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["Table S1: Mutations in five cancer genes in the 72 patients."]
["Gene","F7-025","F7-032","F7-045","F7-056","F7-057","F7-072","F7-074","F7-084","F7-087","F7-100","F7-144","F7-153","F7-170","F7-176","F7-180","F7-185","F7-188","F7-202","F7-203","F8-083","F8-078","F8-130","F8-137","Lung-T115","Lung-T123","Lung-T143","Lung-T151","Lung-T159","Lung-T185","Lung-T191","Lung-T203","Lung-T204","Lung-T210","Lung-T216","Lung-T218","Lung-T219","Lung-T227","Lung-T233","Lung-T235","Lung-T236","Lung-T246","Lung-T247","Lung-T250","Lung-T256","Lung-T258","Lung-T260","Lung-T267","Lung-T270","Lung-T289","Lung-T291","Lung-T293","Lung-T295","Lung-T311","Lung-T325","Lung-T327","Lung-T332","Lung-T333","Lung-T334","Lung-T336","Lung-T337","Lung-T339","Lung-T342","Lung-T344","Lung-T345","Lung-T346","Lung-T352","Lung-T368","Lung-T370","Lung-T371","Lung-T374","Lung-T95","Lung-T99","Chrom_vep","PositionS_vep","PositionE_vep","Ref_vep","VarAllele_vep","Variants","PopFreqMax","clinvar_20190315","avsnp150","cosmic83","cosmic83OCCURENCE","Type","FATHMMprediction","HGVS","SIFT","PolyPhen 2 HDIV","PolyPhen 2 HVar","CADD","TCGA by location","Group"]
["CTNNB1",{"$nulls":69},"18/73 (24.66%)",null,null,"chr3",41266101,41266101,"C","T","chr3:g.41266101C>T (NC_000003.11)",null,"Pathogenic/Likely_pathogenic\\x2c_other","rs121913400","COSM5669","5(ovary),1(bone),1(NS),1(haematopoietic_and_lymphoid_tissue),9(stomach),1(soft_tissue),1(kidney),2(urinary_tract),4(pancreas),24(liver),3(adrenal_gland),8(pituitary),16(skin),2(prostate),4(lung),1(thyroid),2(upper_aerodigestive_tract),2(large_intestine),35(central_nervous_system),2(small_intestine),16(endometrium)","nonsynonymous SNV","PATHOGENIC","CTNNB1:NM_001098209:c.98C>T:NP_001091679:p.S33F|CTNNB1:NM_001098210:c.98C>T:NP_001091680:p.S33F|CTNNB1:NM_001330729:c.77C>T:NP_001317658:p.S26F|CTNNB1:NM_001904:c.98C>T:NP_001895:p.S33F","Deleterious","Probably damaging","Probably damaging","27.7","BLCA;LIHC;LUAD;STAD;UCEC;","Pathogenic_clinvar"]
["CTNNB1",{"$nulls":33},"18/148 (12.16%)",{"$nulls":38},"chr3",41266113,41266113,"C","T","chr3:g.41266113C>T (NC_000003.11)",null,"Pathogenic/Likely_pathogenic","rs121913403","COSM5662","17(ovary),30(stomach),3(soft_tissue),5(urinary_tract),25(pancreas),37(liver),6(oesophagus),1(adrenal_gland),9(pituitary),27(skin),15(lung),4(thyroid),2(cervix),3(testis),4(large_intestine),14(central_nervous_system),5(small_intestine),5(biliary_tract),49(endometrium)","nonsynonymous SNV","PATHOGENIC","CTNNB1:NM_001098209:c.110C>T:NP_001091679:p.S37F|CTNNB1:NM_001098210:c.110C>T:NP_001091680:p.S37F|CTNNB1:NM_001330729:c.89C>T:NP_001317658:p.S30F|CTNNB1:NM_001904:c.110C>T:NP_001895:p.S37F","Deleterious","Probably damaging","Probably damaging","28","BLCA;ESCA;LIHC;LUAD;SKCM;STAD;UCEC;","Pathogenic_clinvar"]
["CTNNB1",{"$nulls":67},"14/97 (14.43%)",{"$nulls":4},"chr3",41266113,41266113,"C","G","chr3:g.41266113C>G (NC_000003.11)",null,"Pathogenic/Likely_pathogenic","rs121913403","COSM5679","28(ovary),1(bone),7(stomach),1(soft_tissue),1(kidney),4(urinary_tract),7(pancreas),46(liver),1(oesophagus),13(pituitary),2(adrenal_gland),4(skin),2(prostate),12(lung),1(cervix),2(large_intestine),8(central_nervous_system),10(biliary_tract),39(endometrium)","nonsynonymous SNV","PATHOGENIC","CTNNB1:NM_001098209:c.110C>G:NP_001091679:p.S37C|CTNNB1:NM_001098210:c.110C>G:NP_001091680:p.S37C|CTNNB1:NM_001330729:c.89C>G:NP_001317658:p.S30C|CTNNB1:NM_001904:c.110C>G:NP_001895:p.S37C","Deleterious","Probably damaging","Probably damaging","26.1","BLCA;CESC;LIHC;LUAD;STAD;UCEC;","Pathogenic_clinvar"]
["EGFR",{"$nulls":58},"18/121 (14.88%)",{"$nulls":13},"chr7",55241678,55241678,"A","G","chr7:g.55241678A>G (NC_000007.13)",null,"drug_response","rs397517085","COSM13009","6(lung)","nonsynonymous SNV","PATHOGENIC","EGFR:NM_005228:c.2126A>G:NP_005219:p.E709G","Deleterious","Probably damaging","Possibly damaging","24.5",null,"Pathogenic_clinvar"]
["EGFR",{"$nulls":30},"29/154 (18.83%)","48/148 (32.43%)",{"$nulls":3},"129/241 (53.53%)",null,"28/160 (17.50%)",{"$nulls":5},"26/149 (17.45%)",{"$nulls":4},"68/176 (38.64%)",{"$nulls":23},"chr7",55242465,55242479,"GGAATTAAGAGAAGC","-","chr7:g.55242464A>-GGAATTAAGAGAAGC (NC_000007.13)",null,"drug_response","rs121913421","COSM6223","4(salivary_gland),2(ovary),1(NS),1(stomach),1(oesophagus),1026(lung),2(thyroid),3(upper_aerodigestive_tract)","nonframeshift deletion",null,"EGFR:NM_005228:c.2235_2249del:NP_005219:p.745_750del",{"$nulls":4},"LUAD;","Pathogenic_clinvar"]
["EGFR",{"$nulls":47},"36/130 (27.69%)",{"$nulls":13},"46/162 (28.40%)",{"$nulls":10},"chr7",55242466,55242480,"GAATTAAGAGAAGCA","-","chr7:g.55242465G>-GAATTAAGAGAAGCA (NC_000007.13)",null,"drug_response","rs727504233","COSM6225","1(salivary_gland),2(breast),480(lung),1(thyroid),1(upper_aerodigestive_tract),1(large_intestine)","nonframeshift deletion",null,"EGFR:NM_005228:c.2236_2250del:NP_005219:p.746_750del",{"$nulls":4},"LUAD;","Pathogenic_clinvar"]
