA-86-8585-01 TCGA-86-8668-01
#> ARID1A 0.034096145 0.018430349 0.068192290 0.0046075872
#> ATM 0.034096145 0.018430349 0.068192290 0.0046075872
#> BRAF 0.007576921 0.004095633 0.015153842 0.0010239083
#> CDKN2A 0.013259612 0.007167358 0.026519224 0.0017918395
#> CMTR2 0.032201915 0.017406440 0.064403829 0.0043516101
#> CTNNB1 0.001894230 0.001023908 0.003788461 0.0002559771
#> EGFR 0.056826908 0.030717248 0.113653817 0.0076793119
#> KEAP1 0.037884606 0.020478165 0.075769211 0.0051195413
#> KRAS 0.001894230 0.001023908 0.003788461 0.0002559771
#> MGA 0.047355757 0.025597706 0.094711514 0.0063994266
#> NF1 0.058721139 0.031741156 0.117442277 0.0079352890
#> PIK3CA 0.001894230 0.001023908 0.003788461 0.0002559771
#> PTPRD 0.026519224 0.014334716 0.053038448 0.0035836789
#> PTPRT 0.022730763 0.012286899 0.045461527 0.0030717248
#> RB1 0.035990375 0.019454257 0.071980751 0.0048635642
#> RBM10 0.054932678 0.029693339 0.109865356 0.0074233349
#> SETBP1 0.020836533 0.011262991 0.041673066 0.0028157477
#> SETD2 0.039778836 0.021502073 0.079557672 0.0053755184
#> SMAD4 0.013259612 0.007167358 0.026519224 0.0017918395
#> SMARCA4 0.039778836 0.021502073 0.079557672 0.0053755184
#> STK11 0.096605744 0.052219321 0.193211488 0.0130548303
#> TP53 0.183740337 0.099319101 0.367480674 0.0248297753
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-86-8673-01 TCGA-86-8674-01 TCGA-86-A456-01 TCGA-86-A4JF-01
#> ARID1A 0.067270773 0.043311319 0.040546767 0.20549839
#> ATM 0.067270773 0.043311319 0.040546767 0.20549839
#> BRAF 0.014949061 0.009624738 0.009010393 0.04566631
#> CDKN2A 0.026160856 0.016843291 0.015768187 0.07991604
#> CMTR2 0.063533507 0.040905135 0.038294169 0.19408181
#> CTNNB1 0.003737265 0.002406184 0.002252598 0.01141658
#> EGFR 0.112117954 0.072185532 0.067577945 0.34249731
#> KEAP1 0.074745303 0.048123688 0.045051963 0.22833154
#> KRAS 0.003737265 0.002406184 0.002252598 0.01141658
#> MGA 0.093431629 0.060154610 0.056314954 0.28541443
#> NF1 0.115855219 0.074591717 0.069830543 0.35391389
#> PIK3CA 0.003737265 0.002406184 0.002252598 0.01141658
#> PTPRD 0.052321712 0.033686582 0.031536374 0.15983208
#> PTPRT 0.044847182 0.028874213 0.027031178 0.13699892
#> RB1 0.071008038 0.045717504 0.042799365 0.21691496
#> RBM10 0.108380689 0.069779348 0.065325347 0.33108074
#> SETBP1 0.041109917 0.026468028 0.024778580 0.12558235
#> SETD2 0.078482568 0.050529873 0.047304562 0.23974812
#> SMAD4 0.026160856 0.016843291 0.015768187 0.07991604
#> SMARCA4 0.078482568 0.050529873 0.047304562 0.23974812
#> STK11 0.190600522 0.122715405 0.114882507 0.58224543
#> TP53 0.362514719 0.233399887 0.218502022 1.00000000
#> U2AF1 0.000000000 0.000000000 0.000000000 0.00000000
#> TCGA-86-A4P7-01 TCGA-91-6828-01 TCGA-91-6829-01 TCGA-91-6830-01
#> ARID1A 0.011058209 0.035017662 0.080172017 0.025802488
#> ATM 0.011058209 0.035017662 0.080172017 0.025802488
#> BRAF 0.002457380 0.007781703 0.017816004 0.005733886
#> CDKN2A 0.004300415 0.013617980 0.031178006 0.010034301
#> CMTR2 0.010443864 0.033072237 0.075718016 0.024369017
#> CTNNB1 0.000614345 0.001945426 0.004454001 0.001433472
#> EGFR 0.018430349 0.058362771 0.133620028 0.043004147
#> KEAP1 0.012286899 0.038908514 0.089080018 0.028669431
#> KRAS 0.000614345 0.001945426 0.004454001 0.001433472
#> MGA 0.015358624 0.048635642 0.111350023 0.035836789
#> NF1 0.019044694 0.060308196 0.138074029 0.044437618
#> PIK3CA 0.000614345 0.001945426 0.004454001 0.001433472
#> PTPRD 0.008600829 0.027235960 0.062356013 0.020068602
#> PTPRT 0.007372139 0.023345108 0.053448011 0.017201659
#> RB1 0.011672554 0.036963088 0.084626018 0.027235960
#> RBM10 0.017816004 0.056417345 0.129166027 0.041570675
#> SETBP1 0.006757795 0.021399683 0.048994010 0.015768187
#> SETD2 0.012901244 0.040853939 0.093534019 0.030102903
#> SMAD4 0.004300415 0.013617980 0.031178006 0.010034301
#> SMARCA4 0.012901244 0.040853939 0.093534019 0.030102903
#> STK11 0.031331593 0.099216710 0.227154047 0.073107050
#> TP53 0.059591461 0.188706292 0.432038089 0.139046741
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-91-6835-01 TCGA-91-6836-01 TCGA-91-6840-01 TCGA-91-6847-01
#> ARID1A 0.0082936569 0.062663185 0.011058209 0.0101366918
#> ATM 0.0082936569 0.062663185 0.011058209 0.0101366918
#> BRAF 0.0018430349 0.013925152 0.002457380 0.0022525982
#> CDKN2A 0.0032253110 0.024369017 0.004300415 0.0039420468
#> CMTR2 0.0078328982 0.059181897 0.010443864 0.0095735422
#> CTNNB1 0.0004607587 0.003481288 0.000614345 0.0005631495
#> EGFR 0.0138227615 0.104438642 0.018430349 0.0168944863
#> KEAP1 0.0092151743 0.069625762 0.012286899 0.0112629908
#> KRAS 0.0004607587 0.003481288 0.000614345 0.0005631495
#> MGA 0.0115189679 0.087032202 0.015358624 0.0140787385
#> NF1 0.0142835202 0.107919930 0.019044694 0.0174576358
#> PIK3CA 0.0004607587 0.003481288 0.000614345 0.0005631495
#> PTPRD 0.0064506220 0.048738033 0.008600829 0.0078840936
#> PTPRT 0.0055291046 0.041775457 0.007372139 0.0067577945
#> RB1 0.0087544156 0.066144473 0.011672554 0.0106998413
#> RBM10 0.0133620028 0.100957354 0.017816004 0.0163313367
#> SETBP1 0.0050683459 0.038294169 0.006757795 0.0061946450
#> SETD2 0.0096759330 0.073107050 0.012901244 0.0118261404
#> SMAD4 0.0032253110 0.024369017 0.004300415 0.0039420468
#> SMARCA4 0.0096759330 0.073107050 0.012901244 0.0118261404
#> STK11 0.0234986945 0.177545692 0.031331593 0.0287206266
#> TP53 0.0446935955 0.337684943 0.059591461 0.0546255056
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-91-6848-01 TCGA-91-6849-01 TCGA-91-A4BD-01 TCGA-93-7347-01
#> ARID1A 0.065427738 0.0175088312 0.0018430349 0.0129012440
#> ATM 0.065427738 0.0175088312 0.0018430349 0.0129012440
#> BRAF 0.014539497 0.0038908514 0.0004095633 0.0028669431
#> CDKN2A 0.025444120 0.0068089899 0.0007167358 0.0050171505
#> CMTR2 0.061792863 0.0165361184 0.0017406440 0.0121845083
#> CTNNB1 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> EGFR 0.109046229 0.0291813853 0.0030717248 0.0215020734
#> KEAP1 0.072697486 0.0194542569 0.0020478165 0.0143347156
#> KRAS 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> MGA 0.090871858 0.0243178211 0.0025597706 0.0179183945
#> NF1 0.112681104 0.0301540982 0.0031741156 0.0222188092
#> PIK3CA 0.003634874 0.0009727128 0.0001023908 0.0007167358
#> PTPRD 0.050888240 0.0136179798 0.0014334716 0.0100343009
#> PTPRT 0.043618492 0.0116725541 0.0012286899 0.0086008294
#> RB1 0.069062612 0.0184815441 0.0019454257 0.0136179798
#> RBM10 0.105411355 0.0282086725 0.0029693339 0.0207853376
#> SETBP1 0.039983617 0.0106998413 0.0011262991 0.0078840936
#> SETD2 0.076332361 0.0204269697 0.0021502073 0.0150514514
#> SMAD4 0.025444120 0.0068089899 0.0007167358 0.0050171505
#> SMARCA4 0.076332361 0.0204269697 0.0021502073 0.0150514514
#> STK11 0.185378590 0.0496083551 0.0052219321 0.0365535248
#> TP53 0.352582809 0.0943531460 0.0099319101 0.0695233707
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.0000000000
#> TCGA-93-7348-01 TCGA-93-8067-01 TCGA-93-A4JN-01 TCGA-93-A4JO-01
#> ARID1A 0.011058209 0.051604976 0.0101366918 0.0082936569
#> ATM 0.011058209 0.051604976 0.0101366918 0.0082936569
#> BRAF 0.002457380 0.011467772 0.0022525982 0.0018430349
#> CDKN2A 0.004300415 0.020068602 0.0039420468 0.0032253110
#> CMTR2 0.010443864 0.048738033 0.0095735422 0.0078328982
#> CTNNB1 0.000614345 0.002866943 0.0005631495 0.0004607587
#> EGFR 0.018430349 0.086008294 0.0168944863 0.0138227615
#> KEAP1 0.012286899 0.057338862 0.0112629908 0.0092151743
#> KRAS 0.000614345 0.002866943 0.0005631495 0.0004607587
#> MGA 0.015358624 0.071673578 0.0140787385 0.0115189679
#> NF1 0.019044694 0.088875237 0.0174576358 0.0142835202
#> PIK3CA 0.000614345 0.002866943 0.0005631495 0.0004607587
#> PTPRD 0.008600829 0.040137204 0.0078840936 0.0064506220
#> PTPRT 0.007372139 0.034403317 0.0067577945 0.0055291046
#> RB1 0.011672554 0.054471919 0.0106998413 0.0087544156
#> RBM10 0.017816004 0.083141351 0.0163313367 0.0133620028
#> SETBP1 0.006757795 0.031536374 0.0061946450 0.0050683459
#> SETD2 0.012901244 0.060205806 0.0118261404 0.0096759330
#> SMAD4 0.004300415 0.020068602 0.0039420468 0.0032253110
#> SMARCA4 0.012901244 0.060205806 0.0118261404 0.0096759330
#> STK11 0.031331593 0.146214099 0.0287206266 0.0234986945
#> TP53 0.059591461 0.278093483 0.0546255056 0.0446935955
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-93-A4JP-01 TCGA-95-7039-01 TCGA-95-7043-01 TCGA-95-7562-01
#> ARID1A 0.0073721395 0.161265551 0.141913685 0.070035325
#> ATM 0.0073721395 0.161265551 0.141913685 0.070035325
#> BRAF 0.0016382532 0.035836789 0.031536374 0.015563406
#> CDKN2A 0.0028669431 0.062714381 0.055188655 0.027235960
#> CMTR2 0.0069625762 0.152306353 0.134029591 0.066144473
#> CTNNB1 0.0004095633 0.008959197 0.007884094 0.003890851
#> EGFR 0.0122868991 0.268775918 0.236522808 0.116725541
#> KEAP1 0.0081912661 0.179183945 0.157681872 0.077817028
#> KRAS 0.0004095633 0.008959197 0.007884094 0.003890851
#> MGA 0.0102390826 0.223979931 0.197102340 0.097271284
#> NF1 0.0126964624 0.277735115 0.244406901 0.120616393
#> PIK3CA 0.0004095633 0.008959197 0.007884094 0.003890851
#> PTPRD 0.0057338862 0.125428762 0.110377310 0.054471919
#> PTPRT 0.0049147596 0.107510367 0.094609123 0.046690217
#> RB1 0.0077817028 0.170224748 0.149797778 0.073926176
#> RBM10 0.0118773358 0.259816720 0.228638714 0.112834690
#> SETBP1 0.0045051963 0.098551170 0.086725029 0.042799365
#> SETD2 0.0086008294 0.188143142 0.165565965 0.081707879
#> SMAD4 0.0028669431 0.062714381 0.055188655 0.027235960
#> SMARCA4 0.0086008294 0.188143142 0.165565965 0.081707879
#> STK11 0.0208877285 0.456919060 0.402088773 0.198433420
#> TP53 0.0397276404 0.869042134 0.764757078 0.377412584
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-95-7567-01 TCGA-95-7944-01 TCGA-95-7947-01 TCGA-95-7948-01
#> ARID1A 0.111503609 0.018430349 0.048840424 0.0175088312
#> ATM 0.111503609 0.018430349 0.048840424 0.0175088312
#> BRAF 0.024778580 0.004095633 0.010853428 0.0038908514
#> CDKN2A 0.043362515 0.007167358 0.018993498 0.0068089899
#> CMTR2 0.105308964 0.017406440 0.046127067 0.0165361184
#> CTNNB1 0.006194645 0.001023908 0.002713357 0.0009727128