["EGFR",{"$nulls":54},"21/116 (18.10%)",{"$nulls":10},"20/148 (13.51%)",{"$nulls":6},"chr7",55242466,55242474,"GAATTAAGA","-","chr7:g.55242465G>-GAATTAAGA (NC_000007.13)",null,"drug_response","rs121913436",null,null,"nonframeshift deletion",null,"EGFR:NM_005228:c.2236_2244del:NP_005219:p.746_748del",{"$nulls":4},"LUAD;","Pathogenic_clinvar"]
["EGFR",{"$nulls":51},"78/208 (37.50%)",{"$nulls":20},"chr7",55242470,55242487,"TAAGAGAAGCAACATCTC","-","chr7:g.55242469T>-TAAGAGAAGCAACATCTC (NC_000007.13)",null,"drug_response","rs121913438","COSM133197,COSM12370","1(salivary_gland),1(prostate),166(lung)","nonframeshift deletion",null,"EGFR:NM_005228:c.2240_2257del:NP_005219:p.747_753del",{"$nulls":5},"Pathogenic_clinvar"]
["EGFR",{"$nulls":71},"46/104 (44.23%)","chr7",55249071,55249071,"C","T","chr7:g.55249071C>T (NC_000007.13)",0.0001,"drug_response","rs121434569","COSM6240","3(breast),1(soft_tissue),298(lung),2(upper_aerodigestive_tract),1(central_nervous_system),1(biliary_tract)","nonsynonymous SNV","PATHOGENIC","EGFR:NM_005228:c.2369C>T:NP_005219:p.T790M","Deleterious","Probably damaging","Probably damaging","34","LUAD;","Pathogenic_clinvar"]
["EGFR",{"$nulls":23},"158/253 (62.45%)",{"$nulls":9},"418/651 (64.21%)",{"$nulls":8},"38/178 (21.35%)",null,"50/192 (26.04%)",{"$nulls":5},"58/181 (32.04%)",null,"291/407 (71.50%)","39/154 (25.32%)",null,"44/185 (23.78%)","133/296 (44.93%)",null,"28/169 (16.57%)",{"$nulls":3},"96/214 (44.86%)","79/200 (39.50%)",{"$nulls":3},"18/142 (12.68%)",{"$nulls":3},"74/175 (42.29%)","chr7",55259515,55259515,"T","G","chr7:g.55259515T>G (NC_000007.13)",null,"drug_response","rs121434568","COSM6224","1(ovary),12(breast),1(stomach),1(peritoneum),1(prostate),2329(lung),6(thyroid),1(upper_aerodigestive_tract),1(thymus),2(large_intestine)","nonsynonymous SNV","PATHOGENIC","EGFR:NM_005228:c.2573T>G:NP_005219:p.L858R","Deleterious","Probably damaging","Probably damaging","33","LUAD;","Pathogenic_clinvar"]
["EGFR",{"$nulls":7},"719/2918 (24.64%)",{"$nulls":64},"chr7",55242467,55242484,"AATTAAGAGAAGCAACAT","-","chr7:g.g.55242466G>-AATTAAGAGAAGCAACAT(NC_000007.13) (NC_000007.13)",null,"drug_response","rs121913422","COSM12367","1(kidney),4(lung),1(central_nervous_system)","nonframeshift deletion",null,"EGFR:NM_005228:c.2237_2254del:NP_005219:p.746_752del",{"$nulls":5},"Pathogenic_clinvar"]
["KRAS",{"$nulls":41},"30/51 (58.82%)",{"$nulls":30},"chr12",25398284,25398284,"C","A","chr12:g.25398284C>A (NC_000012.11)",null,"Pathogenic","rs121913529","COSM1140133,COSM520","2(pleura),1(vulva),304(ovary),13(breast),10(NS),38(stomach),72(haematopoietic_and_lymphoid_tissue),6(soft_tissue),6(kidney),21(urinary_tract),1932(pancreas),7(liver),36(peritoneum),4(oesophagus),7(genital_tract),1(autonomic_ganglia),11(gastrointestinal_tract_(site_indeterminate)),27(skin),40(prostate),1476(lung),12(cervix),19(thyroid),4(upper_aerodigestive_tract),10(testis),1(eye),4(thymus),5341(large_intestine),1(central_nervous_system),36(small_intestine),118(biliary_tract),125(endometrium)","nonsynonymous SNV","PATHOGENIC","KRAS:NM_004985:c.35G>T:NP_004976:p.G12V|KRAS:NM_033360:c.35G>T:NP_203524:p.G12V","Deleterious","Probably damaging","Probably damaging","29.9","BLCA;BRCA;CESC;COAD;DLBC;KIRP;LUAD;OV;PAAD;READ;STAD;TGCT;THCA;UCEC;UCS;","Pathogenic_clinvar"]
["KRAS",{"$nulls":59},"18/75 (24.00%)",{"$nulls":12},"chr12",25398284,25398284,"C","G","chr12:g.25398284C>G (NC_000012.11)",null,"Pathogenic/Likely_pathogenic","rs121913529","COSM522,COSM1140134","45(ovary),1(bone),2(breast),2(NS),27(stomach),53(haematopoietic_and_lymphoid_tissue),5(soft_tissue),7(urinary_tract),83(pancreas),1(peritoneum),1(liver),1(oesophagus),4(gastrointestinal_tract_(site_indeterminate)),1(skin),2(prostate),504(lung),6(thyroid),4(cervix),3(upper_aerodigestive_tract),2(testis),2(thymus),1400(large_intestine),5(central_nervous_system),16(small_intestine),33(biliary_tract),68(endometrium)","nonsynonymous SNV","PATHOGENIC","KRAS:NM_004985:c.35G>C:NP_004976:p.G12A|KRAS:NM_033360:c.35G>C:NP_203524:p.G12A","Deleterious","Possibly damaging","Possibly damaging","27.2","COAD;LGG;LUAD;PAAD;READ;TGCT;UCEC;UCS;","Pathogenic_clinvar"]
["KRAS",{"$nulls":68},"22/54 (40.74%)",{"$nulls":3},"chr12",25398284,25398284,"C","T","chr12:g.25398284C>T (NC_000012.11)",0.0001,"Pathogenic","rs121913529","COSM1135366,COSM521","1(salivary_gland),313(ovary),23(breast),17(NS),106(stomach),215(haematopoietic_and_lymphoid_tissue),23(urinary_tract),24(soft_tissue),4(kidney),2974(pancreas),95(peritoneum),18(liver),1(genital_tract),15(oesophagus),20(gastrointestinal_tract_(site_indeterminate)),31(skin),22(prostate),1273(lung),37(thyroid),24(cervix),33(upper_aerodigestive_tract),2(testis),3(eye),8306(large_intestine),6(central_nervous_system),96(small_intestine),355(biliary_tract),214(endometrium)","nonsynonymous SNV","PATHOGENIC","KRAS:NM_004985:c.35G>A:NP_004976:p.G12D|KRAS:NM_033360:c.35G>A:NP_203524:p.G12D","Deleterious","Benign","Benign","25.3","BLCA;BRCA;CESC;COAD;ESCA;GBM;KIRC;KIRP;LIHC;LUAD;PAAD;PRAD;READ;SKCM;STAD;THYM;UCEC;UCS;","Pathogenic_clinvar"]