#> EGFR 0.185839349 0.030717248 0.081400706 0.0291813853
#> KEAP1 0.123892899 0.020478165 0.054267138 0.0194542569
#> KRAS 0.006194645 0.001023908 0.002713357 0.0009727128
#> MGA 0.154866124 0.025597706 0.067833922 0.0243178211
#> NF1 0.192033994 0.031741156 0.084114063 0.0301540982
#> PIK3CA 0.006194645 0.001023908 0.002713357 0.0009727128
#> PTPRD 0.086725029 0.014334716 0.037986996 0.0136179798
#> PTPRT 0.074335740 0.012286899 0.032560283 0.0116725541
#> RB1 0.117698254 0.019454257 0.051553781 0.0184815441
#> RBM10 0.179644704 0.029693339 0.078687350 0.0282086725
#> SETBP1 0.068141095 0.011262991 0.029846926 0.0106998413
#> SETD2 0.130087544 0.021502073 0.056980495 0.0204269697
#> SMAD4 0.043362515 0.007167358 0.018993498 0.0068089899
#> SMARCA4 0.130087544 0.021502073 0.056980495 0.0204269697
#> STK11 0.315926893 0.052219321 0.138381201 0.0496083551
#> TP53 0.600880561 0.099319101 0.263195618 0.0943531460
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-95-A4VK-01 TCGA-95-A4VN-01 TCGA-95-A4VP-01 TCGA-97-7546-01
#> ARID1A 0.025802488 0.05621256 0.0101366918 0.032253110
#> ATM 0.025802488 0.05621256 0.0101366918 0.032253110
#> BRAF 0.005733886 0.01249168 0.0022525982 0.007167358
#> CDKN2A 0.010034301 0.02186044 0.0039420468 0.012542876
#> CMTR2 0.024369017 0.05308964 0.0095735422 0.030461271
#> CTNNB1 0.001433472 0.00312292 0.0005631495 0.001791839
#> EGFR 0.043004147 0.09368761 0.0168944863 0.053755184
#> KEAP1 0.028669431 0.06245840 0.0112629908 0.035836789
#> KRAS 0.001433472 0.00312292 0.0005631495 0.001791839
#> MGA 0.035836789 0.07807300 0.0140787385 0.044795986
#> NF1 0.044437618 0.09681053 0.0174576358 0.055547023
#> PIK3CA 0.001433472 0.00312292 0.0005631495 0.001791839
#> PTPRD 0.020068602 0.04372088 0.0078840936 0.025085752
#> PTPRT 0.017201659 0.03747504 0.0067577945 0.021502073
#> RB1 0.027235960 0.05933548 0.0106998413 0.034044950
#> RBM10 0.041570675 0.09056469 0.0163313367 0.051963344
#> SETBP1 0.015768187 0.03435212 0.0061946450 0.019710234
#> SETD2 0.030102903 0.06558132 0.0118261404 0.037628628
#> SMAD4 0.010034301 0.02186044 0.0039420468 0.012542876
#> SMARCA4 0.030102903 0.06558132 0.0118261404 0.037628628
#> STK11 0.073107050 0.15926893 0.0287206266 0.091383812
#> TP53 0.139046741 0.30292326 0.0546255056 0.173808427
#> U2AF1 0.000000000 0.00000000 0.0000000000 0.000000000
#> TCGA-97-7553-01 TCGA-97-7554-01 TCGA-97-7937-01 TCGA-97-7938-01
#> ARID1A 0.0119797266 0.046997389 0.063584703 0.044232837
#> ATM 0.0119797266 0.046997389 0.063584703 0.044232837
#> BRAF 0.0026621615 0.010443864 0.014129934 0.009829519
#> CDKN2A 0.0046587826 0.018276762 0.024727384 0.017201659
#> CMTR2 0.0113141862 0.044386423 0.060052219 0.041775457
#> CTNNB1 0.0006655404 0.002610966 0.003532483 0.002457380
#> EGFR 0.0199662110 0.078328982 0.105974505 0.073721395
#> KEAP1 0.0133108074 0.052219321 0.070649670 0.049147596
#> KRAS 0.0006655404 0.002610966 0.003532483 0.002457380
#> MGA 0.0166385092 0.065274151 0.088312087 0.061434495
#> NF1 0.0206317514 0.080939948 0.109506988 0.076178774
#> PIK3CA 0.0006655404 0.002610966 0.003532483 0.002457380
#> PTPRD 0.0093175651 0.036553525 0.049454769 0.034403317
#> PTPRT 0.0079864844 0.031331593 0.042389802 0.029488558
#> RB1 0.0126452670 0.049608355 0.067117186 0.046690217
#> RBM10 0.0193006707 0.075718016 0.102442021 0.071264015
#> SETBP1 0.0073209440 0.028720627 0.038857318 0.027031178
#> SETD2 0.0139763477 0.054830287 0.074182153 0.051604976
#> SMAD4 0.0046587826 0.018276762 0.024727384 0.017201659
#> SMARCA4 0.0139763477 0.054830287 0.074182153 0.051604976
#> STK11 0.0339425587 0.133159269 0.180156658 0.125326371
#> TP53 0.0645574157 0.253263708 0.342650898 0.238365842
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-97-7941-01 TCGA-97-8171-01 TCGA-97-8174-01 TCGA-97-8175-01
#> ARID1A 0.0138227615 0.0064506220 0.020273384 0.0036860697
#> ATM 0.0138227615 0.0064506220 0.020273384 0.0036860697
#> BRAF 0.0030717248 0.0014334716 0.004505196 0.0008191266
#> CDKN2A 0.0053755184 0.0025085752 0.007884094 0.0014334716
#> CMTR2 0.0130548303 0.0060922541 0.019147084 0.0034812881
#> CTNNB1 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> EGFR 0.0230379358 0.0107510367 0.033788973 0.0061434495
#> KEAP1 0.0153586239 0.0071673578 0.022525982 0.0040956330
#> KRAS 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> MGA 0.0191982798 0.0089591973 0.028157477 0.0051195413
#> NF1 0.0238058670 0.0111094046 0.034915272 0.0063482312
#> PIK3CA 0.0007679312 0.0003583679 0.001126299 0.0002047817
#> PTPRD 0.0107510367 0.0050171505 0.015768187 0.0028669431
#> PTPRT 0.0092151743 0.0043004147 0.013515589 0.0024573798
#> RB1 0.0145906927 0.0068089899 0.021399683 0.0038908514
#> RBM10 0.0222700046 0.0103926688 0.032662673 0.0059386679
#> SETBP1 0.0084472431 0.0039420468 0.012389290 0.0022525982
#> SETD2 0.0161265551 0.0075257257 0.023652281 0.0043004147
#> SMAD4 0.0053755184 0.0025085752 0.007884094 0.0014334716
#> SMARCA4 0.0161265551 0.0075257257 0.023652281 0.0043004147
#> STK11 0.0391644909 0.0182767624 0.057441253 0.0104438642
#> TP53 0.0744893258 0.0347616854 0.109251011 0.0198638202
#> U2AF1 0.0000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-97-8176-01 TCGA-97-8177-01 TCGA-97-8179-01 TCGA-97-8547-01
#> ARID1A 0.022116418 0.0027645523 0.023959453 0.0082936569
#> ATM 0.022116418 0.0027645523 0.023959453 0.0082936569
#> BRAF 0.004914760 0.0006143450 0.005324323 0.0018430349
#> CDKN2A 0.008600829 0.0010751037 0.009317565 0.0032253110
#> CMTR2 0.020887728 0.0026109661 0.022628372 0.0078328982
#> CTNNB1 0.001228690 0.0001535862 0.001331081 0.0004607587
#> EGFR 0.036860697 0.0046075872 0.039932422 0.0138227615
#> KEAP1 0.024573798 0.0030717248 0.026621615 0.0092151743
#> KRAS 0.001228690 0.0001535862 0.001331081 0.0004607587
#> MGA 0.030717248 0.0038396560 0.033277018 0.0115189679
#> NF1 0.038089387 0.0047611734 0.041263503 0.0142835202
#> PIK3CA 0.001228690 0.0001535862 0.001331081 0.0004607587
#> PTPRD 0.017201659 0.0021502073 0.018635130 0.0064506220
#> PTPRT 0.014744279 0.0018430349 0.015972969 0.0055291046
#> RB1 0.023345108 0.0029181385 0.025290534 0.0087544156
#> RBM10 0.035632007 0.0044540009 0.038601341 0.0133620028
#> SETBP1 0.013515589 0.0016894486 0.014641888 0.0050683459
#> SETD2 0.025802488 0.0032253110 0.027952695 0.0096759330
#> SMAD4 0.008600829 0.0010751037 0.009317565 0.0032253110
#> SMARCA4 0.025802488 0.0032253110 0.027952695 0.0096759330
#> STK11 0.062663185 0.0078328982 0.067885117 0.0234986945
#> TP53 0.119182921 0.0148978652 0.129114831 0.0446935955
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-97-A4LX-01 TCGA-97-A4M0-01 TCGA-97-A4M1-01 TCGA-97-A4M3-01
#> ARID1A 0.0129012440 0.042389802 0.0018430349 0.020273384
#> ATM 0.0129012440 0.042389802 0.0018430349 0.020273384
#> BRAF 0.0028669431 0.009419956 0.0004095633 0.004505196
#> CDKN2A 0.0050171505 0.016484923 0.0007167358 0.007884094
#> CMTR2 0.0121845083 0.040034813 0.0017406440 0.019147084
#> CTNNB1 0.0007167358 0.002354989 0.0001023908 0.001126299
#> EGFR 0.0215020734 0.070649670 0.0030717248 0.033788973
#> KEAP1 0.0143347156 0.047099780 0.0020478165 0.022525982
#> KRAS 0.0007167358 0.002354989 0.0001023908 0.001126299
#> MGA 0.0179183945 0.058874725 0.0025597706 0.028157477
#> NF1 0.0222188092 0.073004659 0.0031741156 0.034915272
#> PIK3CA 0.0007167358 0.002354989 0.0001023908 0.001126299
#> PTPRD 0.0100343009 0.032969846 0.0014334716 0.015768187
#> PTPRT 0.0086008294 0.028259868 0.0012286899 0.013515589
#> RB1 0.0136179798 0.044744791 0.0019454257 0.021399683
#> RBM10 0.0207853376 0.068294681 0.0029693339 0.032662673
#> SETBP1 0.0078840936 0.025904879 0.0011262991 0.012389290
#> SETD2 0.0150514514 0.049454769 0.0021502073 0.023652281
#> SMAD4 0.0050171505 0.016484923 0.0007167358 0.007884094
#> SMARCA4 0.0150514514 0.049454769 0.0021502073 0.023652281
#> STK11 0.0365535248 0.120104439 0.0052219321 0.057441253
#> TP53 0.0695233707 0.228433932 0.0099319101 0.109251011
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-97-A4M5-01 TCGA-97-A4M7-01 TCGA-99-8025-01 TCGA-99-8028-01
#> ARID1A 0.023959453 0.034096145 0.040546767 0.052526494
#> ATM 0.023959453 0.034096145 0.040546767 0.052526494
#> BRAF 0.005324323 0.007576921 0.009010393 0.011672554
#> CDKN2A 0.009317565 0.013259612 0.015768187 0.020426970
#> CMTR2 0.022628372 0.032201915 0.038294169 0.049608355
#> CTNNB1 0.001331081 0.001894230 0.002252598 0.002918139
#> EGFR 0.039932422 0.056826908 0.067577945 0.087544156
#> KEAP1 0.026621615 0.037884606 0.045051963 0.058362771
#> KRAS 0.001331081 0.001894230 0.002252598 0.002918139
#> MGA 0.033277018 0.047355757 0.056314954 0.072953463
#> NF1 0.041263503 0.058721139 0.069830543 0.090462295
#> PIK3CA 0.001331081 0.001894230 0.002252598 0.002918139
#> PTPRD 0.018635130 0.026519224 0.031536374 0.040853939
#> PTPRT 0.015972969 0.022730763 0.027031178 0.035017662
#> RB1 0.025290534 0.035990375 0.042799365 0.055444632
#> RBM10 0.038601341 0.054932678 0.065325347 0.084626018
#> SETBP1 0.014641888 0.020836533 0.024778580 0.032099524
#> SETD2 0.027952695 0.039778836 0.047304562 0.061280909
#> SMAD4 0.009317565 0.013259612 0.015768187 0.020426970
#> SMARCA4 0.027952695 0.039778836 0.047304562 0.061280909
#> STK11 0.067885117 0.096605744 0.114882507 0.148825065
#> TP53 0.129114831 0.183740337 0.218502022 0.283059438
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-99-8032-01 TCGA-99-8033-01 TCGA-J2-8194-01 TCGA-J2-A4AD-01
#> ARID1A 0.065427738 0.024880971 0.0138227615 0.038703732
#> ATM 0.065427738 0.024880971 0.0138227615 0.038703732
#> BRAF 0.014539497 0.005529105 0.0030717248 0.008600829
#> CDKN2A 0.025444120 0.009675933 0.0053755184 0.015051451
#> CMTR2 0.061792863 0.023498695 0.0130548303 0.036553525
#> CTNNB1 0.003634874 0.001382276 0.0007679312 0.002150207
#> EGFR 0.109046229 0.041468284 0.0230379358 0.064506220
#> KEAP1 0.072697486 0.027645523 0.0153586239 0.043004147
#> KRAS 0.003634874 0.001382276 0.0007679312 0.002150207
#> MGA 0.090871858 0.034556904 0.0191982798 0.053755184
#> NF1 0.112681104 0.042850561 0.0238058670 0.066656428
#> PIK3CA 0.003634874 0.001382276 0.0007679312 0.002150207
#> PTPRD 0.050888240 0.019351866 0.0107510367 0.030102903