["KRAS",{"$nulls":15},"609/1802 (33.80%)",{"$nulls":56},"chr12",25380275,25380275,"T","G","chr12:g.g.25380275T>G(NC_000012.11) (NC_000012.11)",null,"Pathogenic/Likely_pathogenic","rs17851045","COSM1135364,COSM554","1(ovary),2(breast),6(stomach),44(haematopoietic_and_lymphoid_tissue),1(kidney),1(urinary_tract),49(pancreas),6(liver),1(genital_tract),2(skin),2(prostate),15(lung),1(thyroid),82(large_intestine),1(central_nervous_system),2(small_intestine),4(biliary_tract),5(endometrium)","nonsynonymous SNV","PATHOGENIC","KRAS:NM_004985:c.183A>C:NP_004976:p.Q61H|KRAS:NM_033360:c.183A>C:NP_203524:p.Q61H","Deleterious","Benign","Benign","23.5","COAD;ESCA;KIRC;PAAD;READ;STAD;UCEC;","Pathogenic_clinvar"]
["MET",{"$nulls":64},"31/77 (40.26%)",{"$nulls":7},"chr7",116412025,116412025,"C","T","chr7:g.116412025C>T (NC_000007.13)",0,null,"rs766865557",null,null,"stopgain",null,"MET:NM_000245:c.3010C>T:NP_000236:p.R1004X|MET:NM_001127500:c.3064C>T:NP_001120972:p.R1022X|MET:NM_001324402:c.1720C>T:NP_001311331:p.R574X",".",".",".","42",null,"Pathogenic_others"]
["MET",{"$nulls":64},"14/64 (21.88%)",{"$nulls":7},"chr7",116412044,116412044,"G","T","chr7:g.116412044G>T (NC_000007.13)",null,"risk_factor","rs869320707","COSM6108462","1(lung)","splicing","PATHOGENIC","MET(NM_001324402:exon13:c.1738+1G>T,NM_000245:exon14:c.3028+1G>T,NM_001127500:exon14:c.3082+1G>T)",".",".",".","24.9","LUAD;","Uncertain"]
["PIK3CA",{"$nulls":27},"47/121 (38.84%)",{"$nulls":12},"18/63 (28.57%)",{"$nulls":6},"13/35 (37.14%)",{"$nulls":24},"chr3",178936082,178936082,"G","A","chr3:g.178936082G>A (NC_000003.11)",null,"Pathogenic/Likely_pathogenic","rs121913273","COSM760,COSM125369","9(salivary_gland),4(vulva),30(ovary),1(bone),313(breast),4(penis),4(haematopoietic_and_lymphoid_tissue),27(stomach),5(kidney),11(soft_tissue),55(urinary_tract),3(pancreas),11(liver),1(genital_tract),23(oesophagus),5(gastrointestinal_tract_(site_indeterminate)),1(pituitary),25(skin),2(prostate),26(lung),15(thyroid),29(cervix),33(upper_aerodigestive_tract),353(large_intestine),15(central_nervous_system),3(small_intestine),6(biliary_tract),62(endometrium)","nonsynonymous SNV","PATHOGENIC","PIK3CA:NM_006218:c.1624G>A:NP_006209:p.E542K","Deleterious","Probably damaging","Probably damaging","27.3","BLCA;BRCA;CESC;COAD;DLBC;GBM;HNSC;KIRC;KIRP;LGG;LIHC;LUAD;LUSC;PRAD;STAD;UCEC;","Pathogenic_clinvar"]
["PIK3CA",{"$nulls":50},"6/29 (20.69%)",{"$nulls":21},"chr3",178952090,178952090,"G","C","chr3:g.178952090G>C (NC_000003.11)",null,"Likely_pathogenic","rs121913277","COSM446029,COSM12597","1(salivary_gland),2(ovary),26(breast),1(urinary_tract),1(kidney),1(pancreas),1(lung),2(thyroid),3(upper_aerodigestive_tract),10(large_intestine),2(central_nervous_system),8(endometrium)","nonsynonymous SNV","PATHOGENIC","PIK3CA:NM_006218:c.3145G>C:NP_006209:p.G1049R","Tolerated","Benign","Benign","22.6","BLCA;BRCA;KIRC;UCEC;","Pathogenic_clinvar"]
["TP53",{"$nulls":66},"90/146 (61.64%)",{"$nulls":5},"chr17",7577117,7577117,"A","T","chr17:g.7577117A>T (NC_000017.10)",null,"Likely_pathogenic","rs1057520006","COSM1640827,COSM165076,COSM44448,COSM4749451","2(ovary),2(breast),2(haematopoietic_and_lymphoid_tissue),2(stomach),1(soft_tissue),1(urinary_tract),1(lung),1(large_intestine)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.821T>A:NP_000537:p.V274D|TP53:NM_001126112:c.821T>A:NP_001119584:p.V274D|TP53:NM_001126113:c.821T>A:NP_001119585:p.V274D|TP53:NM_001126114:c.821T>A:NP_001119586:p.V274D|TP53:NM_001126115:c.425T>A:NP_001119587:p.V142D|TP53:NM_001126116:c.425T>A:NP_001119588:p.V142D|TP53:NM_001126117:c.425T>A:NP_001119589:p.V142D|TP53:NM_001126118:c.704T>A:NP_001119590:p.V235D|TP53:NM_001276695:c.704T>A:NP_001263624:p.V235D|TP53:NM_001276696:c.704T>A:NP_001263625:p.V235D|TP53:NM_001276697:c.344T>A:NP_001263626:p.V115D|TP53:NM_001276698:c.344T>A:NP_001263627:p.V115D|TP53:NM_001276699:c.344T>A:NP_001263628:p.V115D|TP53:NM_001276760:c.704T>A:NP_001263689:p.V235D|TP53:NM_001276761:c.704T>A:NP_001263690:p.V235D","Deleterious","Probably damaging","Probably damaging","29.8","COAD;LUAD;OV;","Pathogenic_clinvar"]