#> PTPRT 0.043618492 0.016587314 0.0092151743 0.025802488
#> RB1 0.069062612 0.026263247 0.0145906927 0.040853939
#> RBM10 0.105411355 0.040086008 0.0222700046 0.062356013
#> SETBP1 0.039983617 0.015205038 0.0084472431 0.023652281
#> SETD2 0.076332361 0.029027799 0.0161265551 0.045154354
#> SMAD4 0.025444120 0.009675933 0.0053755184 0.015051451
#> SMARCA4 0.076332361 0.029027799 0.0161265551 0.045154354
#> STK11 0.185378590 0.070496084 0.0391644909 0.109660574
#> TP53 0.352582809 0.134080786 0.0744893258 0.208570112
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-J2-A4AG-01 TCGA-L4-A4E5-01 TCGA-L9-A443-01 TCGA-L9-A444-01
#> ARID1A 0.0147442789 0.040546767 0.035017662 0.059898633
#> ATM 0.0147442789 0.040546767 0.035017662 0.059898633
#> BRAF 0.0032765064 0.009010393 0.007781703 0.013310807
#> CDKN2A 0.0057338862 0.015768187 0.013617980 0.023293913
#> CMTR2 0.0139251523 0.038294169 0.033072237 0.056570931
#> CTNNB1 0.0008191266 0.002252598 0.001945426 0.003327702
#> EGFR 0.0245737982 0.067577945 0.058362771 0.099831055
#> KEAP1 0.0163825321 0.045051963 0.038908514 0.066554037
#> KRAS 0.0008191266 0.002252598 0.001945426 0.003327702
#> MGA 0.0204781652 0.056314954 0.048635642 0.083192546
#> NF1 0.0253929248 0.069830543 0.060308196 0.103158757
#> PIK3CA 0.0008191266 0.002252598 0.001945426 0.003327702
#> PTPRD 0.0114677725 0.031536374 0.027235960 0.046587826
#> PTPRT 0.0098295193 0.027031178 0.023345108 0.039932422
#> RB1 0.0155634055 0.042799365 0.036963088 0.063226335
#> RBM10 0.0237546716 0.065325347 0.056417345 0.096503353
#> SETBP1 0.0090103927 0.024778580 0.021399683 0.036604720
#> SETD2 0.0172016587 0.047304562 0.040853939 0.069881739
#> SMAD4 0.0057338862 0.015768187 0.013617980 0.023293913
#> SMARCA4 0.0172016587 0.047304562 0.040853939 0.069881739
#> STK11 0.0417754569 0.114882507 0.099216710 0.169712794
#> TP53 0.0794552808 0.218502022 0.188706292 0.322787078
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-L9-A50W-01 TCGA-L9-A5IP-01 TCGA-L9-A743-01 TCGA-L9-A7SV-01
#> ARID1A 0.0046075872 0.029488558 0.0092151743 0.164951620
#> ATM 0.0046075872 0.029488558 0.0092151743 0.164951620
#> BRAF 0.0010239083 0.006553013 0.0020478165 0.036655916
#> CDKN2A 0.0017918395 0.011467772 0.0035836789 0.064147852
#> CMTR2 0.0043516101 0.027850305 0.0087032202 0.155787641
#> CTNNB1 0.0002559771 0.001638253 0.0005119541 0.009163979
#> EGFR 0.0076793119 0.049147596 0.0153586239 0.274919367
#> KEAP1 0.0051195413 0.032765064 0.0102390826 0.183279578
#> KRAS 0.0002559771 0.001638253 0.0005119541 0.009163979
#> MGA 0.0063994266 0.040956330 0.0127988532 0.229099473
#> NF1 0.0079352890 0.050785850 0.0158705780 0.284083346
#> PIK3CA 0.0002559771 0.001638253 0.0005119541 0.009163979
#> PTPRD 0.0035836789 0.022935545 0.0071673578 0.128295705
#> PTPRT 0.0030717248 0.019659039 0.0061434495 0.109967747
#> RB1 0.0048635642 0.031126811 0.0097271284 0.174115599
#> RBM10 0.0074233349 0.047509343 0.0148466697 0.265755388
#> SETBP1 0.0028157477 0.018020785 0.0056314954 0.100803768
#> SETD2 0.0053755184 0.034403317 0.0107510367 0.192443557
#> SMAD4 0.0017918395 0.011467772 0.0035836789 0.064147852
#> SMARCA4 0.0053755184 0.034403317 0.0107510367 0.192443557
#> STK11 0.0130548303 0.083550914 0.0261096606 0.467362924
#> TP53 0.0248297753 0.158910562 0.0496595505 0.888905954
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-L9-A8F4-01 TCGA-MN-A4N1-01 TCGA-MN-A4N4-01 TCGA-MN-A4N5-01
#> ARID1A 0.086622639 0.049761941 0.168637690 0.057134081
#> ATM 0.086622639 0.049761941 0.168637690 0.057134081
#> BRAF 0.019249475 0.011058209 0.037475042 0.012696462
#> CDKN2A 0.033686582 0.019351866 0.065581324 0.022218809
#> CMTR2 0.081810270 0.046997389 0.159268930 0.053959965
#> CTNNB1 0.004812369 0.002764552 0.009368761 0.003174116
#> EGFR 0.144371064 0.082936569 0.281062817 0.095223468
#> KEAP1 0.096247376 0.055291046 0.187375211 0.063482312
#> KRAS 0.004812369 0.002764552 0.009368761 0.003174116
#> MGA 0.120309220 0.069113807 0.234219014 0.079352890
#> NF1 0.149183433 0.085701121 0.290431577 0.098397584
#> PIK3CA 0.004812369 0.002764552 0.009368761 0.003174116
#> PTPRD 0.067373163 0.038703732 0.131162648 0.044437618
#> PTPRT 0.057748426 0.033174628 0.112425127 0.038089387
#> RB1 0.091435007 0.052526494 0.178006451 0.060308196
#> RBM10 0.139558696 0.080172017 0.271694056 0.092049352
#> SETBP1 0.052936057 0.030410075 0.103056366 0.034915272
#> SETD2 0.101059745 0.058055598 0.196743972 0.066656428
#> SMAD4 0.033686582 0.019351866 0.065581324 0.022218809
#> SMARCA4 0.101059745 0.058055598 0.196743972 0.066656428
#> STK11 0.245430809 0.140992167 0.477806789 0.161879896
#> TP53 0.466799775 0.268161573 0.908769774 0.307889213
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-MP-A4SV-01 TCGA-MP-A4SW-01 TCGA-MP-A4SY-01 TCGA-MP-A4T4-01
#> ARID1A 0.033174628 0.0082936569 0.0165873138 0.039625250
#> ATM 0.033174628 0.0082936569 0.0165873138 0.039625250
#> BRAF 0.007372139 0.0018430349 0.0036860697 0.008805611
#> CDKN2A 0.012901244 0.0032253110 0.0064506220 0.015409819
#> CMTR2 0.031331593 0.0078328982 0.0156657963 0.037423847
#> CTNNB1 0.001843035 0.0004607587 0.0009215174 0.002201403
#> EGFR 0.055291046 0.0138227615 0.0276455230 0.066042083
#> KEAP1 0.036860697 0.0092151743 0.0184303486 0.044028055
#> KRAS 0.001843035 0.0004607587 0.0009215174 0.002201403
#> MGA 0.046075872 0.0115189679 0.0230379358 0.055035069
#> NF1 0.057134081 0.0142835202 0.0285670404 0.068243485
#> PIK3CA 0.001843035 0.0004607587 0.0009215174 0.002201403
#> PTPRD 0.025802488 0.0064506220 0.0129012440 0.030819639
#> PTPRT 0.022116418 0.0055291046 0.0110582092 0.026416833
#> RB1 0.035017662 0.0087544156 0.0175088312 0.041826652
#> RBM10 0.053448011 0.0133620028 0.0267240055 0.063840680
#> SETBP1 0.020273384 0.0050683459 0.0101366918 0.024215430
#> SETD2 0.038703732 0.0096759330 0.0193518661 0.046229458
#> SMAD4 0.012901244 0.0032253110 0.0064506220 0.015409819
#> SMARCA4 0.038703732 0.0096759330 0.0193518661 0.046229458
#> STK11 0.093994778 0.0234986945 0.0469973890 0.112271540
#> TP53 0.178774382 0.0446935955 0.0893871909 0.213536067
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-MP-A4T7-01 TCGA-MP-A4T8-01 TCGA-MP-A4T9-01 TCGA-MP-A4TA-01
#> ARID1A 0.0129012440 0.0147442789 0.0027645523 0.046997389
#> ATM 0.0129012440 0.0147442789 0.0027645523 0.046997389
#> BRAF 0.0028669431 0.0032765064 0.0006143450 0.010443864
#> CDKN2A 0.0050171505 0.0057338862 0.0010751037 0.018276762
#> CMTR2 0.0121845083 0.0139251523 0.0026109661 0.044386423
#> CTNNB1 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> EGFR 0.0215020734 0.0245737982 0.0046075872 0.078328982
#> KEAP1 0.0143347156 0.0163825321 0.0030717248 0.052219321
#> KRAS 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> MGA 0.0179183945 0.0204781652 0.0038396560 0.065274151
#> NF1 0.0222188092 0.0253929248 0.0047611734 0.080939948
#> PIK3CA 0.0007167358 0.0008191266 0.0001535862 0.002610966
#> PTPRD 0.0100343009 0.0114677725 0.0021502073 0.036553525
#> PTPRT 0.0086008294 0.0098295193 0.0018430349 0.031331593
#> RB1 0.0136179798 0.0155634055 0.0029181385 0.049608355
#> RBM10 0.0207853376 0.0237546716 0.0044540009 0.075718016
#> SETBP1 0.0078840936 0.0090103927 0.0016894486 0.028720627
#> SETD2 0.0150514514 0.0172016587 0.0032253110 0.054830287
#> SMAD4 0.0050171505 0.0057338862 0.0010751037 0.018276762
#> SMARCA4 0.0150514514 0.0172016587 0.0032253110 0.054830287
#> STK11 0.0365535248 0.0417754569 0.0078328982 0.133159269
#> TP53 0.0695233707 0.0794552808 0.0148978652 0.253263708
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-MP-A4TD-01 TCGA-MP-A4TE-01 TCGA-MP-A4TF-01 TCGA-MP-A4TI-01
#> ARID1A 0.0101366918 0.015665796 0.046075872 0.022116418
#> ATM 0.0101366918 0.015665796 0.046075872 0.022116418
#> BRAF 0.0022525982 0.003481288 0.010239083 0.004914760
#> CDKN2A 0.0039420468 0.006092254 0.017918395 0.008600829
#> CMTR2 0.0095735422 0.014795474 0.043516101 0.020887728
#> CTNNB1 0.0005631495 0.000870322 0.002559771 0.001228690
#> EGFR 0.0168944863 0.026109661 0.076793119 0.036860697
#> KEAP1 0.0112629908 0.017406440 0.051195413 0.024573798
#> KRAS 0.0005631495 0.000870322 0.002559771 0.001228690
#> MGA 0.0140787385 0.021758050 0.063994266 0.030717248
#> NF1 0.0174576358 0.026979983 0.079352890 0.038089387
#> PIK3CA 0.0005631495 0.000870322 0.002559771 0.001228690
#> PTPRD 0.0078840936 0.012184508 0.035836789 0.017201659
#> PTPRT 0.0067577945 0.010443864 0.030717248 0.014744279
#> RB1 0.0106998413 0.016536118 0.048635642 0.023345108
#> RBM10 0.0163313367 0.025239339 0.074233349 0.035632007
#> SETBP1 0.0061946450 0.009573542 0.028157477 0.013515589
#> SETD2 0.0118261404 0.018276762 0.053755184 0.025802488
#> SMAD4 0.0039420468 0.006092254 0.017918395 0.008600829
#> SMARCA4 0.0118261404 0.018276762 0.053755184 0.025802488
#> STK11 0.0287206266 0.044386423 0.130548303 0.062663185
#> TP53 0.0546255056 0.084421236 0.248297753 0.119182921
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-MP-A4TK-01 TCGA-NJ-A4YG-01 TCGA-NJ-A4YI-01 TCGA-NJ-A4YP-01
#> ARID1A 0.040546767 0.0138227615 0.058055598 0.069113807
#> ATM 0.040546767 0.0138227615 0.058055598 0.069113807
#> BRAF 0.009010393 0.0030717248 0.012901244 0.015358624
#> CDKN2A 0.015768187 0.0053755184 0.022577177 0.026877592
#> CMTR2 0.038294169 0.0130548303 0.054830287 0.065274151
#> CTNNB1 0.002252598 0.0007679312 0.003225311 0.003839656
#> EGFR 0.067577945 0.0230379358 0.096759330 0.115189679
#> KEAP1 0.045051963 0.0153586239 0.064506220 0.076793119
#> KRAS 0.002252598 0.0007679312 0.003225311 0.003839656
#> MGA 0.056314954 0.0191982798 0.080632775 0.095991399
#> NF1 0.069830543 0.0238058670 0.099984641 0.119029335
#> PIK3CA 0.002252598 0.0007679312 0.003225311 0.003839656
#> PTPRD 0.031536374 0.0107510367 0.045154354 0.053755184
#> PTPRT 0.027031178 0.0092151743 0.038703732 0.046075872
#> RB1 0.042799365 0.0145906927 0.061280909 0.072953463
#> RBM10 0.065325347 0.0222700046 0.093534019 0.111350023
#> SETBP1 0.024778580 0.0084472431 0.035478421 0.042236216
#> SETD2 0.047304562 0.0161265551 0.067731531 0.080632775
#> SMAD4 0.015768187 0.0053755184 0.022577177 0.026877592
#> SMARCA4 0.047304562 0.0161265551 0.067731531 0.080632775
#> STK11 0.114882507 0.0391644909 0.164490862 0.195822454
#> TP53 0.218502022 0.0744893258 0.312855168 0.372446629
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-NJ-A4YQ-01 TCGA-NJ-A55O-01 TCGA-NJ-A55R-01 TCGA-05-4398-01
#> ARID1A 0.136384580 0.0147442789 0.035939180 0.09030871
#> ATM 0.136384580 0.0147442789 0.035939180 0.09030871
#> BRAF 0.030307684 0.0032765064 0.007986484 0.02006860
#> CDKN2A 0.053038448 0.0057338862 0.013976348 0.03512005
#> CMTR2 0.128807659 0.0139251523 0.033942559 0.08529156
#> CTNNB1 0.007576921 0.0008191266 0.001996621 0.00501715
#> EGFR 0.227307633 0.0245737982 0.059898633 0.15051451
#> KEAP1 0.151538422 0.0163825321 0.039932422 0.10034301
#> KRAS 0.007576921 0.0008191266 0.001996621 0.00501715
#> MGA 0.189423028 0.0204781652 0.049915528 0.12542876
#> NF1 0.234884554 0.0253929248 0.061895254 0.15553166
#> PIK3CA 0.007576921 0.0008191266 0.001996621 0.00501715
#> PTPRD 0.106076896 0.0114677725 0.027952695 0.07024011
#> PTPRT 0.090923053 0.0098295193 0.023959453 0.06020581
#> RB1 0.143961501 0.0155634055 0.037935801 0.09532586
#> RBM10 0.219730712 0.0237546716 0.057902012 0.14549736
#> SETBP1 0.083346132 0.0090103927 0.021962832 0.05518866
#> SETD2 0.159115343 0.0172016587 0.041929043 0.10536016
#> SMAD4 0.053038448 0.0057338862 0.013976348 0.03512005
#> SMARCA4 0.159115343 0.0172016587 0.041929043 0.10536016
#> STK11 0.386422977 0.0417754569 0.101827676 0.25587467
#> TP53 0.734961347 0.0794552808 0.193672247 0.48666359
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.00000000
#> TCGA-05-4402-01 TCGA-05-4424-01 TCGA-05-4426-01 TCGA-05-4434-01
#> ARID1A 0.015665796 0.080172017 0.0064506220 0.0101366918
#> ATM 0.015665796 0.080172017 0.0064506220 0.0101366918
#> BRAF 0.003481288 0.017816004 0.0014334716 0.0022525982
#> CDKN2A 0.006092254 0.031178006 0.0025085752 0.0039420468
#> CMTR2 0.014795474 0.075718016 0.0060922541 0.0095735422
#> CTNNB1 0.000870322 0.004454001 0.0003583679 0.0005631495
#> EGFR 0.026109661 0.133620028 0.0107510367 0.0168944863
#> KEAP1 0.017406440 0.089080018 0.0071673578 0.0112629908
#> KRAS 0.000870322 0.004454001 0.0003583679 0.0005631495
#> MGA 0.021758050 0.111350023 0.0089591973 0.0140787385
#> NF1 0.026979983 0.138074029 0.0111094046 0.0174576358
#> PIK3CA 0.000870322 0.004454001 0.0003583679 0.0005631495
#> PTPRD 0.012184508 0.062356013 0.0050171505 0.0078840936
#> PTPRT 0.010443864 0.053448011 0.0043004147 0.0067577945
#> RB1 0.016536118 0.084626018 0.0068089899 0.0106998413
#> RBM10 0.025239339 0.129166027 0.0103926688 0.0163313367
#> SETBP1 0.009573542 0.048994010 0.0039420468 0.0061946450
#> SETD2 0.018276762 0.093534019 0.0075257257 0.0118261404
#> SMAD4 0.006092254 0.031178006 0.0025085752 0.0039420468
#> SMARCA4 0.018276762 0.093534019 0.0075257257 0.0118261404
#> STK11 0.044386423 0.227154047 0.0182767624 0.0287206266
#> TP53 0.084421236 0.432038089 0.0347616854 0.0546255056
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-05-5715-01 TCGA-38-4626-01 TCGA-38-4628-01 TCGA-38-7271-01
#> ARID1A 0.0138227615 0.034096145 0.0138227615 0.015665796
#> ATM 0.0138227615 0.034096145 0.0138227615 0.015665796
#> BRAF 0.0030717248 0.007576921 0.0030717248 0.003481288
#> CDKN2A 0.0053755184 0.013259612 0.0053755184 0.006092254
#> CMTR2 0.0130548303 0.032201915 0.0130548303 0.014795474
#> CTNNB1 0.0007679312 0.001894230 0.0007679312 0.000870322
#> EGFR 0.0230379358 0.056826908 0.0230379358 0.026109661
#> KEAP1 0.0153586239 0.037884606 0.0153586239 0.017406440
#> KRAS 0.0007679312 0.001894230 0.0007679312 0.000870322
#> MGA 0.0191982798 0.047355757 0.0191982798 0.021758050
#> NF1 0.0238058670 0.058721139 0.0238058670 0.026979983
#> PIK3CA 0.0007679312 0.001894230 0.0007679312 0.000870322
#> PTPRD 0.0107510367 0.026519224 0.0107510367 0.012184508
#> PTPRT 0.0092151743 0.022730763 0.0092151743 0.010443864
#> RB1 0.0145906927 0.035990375 0.0145906927 0.016536118
#> RBM10 0.0222700046 0.054932678 0.0222700046 0.025239339
#> SETBP1 0.0084472431 0.020836533 0.0084472431 0.009573542
#> SETD2 0.0161265551 0.039778836 0.0161265551 0.018276762
#> SMAD4 0.0053755184 0.013259612 0.0053755184 0.006092254
#> SMARCA4 0.0161265551 0.039778836 0.0161265551 0.018276762
#> STK11 0.0391644909 0.096605744 0.0391644909 0.044386423
#> TP53 0.0744893258 0.183740337 0.0744893258 0.084421236
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-38-A44F-01 TCGA-44-2655-01 TCGA-44-2659-01 TCGA-44-3398-01
#> ARID1A 0.0018430349 0.020273384 0.059898633 0.020273384
#> ATM 0.0018430349 0.020273384 0.059898633 0.020273384
#> BRAF 0.0004095633 0.004505196 0.013310807 0.004505196
#> CDKN2A 0.0007167358 0.007884094 0.023293913 0.007884094
#> CMTR2 0.0017406440 0.019147084 0.056570931 0.019147084
#> CTNNB1 0.0001023908 0.001126299 0.003327702 0.001126299
#> EGFR 0.0030717248 0.033788973 0.099831055 0.033788973
#> KEAP1 0.0020478165 0.022525982 0.066554037 0.022525982
#> KRAS 0.0001023908 0.001126299 0.003327702 0.001126299
#> MGA 0.0025597706 0.028157477 0.083192546 0.028157477
#> NF1 0.0031741156 0.034915272 0.103158757 0.034915272
#> PIK3CA 0.0001023908 0.001126299 0.003327702 0.001126299
#> PTPRD 0.0014334716 0.015768187 0.046587826 0.015768187
#> PTPRT 0.0012286899 0.013515589 0.039932422 0.013515589
#> RB1 0.0019454257 0.021399683 0.063226335 0.021399683
#> RBM10 0.0029693339 0.032662673 0.096503353 0.032662673
#> SETBP1 0.0011262991 0.012389290 0.036604720 0.012389290
#> SETD2 0.0021502073 0.023652281 0.069881739 0.023652281
#> SMAD4 0.0007167358 0.007884094 0.023293913 0.007884094
#> SMARCA4 0.0021502073 0.023652281 0.069881739 0.023652281
#> STK11 0.0052219321 0.057441253 0.169712794 0.057441253
#> TP53 0.0099319101 0.109251011 0.322787078 0.109251011
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-44-3918-01 TCGA-44-3919-01 TCGA-44-4112-01 TCGA-44-5644-01
#> ARID1A 0.111503609 0.0055291046 0.062663185 0.113346644
#> ATM 0.111503609 0.0055291046 0.062663185 0.113346644
#> BRAF 0.024778580 0.0012286899 0.013925152 0.025188143
#> CDKN2A 0.043362515 0.0021502073 0.024369017 0.044079250
#> CMTR2 0.105308964 0.0052219321 0.059181897 0.107049608
#> CTNNB1 0.006194645 0.0003071725 0.003481288 0.006297036
#> EGFR 0.185839349 0.0092151743 0.104438642 0.188911074
#> KEAP1 0.123892899 0.0061434495 0.069625762 0.125940716
#> KRAS 0.006194645 0.0003071725 0.003481288 0.006297036
#> MGA 0.154866124 0.0076793119 0.087032202 0.157425895
#> NF1 0.192033994 0.0095223468 0.107919930 0.195208109
#> PIK3CA 0.006194645 0.0003071725 0.003481288 0.006297036
#> PTPRD 0.086725029 0.0043004147 0.048738033 0.088158501
#> PTPRT 0.074335740 0.0036860697 0.041775457 0.075564429
#> RB1 0.117698254 0.0058362771 0.066144473 0.119643680
#> RBM10 0.179644704 0.0089080018 0.100957354 0.182614038
#> SETBP1 0.068141095 0.0033788973 0.038294169 0.069267394
#> SETD2 0.130087544 0.0064506220 0.073107050 0.132237751
#> SMAD4 0.043362515 0.0021502073 0.024369017 0.044079250
#> SMARCA4 0.130087544 0.0064506220 0.073107050 0.132237751
#> STK11 0.315926893 0.0156657963 0.177545692 0.321148825
#> TP53 0.600880561 0.0297957303 0.337684943 0.610812471
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-44-6148-01 TCGA-44-6778-01 TCGA-44-6779-01 TCGA-44-7660-01
#> ARID1A 9.215174e-04 0.035939180 0.011058209 0.039625250
#> ATM 9.215174e-04 0.035939180 0.011058209 0.039625250
#> BRAF 2.047817e-04 0.007986484 0.002457380 0.008805611
#> CDKN2A 3.583679e-04 0.013976348 0.004300415 0.015409819
#> CMTR2 8.703220e-04 0.033942559 0.010443864 0.037423847
#> CTNNB1 5.119541e-05 0.001996621 0.000614345 0.002201403
#> EGFR 1.535862e-03 0.059898633 0.018430349 0.066042083
#> KEAP1 1.023908e-03 0.039932422 0.012286899 0.044028055
#> KRAS 5.119541e-05 0.001996621 0.000614345 0.002201403
#> MGA 1.279885e-03 0.049915528 0.015358624 0.055035069
#> NF1 1.587058e-03 0.061895254 0.019044694 0.068243485
#> PIK3CA 5.119541e-05 0.001996621 0.000614345 0.002201403
#> PTPRD 7.167358e-04 0.027952695 0.008600829 0.030819639
#> PTPRT 6.143450e-04 0.023959453 0.007372139 0.026416833
#> RB1 9.727128e-04 0.037935801 0.011672554 0.041826652
#> RBM10 1.484667e-03 0.057902012 0.017816004 0.063840680
#> SETBP1 5.631495e-04 0.021962832 0.006757795 0.024215430
#> SETD2 1.075104e-03 0.041929043 0.012901244 0.046229458
#> SMAD4 3.583679e-04 0.013976348 0.004300415 0.015409819
#> SMARCA4 1.075104e-03 0.041929043 0.012901244 0.046229458
#> STK11 2.610966e-03 0.101827676 0.031331593 0.112271540
#> TP53 4.965955e-03 0.193672247 0.059591461 0.213536067
#> U2AF1 0.000000e+00 0.000000000 0.000000000 0.000000000
#> TCGA-44-7667-01 TCGA-44-7669-01 TCGA-44-A479-01 TCGA-44-A47B-01
#> ARID1A 0.055291046 0.061741668 0.028567040 0.0064506220
#> ATM 0.055291046 0.061741668 0.028567040 0.0064506220
#> BRAF 0.012286899 0.013720371 0.006348231 0.0014334716
#> CDKN2A 0.021502073 0.024010649 0.011109405 0.0025085752
#> CMTR2 0.052219321 0.058311575 0.026979983 0.0060922541
#> CTNNB1 0.003071725 0.003430093 0.001587058 0.0003583679
#> EGFR 0.092151743 0.102902780 0.047611734 0.0107510367
#> KEAP1 0.061434495 0.068601853 0.031741156 0.0071673578
#> KRAS 0.003071725 0.003430093 0.001587058 0.0003583679
#> MGA 0.076793119 0.085752317 0.039676445 0.0089591973
#> NF1 0.095223468 0.106332873 0.049198792 0.0111094046
#> PIK3CA 0.003071725 0.003430093 0.001587058 0.0003583679
#> PTPRD 0.043004147 0.048021297 0.022218809 0.0050171505
#> PTPRT 0.036860697 0.041161112 0.019044694 0.0043004147
#> RB1 0.058362771 0.065171761 0.030154098 0.0068089899
#> RBM10 0.089080018 0.099472687 0.046024676 0.0103926688
#> SETBP1 0.033788973 0.037731019 0.017457636 0.0039420468
#> SETD2 0.064506220 0.072031946 0.033328214 0.0075257257
#> SMAD4 0.021502073 0.024010649 0.011109405 0.0025085752
#> SMARCA4 0.064506220 0.072031946 0.033328214 0.0075257257
#> STK11 0.156657963 0.174934726 0.080939948 0.0182767624
#> TP53 0.297957303 0.332718988 0.153944607 0.0347616854
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-4487-01 TCGA-49-4501-01 TCGA-49-4512-01 TCGA-49-6742-01
#> ARID1A 0.046997389 0.0064506220 0.0055291046 0.019351866
#> ATM 0.046997389 0.0064506220 0.0055291046 0.019351866
#> BRAF 0.010443864 0.0014334716 0.0012286899 0.004300415