["TP53",{"$nulls":27},"116/144 (80.56%)",{"$nulls":41},"70/117 (59.83%)",null,null,"chr17",7577120,7577120,"C","T","chr17:g.7577120C>T (NC_000017.10)",0.001,"Pathogenic/Likely_pathogenic","rs28934576","COSM1645335,COSM10660,COSM99729,COSM3356963","2(salivary_gland),4(vulva),60(ovary),8(bone),89(breast),4(penis),3(NS),46(haematopoietic_and_lymphoid_tissue),36(stomach),4(soft_tissue),19(urinary_tract),43(pancreas),5(liver),2(genital_tract),45(oesophagus),13(skin),13(prostate),87(lung),1(cervix),48(upper_aerodigestive_tract),2(thymus),198(large_intestine),61(central_nervous_system),6(biliary_tract),1(fallopian_tube),14(endometrium)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.818G>A:NP_000537:p.R273H|TP53:NM_001126112:c.818G>A:NP_001119584:p.R273H|TP53:NM_001126113:c.818G>A:NP_001119585:p.R273H|TP53:NM_001126114:c.818G>A:NP_001119586:p.R273H|TP53:NM_001126115:c.422G>A:NP_001119587:p.R141H|TP53:NM_001126116:c.422G>A:NP_001119588:p.R141H|TP53:NM_001126117:c.422G>A:NP_001119589:p.R141H|TP53:NM_001126118:c.701G>A:NP_001119590:p.R234H|TP53:NM_001276695:c.701G>A:NP_001263624:p.R234H|TP53:NM_001276696:c.701G>A:NP_001263625:p.R234H|TP53:NM_001276697:c.341G>A:NP_001263626:p.R114H|TP53:NM_001276698:c.341G>A:NP_001263627:p.R114H|TP53:NM_001276699:c.341G>A:NP_001263628:p.R114H|TP53:NM_001276760:c.701G>A:NP_001263689:p.R234H|TP53:NM_001276761:c.701G>A:NP_001263690:p.R234H","Deleterious","Possibly damaging","Benign","27.3","BRCA;COAD;ESCA;GBM;HNSC;KIRC;LGG;LIHC;LUAD;LUSC;MESO;OV;PAAD;READ;SARC;STAD;UCEC;UCS;","Pathogenic_clinvar"]
["TP53",{"$nulls":33},"61/75 (81.33%)",{"$nulls":38},"chr17",7577538,7577538,"C","A","chr17:g.7577538C>A (NC_000017.10)",null,"Likely_pathogenic","rs11540652","COSM241994,COSM241995,COSM6549,COSM241996,COSM3378346,COSM1646857","2(ovary),6(breast),1(stomach),5(haematopoietic_and_lymphoid_tissue),1(kidney),3(urinary_tract),1(pancreas),5(liver),4(oesophagus),4(skin),1(prostate),57(lung),13(upper_aerodigestive_tract),1(thymus),6(large_intestine),1(central_nervous_system),1(biliary_tract)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.743G>T:NP_000537:p.R248L|TP53:NM_001126112:c.743G>T:NP_001119584:p.R248L|TP53:NM_001126113:c.743G>T:NP_001119585:p.R248L|TP53:NM_001126114:c.743G>T:NP_001119586:p.R248L|TP53:NM_001126115:c.347G>T:NP_001119587:p.R116L|TP53:NM_001126116:c.347G>T:NP_001119588:p.R116L|TP53:NM_001126117:c.347G>T:NP_001119589:p.R116L|TP53:NM_001126118:c.626G>T:NP_001119590:p.R209L|TP53:NM_001276695:c.626G>T:NP_001263624:p.R209L|TP53:NM_001276696:c.626G>T:NP_001263625:p.R209L|TP53:NM_001276697:c.266G>T:NP_001263626:p.R89L|TP53:NM_001276698:c.266G>T:NP_001263627:p.R89L|TP53:NM_001276699:c.266G>T:NP_001263628:p.R89L|TP53:NM_001276760:c.626G>T:NP_001263689:p.R209L|TP53:NM_001276761:c.626G>T:NP_001263690:p.R209L","Deleterious","Probably damaging","Probably damaging","34","GBM;KIRC;LUAD;LUSC;PAAD;THYM;","Pathogenic_clinvar"]
["TP53",{"$nulls":48},"19/84 (22.62%)",{"$nulls":23},"chr17",7577539,7577539,"G","A","chr17:g.7577539G>A (NC_000017.10)",0,"Pathogenic","rs121912651","COSM120006,COSM120005,COSM1640831,COSM10656,COSM120007,COSM3388183","1(pleura),4(vulva),36(ovary),2(bone),80(breast),1(penis),7(NS),44(haematopoietic_and_lymphoid_tissue),39(stomach),5(soft_tissue),22(urinary_tract),6(kidney),20(pancreas),5(liver),53(oesophagus),33(skin),7(prostate),25(lung),1(cervix),4(thyroid),33(upper_aerodigestive_tract),1(thymus),186(large_intestine),40(central_nervous_system),9(biliary_tract),22(endometrium)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.742C>T:NP_000537:p.R248W|TP53:NM_001126112:c.742C>T:NP_001119584:p.R248W|TP53:NM_001126113:c.742C>T:NP_001119585:p.R248W|TP53:NM_001126114:c.742C>T:NP_001119586:p.R248W|TP53:NM_001126115:c.346C>T:NP_001119587:p.R116W|TP53:NM_001126116:c.346C>T:NP_001119588:p.R116W|TP53:NM_001126117:c.346C>T:NP_001119589:p.R116W|TP53:NM_001126118:c.625C>T:NP_001119590:p.R209W|TP53:NM_001276695:c.625C>T:NP_001263624:p.R209W|TP53:NM_001276696:c.625C>T:NP_001263625:p.R209W|TP53:NM_001276697:c.265C>T:NP_001263626:p.R89W|TP53:NM_001276698:c.265C>T:NP_001263627:p.R89W|TP53:NM_001276699:c.265C>T:NP_001263628:p.R89W|TP53:NM_001276760:c.625C>T:NP_001263689:p.R209W|TP53:NM_001276761:c.625C>T:NP_001263690:p.R209W","Deleterious","Probably damaging","Probably damaging","34","BLCA;BRCA;CHOL;COAD;DLBC;ESCA;GBM;HNSC;LGG;LIHC;LUSC;OV;PAAD;PRAD;READ;SARC;SKCM;STAD;UCEC;UCS;","Pathogenic_clinvar"]
["TP53",{"$nulls":46},"19/63 (30.16%)",{"$nulls":25},"chr17",7577548,7577548,"C","A","chr17:g.7577548C>A (NC_000017.10)",null,"Pathogenic","rs28934575","COSM3388190,COSM562653,COSM562651,COSM562652,COSM1646855,COSM11081","1(salivary_gland),1(ovary),1(bone),2(breast),1(haematopoietic_and_lymphoid_tissue),1(stomach),1(soft_tissue),1(pancreas),2(liver),5(oesophagus),2(skin),45(lung),11(upper_aerodigestive_tract),6(large_intestine),1(central_nervous_system)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.733G>T:NP_000537:p.G245C|TP53:NM_001126112:c.733G>T:NP_001119584:p.G245C|TP53:NM_001126113:c.733G>T:NP_001119585:p.G245C|TP53:NM_001126114:c.733G>T:NP_001119586:p.G245C|TP53:NM_001126115:c.337G>T:NP_001119587:p.G113C|TP53:NM_001126116:c.337G>T:NP_001119588:p.G113C|TP53:NM_001126117:c.337G>T:NP_001119589:p.G113C|TP53:NM_001126118:c.616G>T:NP_001119590:p.G206C|TP53:NM_001276695:c.616G>T:NP_001263624:p.G206C|TP53:NM_001276696:c.616G>T:NP_001263625:p.G206C|TP53:NM_001276697:c.256G>T:NP_001263626:p.G86C|TP53:NM_001276698:c.256G>T:NP_001263627:p.G86C|TP53:NM_001276699:c.256G>T:NP_001263628:p.G86C|TP53:NM_001276760:c.616G>T:NP_001263689:p.G206C|TP53:NM_001276761:c.616G>T:NP_001263690:p.G206C","Deleterious","Probably damaging","Probably damaging","35","HNSC;LUAD;LUSC;","Pathogenic_clinvar"]
["TP53",{"$nulls":50},"7/24 (29.17%)",{"$nulls":21},"chr17",7578412,7578412,"A","G","chr17:g.7578412A>G (NC_000017.10)",null,"Likely_pathogenic","rs1057519747","COSM1630438,COSM44327,COSM3970357,COSM1630439,COSM3970356,COSM1630440,COSM1630441","2(haematopoietic_and_lymphoid_tissue),3(liver),1(prostate),3(lung),1(upper_aerodigestive_tract),5(central_nervous_system),3(biliary_tract)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.518T>C:NP_000537:p.V173A|TP53:NM_001126112:c.518T>C:NP_001119584:p.V173A|TP53:NM_001126113:c.518T>C:NP_001119585:p.V173A|TP53:NM_001126114:c.518T>C:NP_001119586:p.V173A|TP53:NM_001126115:c.122T>C:NP_001119587:p.V41A|TP53:NM_001126116:c.122T>C:NP_001119588:p.V41A|TP53:NM_001126117:c.122T>C:NP_001119589:p.V41A|TP53:NM_001126118:c.401T>C:NP_001119590:p.V134A|TP53:NM_001276695:c.401T>C:NP_001263624:p.V134A|TP53:NM_001276696:c.401T>C:NP_001263625:p.V134A|TP53:NM_001276697:c.41T>C:NP_001263626:p.V14A|TP53:NM_001276698:c.41T>C:NP_001263627:p.V14A|TP53:NM_001276699:c.41T>C:NP_001263628:p.V14A|TP53:NM_001276760:c.401T>C:NP_001263689:p.V134A|TP53:NM_001276761:c.401T>C:NP_001263690:p.V134A","Deleterious","Probably damaging","Probably damaging","23.8","LGG;","Pathogenic_clinvar"]
["TP53",{"$nulls":38},"7/11 (63.64%)",{"$nulls":33},"chr17",7579312,7579312,"C","A","chr17:g.7579312C>A (NC_000017.10)",null,"Likely_pathogenic","rs55863639","COSM3388231,COSM381996,COSM45940,COSM1638003,COSM381995","1(ovary),1(bone),1(pancreas),1(liver),1(oesophagus),1(skin),14(lung),6(upper_aerodigestive_tract),4(large_intestine),1(central_nervous_system)","synonymous SNV","PATHOGENIC","TP53:NM_000546:c.375G>T:NP_000537:p.T125T|TP53:NM_001126112:c.375G>T:NP_001119584:p.T125T|TP53:NM_001126113:c.375G>T:NP_001119585:p.T125T|TP53:NM_001126114:c.375G>T:NP_001119586:p.T125T|TP53:NM_001126118:c.258G>T:NP_001119590:p.T86T|TP53:NM_001276695:c.258G>T:NP_001263624:p.T86T|TP53:NM_001276696:c.258G>T:NP_001263625:p.T86T|TP53:NM_001276760:c.258G>T:NP_001263689:p.T86T|TP53:NM_001276761:c.258G>T:NP_001263690:p.T86T",{"$nulls":4},"ACC;BLCA;COAD;ESCA;HNSC;LGG;LIHC;LUAD;LUSC;OV;","Pathogenic_clinvar"]
["TP53",{"$nulls":51},"9/28 (32.14%)",{"$nulls":20},"chr17",7579329,7579329,"T","A","chr17:g.7579329T>A (NC_000017.10)",null,"Pathogenic","rs121912658","COSM21593","1(lung)","stopgain","PATHOGENIC","TP53:NM_000546:c.358A>T:NP_000537:p.K120X|TP53:NM_001126112:c.358A>T:NP_001119584:p.K120X|TP53:NM_001126113:c.358A>T:NP_001119585:p.K120X|TP53:NM_001126114:c.358A>T:NP_001119586:p.K120X|TP53:NM_001126118:c.241A>T:NP_001119590:p.K81X|TP53:NM_001276695:c.241A>T:NP_001263624:p.K81X|TP53:NM_001276696:c.241A>T:NP_001263625:p.K81X|TP53:NM_001276760:c.241A>T:NP_001263689:p.K81X|TP53:NM_001276761:c.241A>T:NP_001263690:p.K81X",".",".",".","39",null,"Pathogenic_clinvar"]
["TP53",{"$nulls":30},"37/103 (35.92%)",{"$nulls":27},"18/145 (12.41%)",{"$nulls":13},"chr17",7577121,7577121,"G","A","chr17:g.7577121G>A (NC_000017.10)",0,"Conflicting_interpretations_of_pathogenicity","rs121913343","COSM99933,COSM10659,COSM3355991,COSM1645518","1(salivary_gland),1(pleura),9(vulva),36(ovary),12(bone),33(breast),1(NS),1(penis),38(stomach),44(haematopoietic_and_lymphoid_tissue),15(urinary_tract),2(kidney),23(pancreas),1(peritoneum),22(liver),1(genital_tract),28(oesophagus),4(adrenal_gland),12(skin),18(prostate),25(lung),5(cervix),4(thyroid),33(upper_aerodigestive_tract),1(eye),174(large_intestine),180(central_nervous_system),7(small_intestine),7(biliary_tract),20(endometrium)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.817C>T:NP_000537:p.R273C|TP53:NM_001126112:c.817C>T:NP_001119584:p.R273C|TP53:NM_001126113:c.817C>T:NP_001119585:p.R273C|TP53:NM_001126114:c.817C>T:NP_001119586:p.R273C|TP53:NM_001126115:c.421C>T:NP_001119587:p.R141C|TP53:NM_001126116:c.421C>T:NP_001119588:p.R141C|TP53:NM_001126117:c.421C>T:NP_001119589:p.R141C|TP53:NM_001126118:c.700C>T:NP_001119590:p.R234C|TP53:NM_001276695:c.700C>T:NP_001263624:p.R234C|TP53:NM_001276696:c.700C>T:NP_001263625:p.R234C|TP53:NM_001276697:c.340C>T:NP_001263626:p.R114C|TP53:NM_001276698:c.340C>T:NP_001263627:p.R114C|TP53:NM_001276699:c.340C>T:NP_001263628:p.R114C|TP53:NM_001276760:c.700C>T:NP_001263689:p.R234C|TP53:NM_001276761:c.700C>T:NP_001263690:p.R234C","Deleterious","Probably damaging","Probably damaging","32","ACC;BLCA;BRCA;COAD;DLBC;ESCA;GBM;HNSC;LGG;LUAD;LUSC;MESO;OV;PAAD;PRAD;READ;STAD;THYM;UCEC;UCS;","Pathogenic_clinvar"]