#> CDKN2A 0.018276762 0.0025085752 0.0021502073 0.007525726
#> CMTR2 0.044386423 0.0060922541 0.0052219321 0.018276762
#> CTNNB1 0.002610966 0.0003583679 0.0003071725 0.001075104
#> EGFR 0.078328982 0.0107510367 0.0092151743 0.032253110
#> KEAP1 0.052219321 0.0071673578 0.0061434495 0.021502073
#> KRAS 0.002610966 0.0003583679 0.0003071725 0.001075104
#> MGA 0.065274151 0.0089591973 0.0076793119 0.026877592
#> NF1 0.080939948 0.0111094046 0.0095223468 0.033328214
#> PIK3CA 0.002610966 0.0003583679 0.0003071725 0.001075104
#> PTPRD 0.036553525 0.0050171505 0.0043004147 0.015051451
#> PTPRT 0.031331593 0.0043004147 0.0036860697 0.012901244
#> RB1 0.049608355 0.0068089899 0.0058362771 0.020426970
#> RBM10 0.075718016 0.0103926688 0.0089080018 0.031178006
#> SETBP1 0.028720627 0.0039420468 0.0033788973 0.011826140
#> SETD2 0.054830287 0.0075257257 0.0064506220 0.022577177
#> SMAD4 0.018276762 0.0025085752 0.0021502073 0.007525726
#> SMARCA4 0.054830287 0.0075257257 0.0064506220 0.022577177
#> STK11 0.133159269 0.0182767624 0.0156657963 0.054830287
#> TP53 0.253263708 0.0347616854 0.0297957303 0.104285056
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-49-6743-01 TCGA-49-6761-01 TCGA-49-6767-01 TCGA-49-AAR0-01
#> ARID1A 0.087544156 0.045154354 0.054369528 0.0129012440
#> ATM 0.087544156 0.045154354 0.054369528 0.0129012440
#> BRAF 0.019454257 0.010034301 0.012082117 0.0028669431
#> CDKN2A 0.034044950 0.017560027 0.021143706 0.0050171505
#> CMTR2 0.082680592 0.042645779 0.051348999 0.0121845083
#> CTNNB1 0.004863564 0.002508575 0.003020529 0.0007167358
#> EGFR 0.145906927 0.075257257 0.090615881 0.0215020734
#> KEAP1 0.097271284 0.050171505 0.060410587 0.0143347156
#> KRAS 0.004863564 0.002508575 0.003020529 0.0007167358
#> MGA 0.121589106 0.062714381 0.075513234 0.0179183945
#> NF1 0.150770491 0.077765832 0.093636410 0.0222188092
#> PIK3CA 0.004863564 0.002508575 0.003020529 0.0007167358
#> PTPRD 0.068089899 0.035120053 0.042287411 0.0100343009
#> PTPRT 0.058362771 0.030102903 0.036246352 0.0086008294
#> RB1 0.092407720 0.047662929 0.057390058 0.0136179798
#> RBM10 0.141043363 0.072748682 0.087595351 0.0207853376
#> SETBP1 0.053499206 0.027594328 0.033225823 0.0078840936
#> SETD2 0.102134849 0.052680080 0.063431117 0.0150514514
#> SMAD4 0.034044950 0.017560027 0.021143706 0.0050171505
#> SMARCA4 0.102134849 0.052680080 0.063431117 0.0150514514
#> STK11 0.248041775 0.127937337 0.154046997 0.0365535248
#> TP53 0.471765730 0.243331797 0.292991348 0.0695233707
#> U2AF1 0.000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-49-AAR2-01 TCGA-49-AAR3-01 TCGA-49-AAR4-01 TCGA-49-AARR-01
#> ARID1A 0.048840424 0.0101366918 0.060820151 0
#> ATM 0.048840424 0.0101366918 0.060820151 0
#> BRAF 0.010853428 0.0022525982 0.013515589 0
#> CDKN2A 0.018993498 0.0039420468 0.023652281 0
#> CMTR2 0.046127067 0.0095735422 0.057441253 0
#> CTNNB1 0.002713357 0.0005631495 0.003378897 0
#> EGFR 0.081400706 0.0168944863 0.101366918 0
#> KEAP1 0.054267138 0.0112629908 0.067577945 0
#> KRAS 0.002713357 0.0005631495 0.003378897 0
#> MGA 0.067833922 0.0140787385 0.084472431 0
#> NF1 0.084114063 0.0174576358 0.104745815 0
#> PIK3CA 0.002713357 0.0005631495 0.003378897 0
#> PTPRD 0.037986996 0.0078840936 0.047304562 0
#> PTPRT 0.032560283 0.0067577945 0.040546767 0
#> RB1 0.051553781 0.0106998413 0.064199048 0
#> RBM10 0.078687350 0.0163313367 0.097988020 0
#> SETBP1 0.029846926 0.0061946450 0.037167870 0
#> SETD2 0.056980495 0.0118261404 0.070956842 0
#> SMAD4 0.018993498 0.0039420468 0.023652281 0
#> SMARCA4 0.056980495 0.0118261404 0.070956842 0
#> STK11 0.138381201 0.0287206266 0.172323760 0
#> TP53 0.263195618 0.0546255056 0.327753033 0
#> U2AF1 0.000000000 0.0000000000 0.000000000 0
#> TCGA-50-5045-01 TCGA-50-5049-01 TCGA-50-5055-01 TCGA-50-5072-01
#> ARID1A 0.039625250 0.093994778 0.0018430349 0.025802488
#> ATM 0.039625250 0.093994778 0.0018430349 0.025802488
#> BRAF 0.008805611 0.020887728 0.0004095633 0.005733886
#> CDKN2A 0.015409819 0.036553525 0.0007167358 0.010034301
#> CMTR2 0.037423847 0.088772846 0.0017406440 0.024369017
#> CTNNB1 0.002201403 0.005221932 0.0001023908 0.001433472
#> EGFR 0.066042083 0.156657963 0.0030717248 0.043004147
#> KEAP1 0.044028055 0.104438642 0.0020478165 0.028669431
#> KRAS 0.002201403 0.005221932 0.0001023908 0.001433472
#> MGA 0.055035069 0.130548303 0.0025597706 0.035836789
#> NF1 0.068243485 0.161879896 0.0031741156 0.044437618
#> PIK3CA 0.002201403 0.005221932 0.0001023908 0.001433472
#> PTPRD 0.030819639 0.073107050 0.0014334716 0.020068602
#> PTPRT 0.026416833 0.062663185 0.0012286899 0.017201659
#> RB1 0.041826652 0.099216710 0.0019454257 0.027235960
#> RBM10 0.063840680 0.151436031 0.0029693339 0.041570675
#> SETBP1 0.024215430 0.057441253 0.0011262991 0.015768187
#> SETD2 0.046229458 0.109660574 0.0021502073 0.030102903
#> SMAD4 0.015409819 0.036553525 0.0007167358 0.010034301
#> SMARCA4 0.046229458 0.109660574 0.0021502073 0.030102903
#> STK11 0.112271540 0.266318538 0.0052219321 0.073107050
#> TP53 0.213536067 0.506527415 0.0099319101 0.139046741
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-50-5931-01 TCGA-50-5935-01 TCGA-50-6590-01 TCGA-50-6597-01
#> ARID1A 0.036860697 0.0082936569 0.087544156 0.0092151743
#> ATM 0.036860697 0.0082936569 0.087544156 0.0092151743
#> BRAF 0.008191266 0.0018430349 0.019454257 0.0020478165
#> CDKN2A 0.014334716 0.0032253110 0.034044950 0.0035836789
#> CMTR2 0.034812881 0.0078328982 0.082680592 0.0087032202
#> CTNNB1 0.002047817 0.0004607587 0.004863564 0.0005119541
#> EGFR 0.061434495 0.0138227615 0.145906927 0.0153586239
#> KEAP1 0.040956330 0.0092151743 0.097271284 0.0102390826
#> KRAS 0.002047817 0.0004607587 0.004863564 0.0005119541
#> MGA 0.051195413 0.0115189679 0.121589106 0.0127988532
#> NF1 0.063482312 0.0142835202 0.150770491 0.0158705780
#> PIK3CA 0.002047817 0.0004607587 0.004863564 0.0005119541
#> PTPRD 0.028669431 0.0064506220 0.068089899 0.0071673578
#> PTPRT 0.024573798 0.0055291046 0.058362771 0.0061434495
#> RB1 0.038908514 0.0087544156 0.092407720 0.0097271284
#> RBM10 0.059386679 0.0133620028 0.141043363 0.0148466697
#> SETBP1 0.022525982 0.0050683459 0.053499206 0.0056314954
#> SETD2 0.043004147 0.0096759330 0.102134849 0.0107510367
#> SMAD4 0.014334716 0.0032253110 0.034044950 0.0035836789
#> SMARCA4 0.043004147 0.0096759330 0.102134849 0.0107510367
#> STK11 0.104438642 0.0234986945 0.248041775 0.0261096606
#> TP53 0.198638202 0.0446935955 0.471765730 0.0496595505
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-50-8457-01 TCGA-53-7624-01 TCGA-55-1594-01 TCGA-55-5899-01
#> ARID1A 0.011058209 0.083858086 0.0175088312 0.044232837
#> ATM 0.011058209 0.083858086 0.0175088312 0.044232837
#> BRAF 0.002457380 0.018635130 0.0038908514 0.009829519
#> CDKN2A 0.004300415 0.032611478 0.0068089899 0.017201659
#> CMTR2 0.010443864 0.079199304 0.0165361184 0.041775457
#> CTNNB1 0.000614345 0.004658783 0.0009727128 0.002457380
#> EGFR 0.018430349 0.139763477 0.0291813853 0.073721395
#> KEAP1 0.012286899 0.093175651 0.0194542569 0.049147596
#> KRAS 0.000614345 0.004658783 0.0009727128 0.002457380
#> MGA 0.015358624 0.116469564 0.0243178211 0.061434495
#> NF1 0.019044694 0.144422260 0.0301540982 0.076178774
#> PIK3CA 0.000614345 0.004658783 0.0009727128 0.002457380
#> PTPRD 0.008600829 0.065222956 0.0136179798 0.034403317
#> PTPRT 0.007372139 0.055905391 0.0116725541 0.029488558
#> RB1 0.011672554 0.088516869 0.0184815441 0.046690217
#> RBM10 0.017816004 0.135104695 0.0282086725 0.071264015
#> SETBP1 0.006757795 0.051246608 0.0106998413 0.027031178
#> SETD2 0.012901244 0.097834434 0.0204269697 0.051604976
#> SMAD4 0.004300415 0.032611478 0.0068089899 0.017201659
#> SMARCA4 0.012901244 0.097834434 0.0204269697 0.051604976
#> STK11 0.031331593 0.237597911 0.0496083551 0.125326371
#> TP53 0.059591461 0.451901910 0.0943531460 0.238365842
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-55-6543-01 TCGA-55-6712-01 TCGA-55-6971-01 TCGA-55-6972-01
#> ARID1A 0.0036860697 0.024880971 0.025802488 0.033174628
#> ATM 0.0036860697 0.024880971 0.025802488 0.033174628
#> BRAF 0.0008191266 0.005529105 0.005733886 0.007372139
#> CDKN2A 0.0014334716 0.009675933 0.010034301 0.012901244
#> CMTR2 0.0034812881 0.023498695 0.024369017 0.031331593
#> CTNNB1 0.0002047817 0.001382276 0.001433472 0.001843035
#> EGFR 0.0061434495 0.041468284 0.043004147 0.055291046
#> KEAP1 0.0040956330 0.027645523 0.028669431 0.036860697
#> KRAS 0.0002047817 0.001382276 0.001433472 0.001843035
#> MGA 0.0051195413 0.034556904 0.035836789 0.046075872
#> NF1 0.0063482312 0.042850561 0.044437618 0.057134081
#> PIK3CA 0.0002047817 0.001382276 0.001433472 0.001843035
#> PTPRD 0.0028669431 0.019351866 0.020068602 0.025802488
#> PTPRT 0.0024573798 0.016587314 0.017201659 0.022116418
#> RB1 0.0038908514 0.026263247 0.027235960 0.035017662
#> RBM10 0.0059386679 0.040086008 0.041570675 0.053448011
#> SETBP1 0.0022525982 0.015205038 0.015768187 0.020273384
#> SETD2 0.0043004147 0.029027799 0.030102903 0.038703732
#> SMAD4 0.0014334716 0.009675933 0.010034301 0.012901244
#> SMARCA4 0.0043004147 0.029027799 0.030102903 0.038703732
#> STK11 0.0104438642 0.070496084 0.073107050 0.093994778
#> TP53 0.0198638202 0.134080786 0.139046741 0.178774382
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-55-6978-01 TCGA-55-6980-01 TCGA-55-6982-01 TCGA-55-6985-01
#> ARID1A 0.0073721395 0.0036860697 0.0175088312 0.048840424
#> ATM 0.0073721395 0.0036860697 0.0175088312 0.048840424
#> BRAF 0.0016382532 0.0008191266 0.0038908514 0.010853428
#> CDKN2A 0.0028669431 0.0014334716 0.0068089899 0.018993498
#> CMTR2 0.0069625762 0.0034812881 0.0165361184 0.046127067
#> CTNNB1 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> EGFR 0.0122868991 0.0061434495 0.0291813853 0.081400706
#> KEAP1 0.0081912661 0.0040956330 0.0194542569 0.054267138
#> KRAS 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> MGA 0.0102390826 0.0051195413 0.0243178211 0.067833922
#> NF1 0.0126964624 0.0063482312 0.0301540982 0.084114063
#> PIK3CA 0.0004095633 0.0002047817 0.0009727128 0.002713357
#> PTPRD 0.0057338862 0.0028669431 0.0136179798 0.037986996
#> PTPRT 0.0049147596 0.0024573798 0.0116725541 0.032560283
#> RB1 0.0077817028 0.0038908514 0.0184815441 0.051553781
#> RBM10 0.0118773358 0.0059386679 0.0282086725 0.078687350
#> SETBP1 0.0045051963 0.0022525982 0.0106998413 0.029846926
#> SETD2 0.0086008294 0.0043004147 0.0204269697 0.056980495
#> SMAD4 0.0028669431 0.0014334716 0.0068089899 0.018993498
#> SMARCA4 0.0086008294 0.0043004147 0.0204269697 0.056980495
#> STK11 0.0208877285 0.0104438642 0.0496083551 0.138381201
#> TP53 0.0397276404 0.0198638202 0.0943531460 0.263195618
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-55-6986-01 TCGA-55-6987-01 TCGA-55-7574-01 TCGA-55-8087-01
#> ARID1A 0.0027645523 0.025802488 0.024880971 0.0046075872
#> ATM 0.0027645523 0.025802488 0.024880971 0.0046075872
#> BRAF 0.0006143450 0.005733886 0.005529105 0.0010239083
#> CDKN2A 0.0010751037 0.010034301 0.009675933 0.0017918395
#> CMTR2 0.0026109661 0.024369017 0.023498695 0.0043516101
#> CTNNB1 0.0001535862 0.001433472 0.001382276 0.0002559771
#> EGFR 0.0046075872 0.043004147 0.041468284 0.0076793119
#> KEAP1 0.0030717248 0.028669431 0.027645523 0.0051195413
#> KRAS 0.0001535862 0.001433472 0.001382276 0.0002559771
#> MGA 0.0038396560 0.035836789 0.034556904 0.0063994266
#> NF1 0.0047611734 0.044437618 0.042850561 0.0079352890
#> PIK3CA 0.0001535862 0.001433472 0.001382276 0.0002559771
#> PTPRD 0.0021502073 0.020068602 0.019351866 0.0035836789
#> PTPRT 0.0018430349 0.017201659 0.016587314 0.0030717248
#> RB1 0.0029181385 0.027235960 0.026263247 0.0048635642
#> RBM10 0.0044540009 0.041570675 0.040086008 0.0074233349
#> SETBP1 0.0016894486 0.015768187 0.015205038 0.0028157477
#> SETD2 0.0032253110 0.030102903 0.029027799 0.0053755184
#> SMAD4 0.0010751037 0.010034301 0.009675933 0.0017918395
#> SMARCA4 0.0032253110 0.030102903 0.029027799 0.0053755184
#> STK11 0.0078328982 0.073107050 0.070496084 0.0130548303
#> TP53 0.0148978652 0.139046741 0.134080786 0.0248297753
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-55-8091-01 TCGA-55-8204-01 TCGA-55-8206-01 TCGA-55-8507-01
#> ARID1A 9.215174e-04 0.020273384 0.0046075872 0.1004454
#> ATM 9.215174e-04 0.020273384 0.0046075872 0.1004454
#> BRAF 2.047817e-04 0.004505196 0.0010239083 0.0223212
#> CDKN2A 3.583679e-04 0.007884094 0.0017918395 0.0390621
#> CMTR2 8.703220e-04 0.019147084 0.0043516101 0.0948651
#> CTNNB1 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> EGFR 1.535862e-03 0.033788973 0.0076793119 0.1674090
#> KEAP1 1.023908e-03 0.022525982 0.0051195413 0.1116060
#> KRAS 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> MGA 1.279885e-03 0.028157477 0.0063994266 0.1395075
#> NF1 1.587058e-03 0.034915272 0.0079352890 0.1729893
#> PIK3CA 5.119541e-05 0.001126299 0.0002559771 0.0055803
#> PTPRD 7.167358e-04 0.015768187 0.0035836789 0.0781242
#> PTPRT 6.143450e-04 0.013515589 0.0030717248 0.0669636
#> RB1 9.727128e-04 0.021399683 0.0048635642 0.1060257
#> RBM10 1.484667e-03 0.032662673 0.0074233349 0.1618287
#> SETBP1 5.631495e-04 0.012389290 0.0028157477 0.0613833
#> SETD2 1.075104e-03 0.023652281 0.0053755184 0.1171863
#> SMAD4 3.583679e-04 0.007884094 0.0017918395 0.0390621
#> SMARCA4 1.075104e-03 0.023652281 0.0053755184 0.1171863
#> STK11 2.610966e-03 0.057441253 0.0130548303 0.2845953
#> TP53 4.965955e-03 0.109251011 0.0248297753 0.5412891
#> U2AF1 0.000000e+00 0.000000000 0.0000000000 0.0000000
#> TCGA-55-8510-01 TCGA-55-8513-01 TCGA-55-8619-01 TCGA-55-8621-01
#> ARID1A 0.034096145 0 0.0018430349 0.0082936569
#> ATM 0.034096145 0 0.0018430349 0.0082936569
#> BRAF 0.007576921 0 0.0004095633 0.0018430349
#> CDKN2A 0.013259612 0 0.0007167358 0.0032253110
#> CMTR2 0.032201915 0 0.0017406440 0.0078328982
#> CTNNB1 0.001894230 0 0.0001023908 0.0004607587
#> EGFR 0.056826908 0 0.0030717248 0.0138227615
#> KEAP1 0.037884606 0 0.0020478165 0.0092151743
#> KRAS 0.001894230 0 0.0001023908 0.0004607587
#> MGA 0.047355757 0 0.0025597706 0.0115189679
#> NF1 0.058721139 0 0.0031741156 0.0142835202
#> PIK3CA 0.001894230 0 0.0001023908 0.0004607587
#> PTPRD 0.026519224 0 0.0014334716 0.0064506220
#> PTPRT 0.022730763 0 0.0012286899 0.0055291046
#> RB1 0.035990375 0 0.0019454257 0.0087544156
#> RBM10 0.054932678 0 0.0029693339 0.0133620028
#> SETBP1 0.020836533 0 0.0011262991 0.0050683459
#> SETD2 0.039778836 0 0.0021502073 0.0096759330
#> SMAD4 0.013259612 0 0.0007167358 0.0032253110
#> SMARCA4 0.039778836 0 0.0021502073 0.0096759330
#> STK11 0.096605744 0 0.0052219321 0.0234986945
#> TP53 0.183740337 0 0.0099319101 0.0446935955
#> U2AF1 0.000000000 0 0.0000000000 0.0000000000
#> TCGA-55-A4DF-01 TCGA-62-8397-01 TCGA-62-A46O-01 TCGA-62-A46P-01
#> ARID1A 0.082015051 0.0055291046 0.103209952 0.031331593
#> ATM 0.082015051 0.0055291046 0.103209952 0.031331593
#> BRAF 0.018225567 0.0012286899 0.022935545 0.006962576
#> CDKN2A 0.031894742 0.0021502073 0.040137204 0.012184508
#> CMTR2 0.077458660 0.0052219321 0.097476066 0.029590949
#> CTNNB1 0.004556392 0.0003071725 0.005733886 0.001740644
#> EGFR 0.136691752 0.0092151743 0.172016587 0.052219321
#> KEAP1 0.091127835 0.0061434495 0.114677725 0.034812881
#> KRAS 0.004556392 0.0003071725 0.005733886 0.001740644
#> MGA 0.113909794 0.0076793119 0.143347156 0.043516101
#> NF1 0.141248144 0.0095223468 0.177750474 0.053959965
#> PIK3CA 0.004556392 0.0003071725 0.005733886 0.001740644
#> PTPRD 0.063789484 0.0043004147 0.080274407 0.024369017
#> PTPRT 0.054676701 0.0036860697 0.068806635 0.020887728
#> RB1 0.086571443 0.0058362771 0.108943839 0.033072237
#> RBM10 0.132135361 0.0089080018 0.166282701 0.050478677
#> SETBP1 0.050120309 0.0033788973 0.063072749 0.019147084
#> SETD2 0.095684227 0.0064506220 0.120411611 0.036553525
#> SMAD4 0.031894742 0.0021502073 0.040137204 0.012184508
#> SMARCA4 0.095684227 0.0064506220 0.120411611 0.036553525
#> STK11 0.232375979 0.0156657963 0.292428198 0.088772846
#> TP53 0.441969999 0.0297957303 0.556186966 0.168842472
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.000000000
#> TCGA-62-A46Y-01 TCGA-64-5779-01 TCGA-64-5781-01 TCGA-69-7760-01
#> ARID1A 0.0082936569 0.036860697 0.138227615 0.011058209
#> ATM 0.0082936569 0.036860697 0.138227615 0.011058209
#> BRAF 0.0018430349 0.008191266 0.030717248 0.002457380
#> CDKN2A 0.0032253110 0.014334716 0.053755184 0.004300415
#> CMTR2 0.0078328982 0.034812881 0.130548303 0.010443864
#> CTNNB1 0.0004607587 0.002047817 0.007679312 0.000614345
#> EGFR 0.0138227615 0.061434495 0.230379358 0.018430349
#> KEAP1 0.0092151743 0.040956330 0.153586239 0.012286899
#> KRAS 0.0004607587 0.002047817 0.007679312 0.000614345
#> MGA 0.0115189679 0.051195413 0.191982798 0.015358624
#> NF1 0.0142835202 0.063482312 0.238058670 0.019044694
#> PIK3CA 0.0004607587 0.002047817 0.007679312 0.000614345
#> PTPRD 0.0064506220 0.028669431 0.107510367 0.008600829
#> PTPRT 0.0055291046 0.024573798 0.092151743 0.007372139
#> RB1 0.0087544156 0.038908514 0.145906927 0.011672554
#> RBM10 0.0133620028 0.059386679 0.222700046 0.017816004
#> SETBP1 0.0050683459 0.022525982 0.084472431 0.006757795
#> SETD2 0.0096759330 0.043004147 0.161265551 0.012901244
#> SMAD4 0.0032253110 0.014334716 0.053755184 0.004300415
#> SMARCA4 0.0096759330 0.043004147 0.161265551 0.012901244
#> STK11 0.0234986945 0.104438642 0.391644909 0.031331593
#> TP53 0.0446935955 0.198638202 0.744893258 0.059591461
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.000000000
#> TCGA-69-7761-01 TCGA-69-7763-01 TCGA-69-7764-01 TCGA-69-7979-01
#> ARID1A 0.0064506220 0.0082936569 0.0073721395 0.170480725
#> ATM 0.0064506220 0.0082936569 0.0073721395 0.170480725
#> BRAF 0.0014334716 0.0018430349 0.0016382532 0.037884606
#> CDKN2A 0.0025085752 0.0032253110 0.0028669431 0.066298060
#> CMTR2 0.0060922541 0.0078328982 0.0069625762 0.161009574
#> CTNNB1 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> EGFR 0.0107510367 0.0138227615 0.0122868991 0.284134542
#> KEAP1 0.0071673578 0.0092151743 0.0081912661 0.189423028
#> KRAS 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> MGA 0.0089591973 0.0115189679 0.0102390826 0.236778785
#> NF1 0.0111094046 0.0142835202 0.0126964624 0.293605693
#> PIK3CA 0.0003583679 0.0004607587 0.0004095633 0.009471151
#> PTPRD 0.0050171505 0.0064506220 0.0057338862 0.132596119
#> PTPRT 0.0043004147 0.0055291046 0.0049147596 0.113653817
#> RB1 0.0068089899 0.0087544156 0.0077817028 0.179951876
#> RBM10 0.0103926688 0.0133620028 0.0118773358 0.274663390
#> SETBP1 0.0039420468 0.0050683459 0.0045051963 0.104182665
#> SETD2 0.0075257257 0.0096759330 0.0086008294 0.198894179
#> SMAD4 0.0025085752 0.0032253110 0.0028669431 0.066298060
#> SMARCA4 0.0075257257 0.0096759330 0.0086008294 0.198894179
#> STK11 0.0182767624 0.0234986945 0.0208877285 0.483028721
#> TP53 0.0347616854 0.0446935955 0.0397276404 0.918701684
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-69-8255-01 TCGA-69-A59K-01 TCGA-71-6725-01 TCGA-73-4659-01
#> ARID1A 0.039625250 0.05621256 0.0018430349 0.026724006
#> ATM 0.039625250 0.05621256 0.0018430349 0.026724006
#> BRAF 0.008805611 0.01249168 0.0004095633 0.005938668
#> CDKN2A 0.015409819 0.02186044 0.0007167358 0.010392669
#> CMTR2 0.037423847 0.05308964 0.0017406440 0.025239339
#> CTNNB1 0.002201403 0.00312292 0.0001023908 0.001484667
#> EGFR 0.066042083 0.09368761 0.0030717248 0.044540009
#> KEAP1 0.044028055 0.06245840 0.0020478165 0.029693339
#> KRAS 0.002201403 0.00312292 0.0001023908 0.001484667
#> MGA 0.055035069 0.07807300 0.0025597706 0.037116674
#> NF1 0.068243485 0.09681053 0.0031741156 0.046024676
#> PIK3CA 0.002201403 0.00312292 0.0001023908 0.001484667
#> PTPRD 0.030819639 0.04372088 0.0014334716 0.020785338
#> PTPRT 0.026416833 0.03747504 0.0012286899 0.017816004
#> RB1 0.041826652 0.05933548 0.0019454257 0.028208673
#> RBM10 0.063840680 0.09056469 0.0029693339 0.043055342
#> SETBP1 0.024215430 0.03435212 0.0011262991 0.016331337
#> SETD2 0.046229458 0.06558132 0.0021502073 0.031178006
#> SMAD4 0.015409819 0.02186044 0.0007167358 0.010392669
#> SMARCA4 0.046229458 0.06558132 0.0021502073 0.031178006
#> STK11 0.112271540 0.15926893 0.0052219321 0.075718016
#> TP53 0.213536067 0.30292326 0.0099319101 0.144012696