["TP53",{"$nulls":23},"52/110 (47.27%)",{"$nulls":48},"chr17",7578207,7578213,"ATGTCGA","-","chr17:g.7578206T>-ATGTCGA (NC_000017.10)",{"$nulls":5},"frameshift deletion",null,"TP53:NM_000546:c.636_642del:NP_000537:p.F212fs|TP53:NM_001126112:c.636_642del:NP_001119584:p.F212fs|TP53:NM_001126113:c.636_642del:NP_001119585:p.F212fs|TP53:NM_001126114:c.636_642del:NP_001119586:p.F212fs|TP53:NM_001126115:c.240_246del:NP_001119587:p.F80fs|TP53:NM_001126116:c.240_246del:NP_001119588:p.F80fs|TP53:NM_001126117:c.240_246del:NP_001119589:p.F80fs|TP53:NM_001126118:c.519_525del:NP_001119590:p.F173fs|TP53:NM_001276695:c.519_525del:NP_001263624:p.F173fs|TP53:NM_001276696:c.519_525del:NP_001263625:p.F173fs|TP53:NM_001276697:c.159_165del:NP_001263626:p.F53fs|TP53:NM_001276698:c.159_165del:NP_001263627:p.F53fs|TP53:NM_001276699:c.159_165del:NP_001263628:p.F53fs|TP53:NM_001276760:c.519_525del:NP_001263689:p.F173fs|TP53:NM_001276761:c.519_525del:NP_001263690:p.F173fs",{"$nulls":5},"Pathogenic_others"]
["TP53",{"$nulls":49},"2/17 (11.76%)",{"$nulls":22},"chr17",7578471,7578476,"GGGCGG","-","chr17:g.7578470C>-GGGCGG (NC_000017.10)",{"$nulls":3},"COSM6806439,COSM6806443,COSM6806442,COSM6806445,COSM6806444,COSM6806441,COSM6806440","1(large_intestine)","nonframeshift deletion",null,"TP53:NM_000546:c.454_459del:NP_000537:p.152_153del|TP53:NM_001126112:c.454_459del:NP_001119584:p.152_153del|TP53:NM_001126113:c.454_459del:NP_001119585:p.152_153del|TP53:NM_001126114:c.454_459del:NP_001119586:p.152_153del|TP53:NM_001126115:c.58_63del:NP_001119587:p.20_21del|TP53:NM_001126116:c.58_63del:NP_001119588:p.20_21del|TP53:NM_001126117:c.58_63del:NP_001119589:p.20_21del|TP53:NM_001126118:c.337_342del:NP_001119590:p.113_114del|TP53:NM_001276695:c.337_342del:NP_001263624:p.113_114del|TP53:NM_001276696:c.337_342del:NP_001263625:p.113_114del|TP53:NM_001276760:c.337_342del:NP_001263689:p.113_114del|TP53:NM_001276761:c.337_342del:NP_001263690:p.113_114del",{"$nulls":5},"Pathogenic_others"]
["TP53",{"$nulls":25},"16/23 (69.57%)",{"$nulls":46},"chr17",7578493,7578493,"C","T","chr17:g.7578493C>T (NC_000017.10)",{"$nulls":3},"COSM1158447,COSM1158445,COSM1158446,COSM1640860,COSM3378359,COSM1158448,COSM43609","6(ovary),3(breast),7(haematopoietic_and_lymphoid_tissue),2(stomach),2(urinary_tract),2(soft_tissue),4(pancreas),1(peritoneum),3(liver),5(oesophagus),1(adrenal_gland),3(skin),2(prostate),1(lung),3(upper_aerodigestive_tract),9(large_intestine),2(central_nervous_system)","stopgain","NEUTRAL","TP53:NM_000546:c.437G>A:NP_000537:p.W146X|TP53:NM_001126112:c.437G>A:NP_001119584:p.W146X|TP53:NM_001126113:c.437G>A:NP_001119585:p.W146X|TP53:NM_001126114:c.437G>A:NP_001119586:p.W146X|TP53:NM_001126115:c.41G>A:NP_001119587:p.W14X|TP53:NM_001126116:c.41G>A:NP_001119588:p.W14X|TP53:NM_001126117:c.41G>A:NP_001119589:p.W14X|TP53:NM_001126118:c.320G>A:NP_001119590:p.W107X|TP53:NM_001276695:c.320G>A:NP_001263624:p.W107X|TP53:NM_001276696:c.320G>A:NP_001263625:p.W107X|TP53:NM_001276760:c.320G>A:NP_001263689:p.W107X|TP53:NM_001276761:c.320G>A:NP_001263690:p.W107X",".",".",".","33","BLCA;ESCA;","Pathogenic_others"]
["TP53",{"$nulls":61},"14/21 (66.67%)",{"$nulls":10},"chr17",7579404,7579404,"A","-","chr17:g.7579403G>-A (NC_000017.10)",{"$nulls":5},"frameshift deletion",null,"TP53:NM_000546:c.283delT:NP_000537:p.S95fs|TP53:NM_001126112:c.283delT:NP_001119584:p.S95fs|TP53:NM_001126113:c.283delT:NP_001119585:p.S95fs|TP53:NM_001126114:c.283delT:NP_001119586:p.S95fs|TP53:NM_001126118:c.166delT:NP_001119590:p.S56fs|TP53:NM_001276695:c.166delT:NP_001263624:p.S56fs|TP53:NM_001276696:c.166delT:NP_001263625:p.S56fs|TP53:NM_001276760:c.166delT:NP_001263689:p.S56fs|TP53:NM_001276761:c.166delT:NP_001263690:p.S56fs",{"$nulls":5},"Pathogenic_others"]
["TP53",{"$nulls":21},"115/362 (31.77%)",{"$nulls":50},"chr17",7577609,7577609,"C","A","chr17:g.g.7577609C>A(NC_000017.10) (NC_000017.10)",null,"Pathogenic","rs878854073","COSM344605,COSM3787443,COSM344604,COSM344603,COSM1646848,COSM45135","4(breast),1(pancreas),4(lung),2(upper_aerodigestive_tract)","splicing","PATHOGENIC","TP53(NM_001276761:exon7:c.556-1G>T,NM_001276760:exon7:c.556-1G>T,NM_001276697:exon3:c.196-1G>T,NM_001276696:exon7:c.556-1G>T,NM_001276695:exon7:c.556-1G>T,NM_000546:exon7:c.673-1G>T,NM_001276698:exon3:c.196-1G>T,NM_001126112:exon7:c.673-1G>T,NM_001126113:exon7:c.673-1G>T,NM_001126115:exon3:c.277-1G>T,NM_001126114:exon7:c.673-1G>T,NM_001276699:exon3:c.196-1G>T,NM_001126118:exon6:c.556-1G>T,NM_001126117:exon3:c.277-1G>T,NM_001126116:exon3:c.277-1G>T)",".",".",".","24.4","LUSC;","Pathogenic_clinvar"]
["TP53",null,null,"180/283 (63.60%)",{"$nulls":69},"chr17",7577547,7577547,"C","T","chr17:g.g.7577547C>T(NC_000017.10) (NC_000017.10)",null,"Pathogenic","rs121912656","COSM3388189,COSM43606,COSM179807,COSM179805,COSM1640832,COSM179806","1(vulva),11(ovary),1(bone),13(breast),1(NS),5(stomach),16(haematopoietic_and_lymphoid_tissue),2(urinary_tract),1(kidney),6(pancreas),6(liver),27(oesophagus),4(skin),4(prostate),8(lung),7(upper_aerodigestive_tract),30(large_intestine),4(central_nervous_system)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.734G>A:NP_000537:p.G245D|TP53:NM_001126112:c.734G>A:NP_001119584:p.G245D|TP53:NM_001126113:c.734G>A:NP_001119585:p.G245D|TP53:NM_001126114:c.734G>A:NP_001119586:p.G245D|TP53:NM_001126115:c.338G>A:NP_001119587:p.G113D|TP53:NM_001126116:c.338G>A:NP_001119588:p.G113D|TP53:NM_001126117:c.338G>A:NP_001119589:p.G113D|TP53:NM_001126118:c.617G>A:NP_001119590:p.G206D|TP53:NM_001276695:c.617G>A:NP_001263624:p.G206D|TP53:NM_001276696:c.617G>A:NP_001263625:p.G206D|TP53:NM_001276697:c.257G>A:NP_001263626:p.G86D|TP53:NM_001276698:c.257G>A:NP_001263627:p.G86D|TP53:NM_001276699:c.257G>A:NP_001263628:p.G86D|TP53:NM_001276760:c.617G>A:NP_001263689:p.G206D|TP53:NM_001276761:c.617G>A:NP_001263690:p.G206D","Deleterious","Probably damaging","Probably damaging","33.0","BLCA;BRCA;COAD;HNSC;KIRC;LGG;LIHC;OV;PAAD;PRAD;READ;UCS;","Pathogenic_clinvar"]