#> U2AF1 0.000000000 0.00000000 0.0000000000 0.000000000
#> TCGA-73-4668-01 TCGA-73-4675-01 TCGA-75-5122-01 TCGA-75-5125-01
#> ARID1A 0.072799877 0.0138227615 0.0101366918 0.023959453
#> ATM 0.072799877 0.0138227615 0.0101366918 0.023959453
#> BRAF 0.016177750 0.0030717248 0.0022525982 0.005324323
#> CDKN2A 0.028311063 0.0053755184 0.0039420468 0.009317565
#> CMTR2 0.068755440 0.0130548303 0.0095735422 0.022628372
#> CTNNB1 0.004044438 0.0007679312 0.0005631495 0.001331081
#> EGFR 0.121333129 0.0230379358 0.0168944863 0.039932422
#> KEAP1 0.080888752 0.0153586239 0.0112629908 0.026621615
#> KRAS 0.004044438 0.0007679312 0.0005631495 0.001331081
#> MGA 0.101110940 0.0191982798 0.0140787385 0.033277018
#> NF1 0.125377566 0.0238058670 0.0174576358 0.041263503
#> PIK3CA 0.004044438 0.0007679312 0.0005631495 0.001331081
#> PTPRD 0.056622127 0.0107510367 0.0078840936 0.018635130
#> PTPRT 0.048533251 0.0092151743 0.0067577945 0.015972969
#> RB1 0.076844315 0.0145906927 0.0106998413 0.025290534
#> RBM10 0.117288691 0.0222700046 0.0163313367 0.038601341
#> SETBP1 0.044488814 0.0084472431 0.0061946450 0.014641888
#> SETD2 0.084933190 0.0161265551 0.0118261404 0.027952695
#> SMAD4 0.028311063 0.0053755184 0.0039420468 0.009317565
#> SMARCA4 0.084933190 0.0161265551 0.0118261404 0.027952695
#> STK11 0.206266319 0.0391644909 0.0287206266 0.067885117
#> TP53 0.392310449 0.0744893258 0.0546255056 0.129114831
#> U2AF1 0.000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-75-6203-01 TCGA-75-6205-01 TCGA-75-6207-01 TCGA-75-6212-01
#> ARID1A 9.215174e-04 0.0036860697 0.0073721395 0.0046075872
#> ATM 9.215174e-04 0.0036860697 0.0073721395 0.0046075872
#> BRAF 2.047817e-04 0.0008191266 0.0016382532 0.0010239083
#> CDKN2A 3.583679e-04 0.0014334716 0.0028669431 0.0017918395
#> CMTR2 8.703220e-04 0.0034812881 0.0069625762 0.0043516101
#> CTNNB1 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> EGFR 1.535862e-03 0.0061434495 0.0122868991 0.0076793119
#> KEAP1 1.023908e-03 0.0040956330 0.0081912661 0.0051195413
#> KRAS 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> MGA 1.279885e-03 0.0051195413 0.0102390826 0.0063994266
#> NF1 1.587058e-03 0.0063482312 0.0126964624 0.0079352890
#> PIK3CA 5.119541e-05 0.0002047817 0.0004095633 0.0002559771
#> PTPRD 7.167358e-04 0.0028669431 0.0057338862 0.0035836789
#> PTPRT 6.143450e-04 0.0024573798 0.0049147596 0.0030717248
#> RB1 9.727128e-04 0.0038908514 0.0077817028 0.0048635642
#> RBM10 1.484667e-03 0.0059386679 0.0118773358 0.0074233349
#> SETBP1 5.631495e-04 0.0022525982 0.0045051963 0.0028157477
#> SETD2 1.075104e-03 0.0043004147 0.0086008294 0.0053755184
#> SMAD4 3.583679e-04 0.0014334716 0.0028669431 0.0017918395
#> SMARCA4 1.075104e-03 0.0043004147 0.0086008294 0.0053755184
#> STK11 2.610966e-03 0.0104438642 0.0208877285 0.0130548303
#> TP53 4.965955e-03 0.0198638202 0.0397276404 0.0248297753
#> U2AF1 0.000000e+00 0.0000000000 0.0000000000 0.0000000000
#> TCGA-75-7025-01 TCGA-75-7031-01 TCGA-78-7154-01 TCGA-78-7156-01
#> ARID1A 0.0055291046 0.026724006 0.0175088312 0.046075872
#> ATM 0.0055291046 0.026724006 0.0175088312 0.046075872
#> BRAF 0.0012286899 0.005938668 0.0038908514 0.010239083
#> CDKN2A 0.0021502073 0.010392669 0.0068089899 0.017918395
#> CMTR2 0.0052219321 0.025239339 0.0165361184 0.043516101
#> CTNNB1 0.0003071725 0.001484667 0.0009727128 0.002559771
#> EGFR 0.0092151743 0.044540009 0.0291813853 0.076793119
#> KEAP1 0.0061434495 0.029693339 0.0194542569 0.051195413
#> KRAS 0.0003071725 0.001484667 0.0009727128 0.002559771
#> MGA 0.0076793119 0.037116674 0.0243178211 0.063994266
#> NF1 0.0095223468 0.046024676 0.0301540982 0.079352890
#> PIK3CA 0.0003071725 0.001484667 0.0009727128 0.002559771
#> PTPRD 0.0043004147 0.020785338 0.0136179798 0.035836789
#> PTPRT 0.0036860697 0.017816004 0.0116725541 0.030717248
#> RB1 0.0058362771 0.028208673 0.0184815441 0.048635642
#> RBM10 0.0089080018 0.043055342 0.0282086725 0.074233349
#> SETBP1 0.0033788973 0.016331337 0.0106998413 0.028157477
#> SETD2 0.0064506220 0.031178006 0.0204269697 0.053755184
#> SMAD4 0.0021502073 0.010392669 0.0068089899 0.017918395
#> SMARCA4 0.0064506220 0.031178006 0.0204269697 0.053755184
#> STK11 0.0156657963 0.075718016 0.0496083551 0.130548303
#> TP53 0.0297957303 0.144012696 0.0943531460 0.248297753
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-78-7162-01 TCGA-78-7163-01 TCGA-78-7535-01 TCGA-78-7536-01
#> ARID1A 0.0055291046 0.0092151743 0.0129012440 0.077407464
#> ATM 0.0055291046 0.0092151743 0.0129012440 0.077407464
#> BRAF 0.0012286899 0.0020478165 0.0028669431 0.017201659
#> CDKN2A 0.0021502073 0.0035836789 0.0050171505 0.030102903
#> CMTR2 0.0052219321 0.0087032202 0.0121845083 0.073107050
#> CTNNB1 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> EGFR 0.0092151743 0.0153586239 0.0215020734 0.129012440
#> KEAP1 0.0061434495 0.0102390826 0.0143347156 0.086008294
#> KRAS 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> MGA 0.0076793119 0.0127988532 0.0179183945 0.107510367
#> NF1 0.0095223468 0.0158705780 0.0222188092 0.133312855
#> PIK3CA 0.0003071725 0.0005119541 0.0007167358 0.004300415
#> PTPRD 0.0043004147 0.0071673578 0.0100343009 0.060205806
#> PTPRT 0.0036860697 0.0061434495 0.0086008294 0.051604976
#> RB1 0.0058362771 0.0097271284 0.0136179798 0.081707879
#> RBM10 0.0089080018 0.0148466697 0.0207853376 0.124712026
#> SETBP1 0.0033788973 0.0056314954 0.0078840936 0.047304562
#> SETD2 0.0064506220 0.0107510367 0.0150514514 0.090308708
#> SMAD4 0.0021502073 0.0035836789 0.0050171505 0.030102903
#> SMARCA4 0.0064506220 0.0107510367 0.0150514514 0.090308708
#> STK11 0.0156657963 0.0261096606 0.0365535248 0.219321149
#> TP53 0.0297957303 0.0496595505 0.0695233707 0.417140224
#> U2AF1 0.0000000000 0.0000000000 0.0000000000 0.000000000
#> TCGA-78-7542-01 TCGA-78-8648-01 TCGA-80-5611-01 TCGA-86-6562-01
#> ARID1A 0.039625250 0.0018430349 0.020273384 0.0046075872
#> ATM 0.039625250 0.0018430349 0.020273384 0.0046075872
#> BRAF 0.008805611 0.0004095633 0.004505196 0.0010239083
#> CDKN2A 0.015409819 0.0007167358 0.007884094 0.0017918395
#> CMTR2 0.037423847 0.0017406440 0.019147084 0.0043516101
#> CTNNB1 0.002201403 0.0001023908 0.001126299 0.0002559771
#> EGFR 0.066042083 0.0030717248 0.033788973 0.0076793119
#> KEAP1 0.044028055 0.0020478165 0.022525982 0.0051195413
#> KRAS 0.002201403 0.0001023908 0.001126299 0.0002559771
#> MGA 0.055035069 0.0025597706 0.028157477 0.0063994266
#> NF1 0.068243485 0.0031741156 0.034915272 0.0079352890
#> PIK3CA 0.002201403 0.0001023908 0.001126299 0.0002559771
#> PTPRD 0.030819639 0.0014334716 0.015768187 0.0035836789
#> PTPRT 0.026416833 0.0012286899 0.013515589 0.0030717248
#> RB1 0.041826652 0.0019454257 0.021399683 0.0048635642
#> RBM10 0.063840680 0.0029693339 0.032662673 0.0074233349
#> SETBP1 0.024215430 0.0011262991 0.012389290 0.0028157477
#> SETD2 0.046229458 0.0021502073 0.023652281 0.0053755184
#> SMAD4 0.015409819 0.0007167358 0.007884094 0.0017918395
#> SMARCA4 0.046229458 0.0021502073 0.023652281 0.0053755184
#> STK11 0.112271540 0.0052219321 0.057441253 0.0130548303
#> TP53 0.213536067 0.0099319101 0.109251011 0.0248297753
#> U2AF1 0.000000000 0.0000000000 0.000000000 0.0000000000
#> TCGA-86-7701-01 TCGA-86-7955-01 TCGA-86-8073-01 TCGA-86-8358-01
#> ARID1A 0.049761941 0.035939180 0.154814929 0.121640301
#> ATM 0.049761941 0.035939180 0.154814929 0.121640301
#> BRAF 0.011058209 0.007986484 0.034403317 0.027031178
#> CDKN2A 0.019351866 0.013976348 0.060205806 0.047304562
#> CMTR2 0.046997389 0.033942559 0.146214099 0.114882507
#> CTNNB1 0.002764552 0.001996621 0.008600829 0.006757795
#> EGFR 0.082936569 0.059898633 0.258024881 0.202733835
#> KEAP1 0.055291046 0.039932422 0.172016587 0.135155890
#> KRAS 0.002764552 0.001996621 0.008600829 0.006757795
#> MGA 0.069113807 0.049915528 0.215020734 0.168944863
#> NF1 0.085701121 0.061895254 0.266625710 0.209491630
#> PIK3CA 0.002764552 0.001996621 0.008600829 0.006757795
#> PTPRD 0.038703732 0.027952695 0.120411611 0.094609123
#> PTPRT 0.033174628 0.023959453 0.103209952 0.081093534
#> RB1 0.052526494 0.037935801 0.163415758 0.128398096
#> RBM10 0.080172017 0.057902012 0.249424052 0.195976041
#> SETBP1 0.030410075 0.021962832 0.094609123 0.074335740
#> SETD2 0.058055598 0.041929043 0.180617417 0.141913685
#> SMAD4 0.019351866 0.013976348 0.060205806 0.047304562
#> SMARCA4 0.058055598 0.041929043 0.180617417 0.141913685
#> STK11 0.140992167 0.101827676 0.438642298 0.344647520
#> TP53 0.268161573 0.193672247 0.834280448 0.655506067
#> U2AF1 0.000000000 0.000000000 0.000000000 0.000000000
#> TCGA-86-8669-01 TCGA-86-8671-01 TCGA-86-8672-01 TCGA-86-A4P8-01
#> ARID1A 0.015665796 0.0018430349 0.037782215 0
#> ATM 0.015665796 0.0018430349 0.037782215 0
#> BRAF 0.003481288 0.0004095633 0.008396048 0
#> CDKN2A 0.006092254 0.0007167358 0.014693083 0
#> CMTR2 0.014795474 0.0017406440 0.035683203 0
#> CTNNB1 0.000870322 0.0001023908 0.002099012 0
#> EGFR 0.026109661 0.0030717248 0.062970358 0
#> KEAP1 0.017406440 0.0020478165 0.041980239 0
#> KRAS 0.000870322 0.0001023908 0.002099012 0
#> MGA 0.021758050 0.0025597706 0.052475298 0
#> NF1 0.026979983 0.0031741156 0.065069370 0
#> PIK3CA 0.000870322 0.0001023908 0.002099012 0
#> PTPRD 0.012184508 0.0014334716 0.029386167 0
#> PTPRT 0.010443864 0.0012286899 0.025188143 0
#> RB1 0.016536118 0.0019454257 0.039881227 0
#> RBM10 0.025239339 0.0029693339 0.060871346 0
#> SETBP1 0.009573542 0.0011262991 0.023089131 0
#> SETD2 0.018276762 0.0021502073 0.044079250 0
#> SMAD4 0.006092254 0.0007167358 0.014693083 0
#> SMARCA4 0.018276762 0.0021502073 0.044079250 0
#> STK11 0.044386423 0.0052219321 0.107049608 0
#> TP53 0.084421236 0.0099319101 0.203604157 0
#> U2AF1 0.000000000 0.0000000000 0.000000000 0
#> TCGA-91-6831-01 TCGA-91-7771-01 TCGA-91-8496-01 TCGA-91-8497-01
#> ARID1A 0.030410075 0.018430349 0.0073721395 0.0036860697
#> ATM 0.030410075 0.018430349 0.0073721395 0.0036860697
#> BRAF 0.006757795 0.004095633 0.0016382532 0.0008191266
#> CDKN2A 0.011826140 0.007167358 0.0028669431 0.0014334716
#> CMTR2 0.028720627 0.017406440 0.0069625762 0.0034812881
#> CTNNB1 0.001689449 0.001023908 0.0004095633 0.0002047817