["TP53",{"$nulls":16},"131/330 (39.70%)",{"$nulls":55},"chr17",7577082,7577082,"C","T","chr17:g.g.7577082C>T(NC_000017.10) (NC_000017.10)",null,"Pathogenic/Likely_pathogenic","rs786201059","COSM3522693,COSM10726,COSM99924,COSM1645467","3(vulva),3(ovary),11(breast),7(haematopoietic_and_lymphoid_tissue),6(stomach),5(urinary_tract),1(soft_tissue),5(liver),15(oesophagus),17(skin),7(lung),12(upper_aerodigestive_tract),5(large_intestine),4(central_nervous_system),1(biliary_tract),2(small_intestine)","nonsynonymous SNV","PATHOGENIC","TP53:NM_000546:c.856G>A:NP_000537:p.E286K|TP53:NM_001126112:c.856G>A:NP_001119584:p.E286K|TP53:NM_001126113:c.856G>A:NP_001119585:p.E286K|TP53:NM_001126114:c.856G>A:NP_001119586:p.E286K|TP53:NM_001126115:c.460G>A:NP_001119587:p.E154K|TP53:NM_001126116:c.460G>A:NP_001119588:p.E154K|TP53:NM_001126117:c.460G>A:NP_001119589:p.E154K|TP53:NM_001126118:c.739G>A:NP_001119590:p.E247K|TP53:NM_001276695:c.739G>A:NP_001263624:p.E247K|TP53:NM_001276696:c.739G>A:NP_001263625:p.E247K|TP53:NM_001276697:c.379G>A:NP_001263626:p.E127K|TP53:NM_001276698:c.379G>A:NP_001263627:p.E127K|TP53:NM_001276699:c.379G>A:NP_001263628:p.E127K|TP53:NM_001276760:c.739G>A:NP_001263689:p.E247K|TP53:NM_001276761:c.739G>A:NP_001263690:p.E247K","Deleterious","Probably damaging","Probably damaging","33.0","BRCA;ESCA;HNSC;LIHC;LUAD;OV;READ;SARC;SKCM;STAD;","Pathogenic_clinvar"]

{"sheet":"Table S2","index":1,"n_rows":9,"n_cols":6,"rows_kept":9,"merged":[[0,0,0,5],[1,1,1,2],[1,3,1,4]],"flags":["formulas_cached_only"]}
["Table S2: Comparison of driver gene mutations of lung cancer between \nTaiwanese patients and the Caucasian cohort in TCGA dataset."]
[null,"Taiwanese (72)",null,"Caucasians (1049)"]
[null,"Wild type (%)","Mutant (%)","Wild type (%)","Mutant (%)","p-value"]
["EGFR","46 (63.89)","26 (36.11)","946 (90.18)","103 (9.82)","<0.0001"]
["PIK3CA","68 (94.44)","4 (5.56)","957 (91.23)","92 (8.77)",0.5114]
["KRAS","68 (94.44)","4 (5.56)","882 (84.08)","167 (15.92)",0.0165]
["CTNNB1","69 (95.83)","3 (4.17)","1021 (97.33)","28 (2.67)",0.4445]
["MET","71 (98.61)","1 (1.39)","1014 (96.66)","35 (3.34)",0.7243]
["TP53","54 (75.00)","18 (25.00)","318 (30.31)","731 (69.69)","<0.0001"]

{"sheet":"Table S3","index":2,"n_rows":8,"n_cols":28,"rows_kept":8,"merged":[[0,0,0,27]],"flags":["formulas_cached_only"]}
["Table S3: List of trunk mutations of ClinVar pathogenic variants in four paired samples ."]
["Lung-T99","Lung-T364","Lung-T256","Lung-T69","Lung-T159","Lung-T251","Lung-T311","Lung-T65","Chrom_vep","PositionS_vep","PositionE_vep","Ref_vep","VarAllele_vep","Variants","PopFreqMax","clinvar_20190315","avsnp150.1","cosmic83","cosmic83OCCURENCE","FATHMMprediction","Type","HGVS","SIFT","PolyPhen 2 HDIV","PolyPhen 2 HVar","CADD","TCGA by location","Group"]
[{"$nulls":4},"116/144 (80.56%)","100/137 (72.99%)",null,null,"chr17",7577120,7577120,"C","T","chr17:g.7577120C>T (NC_000017.10)",0.001,"Pathogenic/Likely_pathogenic","rs28934576","COSM1645335,COSM10660,COSM99729,COSM3356963","2(salivary_gland),4(vulva),60(ovary),8(bone),89(breast),4(penis),3(NS),46(haematopoietic_and_lymphoid_tissue),36(stomach),4(soft_tissue),19(urinary_tract),43(pancreas),5(liver),2(genital_tract),45(oesophagus),13(skin),13(prostate),87(lung),1(cervix),48(upper_aerodigestive_tract),2(thymus),198(large_intestine),61(central_nervous_system),6(biliary_tract),1(fallopian_tube),14(endometrium)","PATHOGENIC","nonsynonymous SNV","TP53:NM_000546:c.818G>A:NP_000537:p.R273H|TP53:NM_001126112:c.818G>A:NP_001119584:p.R273H|TP53:NM_001126113:c.818G>A:NP_001119585:p.R273H|TP53:NM_001126114:c.818G>A:NP_001119586:p.R273H|TP53:NM_001126115:c.422G>A:NP_001119587:p.R141H|TP53:NM_001126116:c.422G>A:NP_001119588:p.R141H|TP53:NM_001126117:c.422G>A:NP_001119589:p.R141H|TP53:NM_001126118:c.701G>A:NP_001119590:p.R234H|TP53:NM_001276695:c.701G>A:NP_001263624:p.R234H|TP53:NM_001276696:c.701G>A:NP_001263625:p.R234H|TP53:NM_001276697:c.341G>A:NP_001263626:p.R114H|TP53:NM_001276698:c.341G>A:NP_001263627:p.R114H|TP53:NM_001276699:c.341G>A:NP_001263628:p.R114H|TP53:NM_001276760:c.701G>A:NP_001263689:p.R234H|TP53:NM_001276761:c.701G>A:NP_001263690:p.R234H","Deleterious","Possibly damaging","Benign",27.3,"BRCA;COAD;ESCA;GBM;HNSC;KIRC;LGG;LIHC;LUAD;LUSC;MESO;OV;PAAD;READ;SARC;STAD;UCEC;UCS;","Pathogenic_clinvar"]