#> EGFR 0.050683459 0.030717248 0.0122868991 0.0061434495
#> KEAP1 0.033788973 0.020478165 0.0081912661 0.0040956330
#> KRAS 0.001689449 0.001023908 0.0004095633 0.0002047817
#> MGA 0.042236216 0.025597706 0.0102390826 0.0051195413
#> NF1 0.052372907 0.031741156 0.0126964624 0.0063482312
#> PIK3CA 0.001689449 0.001023908 0.0004095633 0.0002047817
#> PTPRD 0.023652281 0.014334716 0.0057338862 0.0028669431
#> PTPRT 0.020273384 0.012286899 0.0049147596 0.0024573798
#> RB1 0.032099524 0.019454257 0.0077817028 0.0038908514
#> RBM10 0.048994010 0.029693339 0.0118773358 0.0059386679
#> SETBP1 0.018583935 0.011262991 0.0045051963 0.0022525982
#> SETD2 0.035478421 0.021502073 0.0086008294 0.0043004147
#> SMAD4 0.011826140 0.007167358 0.0028669431 0.0014334716
#> SMARCA4 0.035478421 0.021502073 0.0086008294 0.0043004147
#> STK11 0.086161880 0.052219321 0.0208877285 0.0104438642
#> TP53 0.163876517 0.099319101 0.0397276404 0.0198638202
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-91-8499-01 TCGA-91-A4BC-01 TCGA-93-A4JQ-01 TCGA-95-8039-01
#> ARID1A 0.040546767 0.050683459 0.0073721395 0.011058209
#> ATM 0.040546767 0.050683459 0.0073721395 0.011058209
#> BRAF 0.009010393 0.011262991 0.0016382532 0.002457380
#> CDKN2A 0.015768187 0.019710234 0.0028669431 0.004300415
#> CMTR2 0.038294169 0.047867711 0.0069625762 0.010443864
#> CTNNB1 0.002252598 0.002815748 0.0004095633 0.000614345
#> EGFR 0.067577945 0.084472431 0.0122868991 0.018430349
#> KEAP1 0.045051963 0.056314954 0.0081912661 0.012286899
#> KRAS 0.002252598 0.002815748 0.0004095633 0.000614345
#> MGA 0.056314954 0.070393693 0.0102390826 0.015358624
#> NF1 0.069830543 0.087288179 0.0126964624 0.019044694
#> PIK3CA 0.002252598 0.002815748 0.0004095633 0.000614345
#> PTPRD 0.031536374 0.039420468 0.0057338862 0.008600829
#> PTPRT 0.027031178 0.033788973 0.0049147596 0.007372139
#> RB1 0.042799365 0.053499206 0.0077817028 0.011672554
#> RBM10 0.065325347 0.081656684 0.0118773358 0.017816004
#> SETBP1 0.024778580 0.030973225 0.0045051963 0.006757795
#> SETD2 0.047304562 0.059130702 0.0086008294 0.012901244
#> SMAD4 0.015768187 0.019710234 0.0028669431 0.004300415
#> SMARCA4 0.047304562 0.059130702 0.0086008294 0.012901244
#> STK11 0.114882507 0.143603133 0.0208877285 0.031331593
#> TP53 0.218502022 0.273127528 0.0397276404 0.059591461
#> U2AF1 0.000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-95-8494-01 TCGA-97-7547-01 TCGA-97-7552-01 TCGA-97-8172-01
#> ARID1A 0.0101366918 0.019351866 0.0064506220 0.044232837
#> ATM 0.0101366918 0.019351866 0.0064506220 0.044232837
#> BRAF 0.0022525982 0.004300415 0.0014334716 0.009829519
#> CDKN2A 0.0039420468 0.007525726 0.0025085752 0.017201659
#> CMTR2 0.0095735422 0.018276762 0.0060922541 0.041775457
#> CTNNB1 0.0005631495 0.001075104 0.0003583679 0.002457380
#> EGFR 0.0168944863 0.032253110 0.0107510367 0.073721395
#> KEAP1 0.0112629908 0.021502073 0.0071673578 0.049147596
#> KRAS 0.0005631495 0.001075104 0.0003583679 0.002457380
#> MGA 0.0140787385 0.026877592 0.0089591973 0.061434495
#> NF1 0.0174576358 0.033328214 0.0111094046 0.076178774
#> PIK3CA 0.0005631495 0.001075104 0.0003583679 0.002457380
#> PTPRD 0.0078840936 0.015051451 0.0050171505 0.034403317
#> PTPRT 0.0067577945 0.012901244 0.0043004147 0.029488558
#> RB1 0.0106998413 0.020426970 0.0068089899 0.046690217
#> RBM10 0.0163313367 0.031178006 0.0103926688 0.071264015
#> SETBP1 0.0061946450 0.011826140 0.0039420468 0.027031178
#> SETD2 0.0118261404 0.022577177 0.0075257257 0.051604976
#> SMAD4 0.0039420468 0.007525726 0.0025085752 0.017201659
#> SMARCA4 0.0118261404 0.022577177 0.0075257257 0.051604976
#> STK11 0.0287206266 0.054830287 0.0182767624 0.125326371
#> TP53 0.0546255056 0.104285056 0.0347616854 0.238365842
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.000000000
#> TCGA-97-8552-01 TCGA-97-A4M2-01 TCGA-97-A4M6-01 TCGA-99-7458-01
#> ARID1A 0.0055291046 9.215174e-04 0.0055291046 0.065427738
#> ATM 0.0055291046 9.215174e-04 0.0055291046 0.065427738
#> BRAF 0.0012286899 2.047817e-04 0.0012286899 0.014539497
#> CDKN2A 0.0021502073 3.583679e-04 0.0021502073 0.025444120
#> CMTR2 0.0052219321 8.703220e-04 0.0052219321 0.061792863
#> CTNNB1 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> EGFR 0.0092151743 1.535862e-03 0.0092151743 0.109046229
#> KEAP1 0.0061434495 1.023908e-03 0.0061434495 0.072697486
#> KRAS 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> MGA 0.0076793119 1.279885e-03 0.0076793119 0.090871858
#> NF1 0.0095223468 1.587058e-03 0.0095223468 0.112681104
#> PIK3CA 0.0003071725 5.119541e-05 0.0003071725 0.003634874
#> PTPRD 0.0043004147 7.167358e-04 0.0043004147 0.050888240
#> PTPRT 0.0036860697 6.143450e-04 0.0036860697 0.043618492
#> RB1 0.0058362771 9.727128e-04 0.0058362771 0.069062612
#> RBM10 0.0089080018 1.484667e-03 0.0089080018 0.105411355
#> SETBP1 0.0033788973 5.631495e-04 0.0033788973 0.039983617
#> SETD2 0.0064506220 1.075104e-03 0.0064506220 0.076332361
#> SMAD4 0.0021502073 3.583679e-04 0.0021502073 0.025444120
#> SMARCA4 0.0064506220 1.075104e-03 0.0064506220 0.076332361
#> STK11 0.0156657963 2.610966e-03 0.0156657963 0.185378590
#> TP53 0.0297957303 4.965955e-03 0.0297957303 0.352582809
#> U2AF1 0.0000000000 0.000000e+00 0.0000000000 0.000000000
#> TCGA-99-AA5R-01 TCGA-J2-8192-01 TCGA-J2-A4AE-01 TCGA-L4-A4E6-01
#> ARID1A 0.0092151743 0.011058209 0.0046075872 0
#> ATM 0.0092151743 0.011058209 0.0046075872 0
#> BRAF 0.0020478165 0.002457380 0.0010239083 0
#> CDKN2A 0.0035836789 0.004300415 0.0017918395 0
#> CMTR2 0.0087032202 0.010443864 0.0043516101 0
#> CTNNB1 0.0005119541 0.000614345 0.0002559771 0
#> EGFR 0.0153586239 0.018430349 0.0076793119 0
#> KEAP1 0.0102390826 0.012286899 0.0051195413 0
#> KRAS 0.0005119541 0.000614345 0.0002559771 0
#> MGA 0.0127988532 0.015358624 0.0063994266 0
#> NF1 0.0158705780 0.019044694 0.0079352890 0
#> PIK3CA 0.0005119541 0.000614345 0.0002559771 0
#> PTPRD 0.0071673578 0.008600829 0.0035836789 0
#> PTPRT 0.0061434495 0.007372139 0.0030717248 0
#> RB1 0.0097271284 0.011672554 0.0048635642 0
#> RBM10 0.0148466697 0.017816004 0.0074233349 0
#> SETBP1 0.0056314954 0.006757795 0.0028157477 0
#> SETD2 0.0107510367 0.012901244 0.0053755184 0
#> SMAD4 0.0035836789 0.004300415 0.0017918395 0
#> SMARCA4 0.0107510367 0.012901244 0.0053755184 0
#> STK11 0.0261096606 0.031331593 0.0130548303 0
#> TP53 0.0496595505 0.059591461 0.0248297753 0
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0
#> TCGA-MP-A4T6-01 TCGA-MP-A4TC-01 TCGA-MP-A4TH-01 TCGA-MP-A4TJ-01
#> ARID1A 0.0055291046 0.032253110 0.019351866 0.0092151743
#> ATM 0.0055291046 0.032253110 0.019351866 0.0092151743
#> BRAF 0.0012286899 0.007167358 0.004300415 0.0020478165
#> CDKN2A 0.0021502073 0.012542876 0.007525726 0.0035836789
#> CMTR2 0.0052219321 0.030461271 0.018276762 0.0087032202
#> CTNNB1 0.0003071725 0.001791839 0.001075104 0.0005119541
#> EGFR 0.0092151743 0.053755184 0.032253110 0.0153586239
#> KEAP1 0.0061434495 0.035836789 0.021502073 0.0102390826
#> KRAS 0.0003071725 0.001791839 0.001075104 0.0005119541
#> MGA 0.0076793119 0.044795986 0.026877592 0.0127988532
#> NF1 0.0095223468 0.055547023 0.033328214 0.0158705780
#> PIK3CA 0.0003071725 0.001791839 0.001075104 0.0005119541
#> PTPRD 0.0043004147 0.025085752 0.015051451 0.0071673578
#> PTPRT 0.0036860697 0.021502073 0.012901244 0.0061434495
#> RB1 0.0058362771 0.034044950 0.020426970 0.0097271284
#> RBM10 0.0089080018 0.051963344 0.031178006 0.0148466697
#> SETBP1 0.0033788973 0.019710234 0.011826140 0.0056314954
#> SETD2 0.0064506220 0.037628628 0.022577177 0.0107510367
#> SMAD4 0.0021502073 0.012542876 0.007525726 0.0035836789
#> SMARCA4 0.0064506220 0.037628628 0.022577177 0.0107510367
#> STK11 0.0156657963 0.091383812 0.054830287 0.0261096606
#> TP53 0.0297957303 0.173808427 0.104285056 0.0496595505
#> U2AF1 0.0000000000 0.000000000 0.000000000 0.0000000000
#> TCGA-MP-A5C7-01 TCGA-NJ-A4YF-01 TCGA-NJ-A55A-01 TCGA-NJ-A7XG-01
#> ARID1A 0.0082936569 0.080172017 0.0046075872 0.0046075872
#> ATM 0.0082936569 0.080172017 0.0046075872 0.0046075872
#> BRAF 0.0018430349 0.017816004 0.0010239083 0.0010239083
#> CDKN2A 0.0032253110 0.031178006 0.0017918395 0.0017918395
#> CMTR2 0.0078328982 0.075718016 0.0043516101 0.0043516101
#> CTNNB1 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> EGFR 0.0138227615 0.133620028 0.0076793119 0.0076793119
#> KEAP1 0.0092151743 0.089080018 0.0051195413 0.0051195413
#> KRAS 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> MGA 0.0115189679 0.111350023 0.0063994266 0.0063994266
#> NF1 0.0142835202 0.138074029 0.0079352890 0.0079352890
#> PIK3CA 0.0004607587 0.004454001 0.0002559771 0.0002559771
#> PTPRD 0.0064506220 0.062356013 0.0035836789 0.0035836789
#> PTPRT 0.0055291046 0.053448011 0.0030717248 0.0030717248
#> RB1 0.0087544156 0.084626018 0.0048635642 0.0048635642
#> RBM10 0.0133620028 0.129166027 0.0074233349 0.0074233349
#> SETBP1 0.0050683459 0.048994010 0.0028157477 0.0028157477
#> SETD2 0.0096759330 0.093534019 0.0053755184 0.0053755184
#> SMAD4 0.0032253110 0.031178006 0.0017918395 0.0017918395
#> SMARCA4 0.0096759330 0.093534019 0.0053755184 0.0053755184
#> STK11 0.0234986945 0.227154047 0.0130548303 0.0130548303
#> TP53 0.0446935955 0.432038089 0.0248297753 0.0248297753
#> U2AF1 0.0000000000 0.000000000 0.0000000000 0.0000000000
#> TCGA-O1-A52J-01 TCGA-S2-AA1A-01
#> ARID1A 0.019351866 0.0129012440
#> ATM 0.019351866 0.0129012440
#> BRAF 0.004300415 0.0028669431
#> CDKN2A 0.007525726 0.0050171505
#> CMTR2 0.018276762 0.0121845083
#> CTNNB1 0.001075104 0.0007167358
#> EGFR 0.032253110 0.0215020734
#> KEAP1 0.021502073 0.0143347156
#> KRAS 0.001075104 0.0007167358
#> MGA 0.026877592 0.0179183945
#> NF1 0.033328214 0.0222188092
#> PIK3CA 0.001075104 0.0007167358
#> PTPRD 0.015051451 0.0100343009
#> PTPRT 0.012901244 0.0086008294
#> RB1 0.020426970 0.0136179798
#> RBM10 0.031178006 0.0207853376
#> SETBP1 0.011826140 0.0078840936
#> SETD2 0.022577177 0.0150514514
#> SMAD4 0.007525726 0.0050171505
#> SMARCA4 0.022577177 0.0150514514
#> STK11 0.054830287 0.0365535248
#> TP53 0.104285056 0.0695233707
#> U2AF1 0.000000000 0.0000000000
#>
#>
# }