[{"$nulls":4},"47/121 (38.84%)","22/69 (31.88%)",null,null,"chr3",178936082,178936082,"G","A","chr3:g.178936082G>A (NC_000003.11)",null,"Pathogenic/Likely_pathogenic","rs121913273","COSM760,COSM125369","9(salivary_gland),4(vulva),30(ovary),1(bone),313(breast),4(penis),4(haematopoietic_and_lymphoid_tissue),27(stomach),5(kidney),11(soft_tissue),55(urinary_tract),3(pancreas),11(liver),1(genital_tract),23(oesophagus),5(gastrointestinal_tract_(site_indeterminate)),1(pituitary),25(skin),2(prostate),26(lung),15(thyroid),29(cervix),33(upper_aerodigestive_tract),353(large_intestine),15(central_nervous_system),3(small_intestine),6(biliary_tract),62(endometrium)","PATHOGENIC","nonsynonymous SNV","PIK3CA:NM_006218:c.1624G>A:NP_006209:p.E542K","Deleterious","Probably damaging","Probably damaging",27.3,"BLCA;BRCA;CESC;COAD;DLBC;GBM;HNSC;KIRC;KIRP;LGG;LIHC;LUAD;LUSC;PRAD;STAD;UCEC;","Pathogenic_clinvar"]
[null,null,"26/149 (17.45%)","15/129 (11.63%)",{"$nulls":4},"chr7",55242465,55242479,"GGAATTAAGAGAAGC","-","chr7:g.55242464A>-GGAATTAAGAGAAGC (NC_000007.13)",null,"drug_response","rs121913421","COSM6223","4(salivary_gland),2(ovary),1(NS),1(stomach),1(oesophagus),1026(lung),2(thyroid),3(upper_aerodigestive_tract)",null,"nonframeshift deletion","EGFR:NM_005228:c.2235_2249del:NP_005219:p.745_750del",{"$nulls":4},"LUAD;","Pathogenic_clinvar"]
["46/104 (44.23%)","48/112 (42.86%)",{"$nulls":6},"chr7",55249071,55249071,"C","T","chr7:g.55249071C>T (NC_000007.13)",0.0001,"drug_response","rs121434569","COSM6240","3(breast),1(soft_tissue),298(lung),2(upper_aerodigestive_tract),1(central_nervous_system),1(biliary_tract)","PATHOGENIC","nonsynonymous SNV","EGFR:NM_005228:c.2369C>T:NP_005219:p.T790M","Deleterious","Probably damaging","Probably damaging",34,"LUAD;","Pathogenic_clinvar"]
["74/175 (42.29%)","95/210 (45.24%)",{"$nulls":4},"291/407 (71.50%)","259/378 (68.52%)","chr7",55259515,55259515,"T","G","chr7:g.55259515T>G (NC_000007.13)",null,"drug_response","rs121434568","COSM6224","1(ovary),12(breast),1(stomach),1(peritoneum),1(prostate),2329(lung),6(thyroid),1(upper_aerodigestive_tract),1(thymus),2(large_intestine)","PATHOGENIC","nonsynonymous SNV","EGFR:NM_005228:c.2573T>G:NP_005219:p.L858R","Deleterious","Probably damaging","Probably damaging",33,"LUAD;","Pathogenic_clinvar"]
[null,null,"20/78 (25.64%)","12/91 (13.19%)",{"$nulls":4},"chrX",31224785,31224785,"C","T","chrX:g.31224785C>T (NC_000023.10)",null,"Pathogenic","rs398124096",{"$nulls":3},"splicing","DMD(NM_004009:exon66:c.9552-1G>A,NM_004023:exon23:c.2184-1G>A,NM_004012:exon38:c.5532-1G>A,NM_004022:exon23:c.2184-1G>A,NM_004011:exon38:c.5541-1G>A,NM_004015:exon5:c.360-1G>A,NM_004020:exon23:c.2184-1G>A,NM_004018:exon5:c.360-1G>A,NM_004017:exon5:c.360-1G>A,NM_000109:exon66:c.9540-1G>A,NM_004021:exon23:c.2184-1G>A,NM_004013:exon23:c.2184-1G>A,NM_004016:exon5:c.360-1G>A,NM_004014:exon12:c.1377-1G>A,NM_004006:exon66:c.9564-1G>A,NM_004010:exon66:c.9195-1G>A,NM_004019:exon5:c.360-1G>A)",".",".",".",25.1,null,"Pathogenic_clinvar"]

{"sheet":"Table S4","index":3,"n_rows":48,"n_cols":28,"rows_kept":48,"merged":[[0,0,0,27]],"flags":["formulas_cached_only"]}
["Table S4: List of trunk and branch mutations of prediction pathogenic variants in four paired samples."]
["Lung-T99","Lung-T364","Lung-T256","Lung-T69","Lung-T159","Lung-T251","Lung-T311","Lung-T65","Chrom_vep","PositionS_vep","PositionE_vep","Ref_vep","VarAllele_vep","Variants","PopFreqMax","clinvar_20190315","avsnp150.1","cosmic83","cosmic83OCCURENCE","FATHMMprediction","Type","HGVS","SIFT","PolyPhen 2 HDIV","PolyPhen 2 HVar","CADD","TCGA by location","Group"]
[{"$nulls":6},"31/98 (31.63%)","18/80 (22.50%)","chrX",47041678,47041678,"G","T","chrX:g.47041678G>T (NC_000023.10)",{"$nulls":6},"stopgain","RBM10:NM_001204466:c.1672G>T:NP_001191395:p.E558X|RBM10:NM_001204467:c.1900G>T:NP_001191396:p.E634X|RBM10:NM_001204468:c.2098G>T:NP_001191397:p.E700X|RBM10:NM_005676:c.1903G>T:NP_005667:p.E635X|RBM10:NM_152856:c.1669G>T:NP_690595:p.E557X",".",".",".",40,null,"Pathogenic_others"]
[{"$nulls":4},"17/76 (22.37%)","23/65 (35.38%)",null,null,"chr1",93298979,93298979,"T","G","chr1:g.93298979T>G (NC_000001.10)",{"$nulls":6},"nonsynonymous SNV","RPL5:NM_000969:c.37T>G:NP_000960:p.F13V","Deleterious","Possibly damaging","Possibly damaging",28.3,null,"Pathogenic_prediction"]
[{"$nulls":4},"55/151 (36.42%)","29/71 (40.85%)",null,null,"chr7",106513257,106513257,"C","G","chr7:g.106513257C>G (NC_000007.13)",{"$nulls":6},"nonsynonymous SNV","PIK3CG:NM_001282426:c.2161C>G:NP_001269355:p.L721V|PIK3CG:NM_001282427:c.2161C>G:NP_001269356:p.L721V|PIK3CG:NM_002649:c.2161C>G:NP_002640:p.L721V","Deleterious","Probably damaging","Possibly damaging",23.8,null,"Pathogenic_prediction"]
["4/13 (30.77%)","8/17 (47.06%)",{"$nulls":6},"chr11",64535613,64535613,"G","A","chr11:g.64535613G>A (NC_000011.9)",{"$nulls":3},"COSM1509538,COSM1509537","1(skin),1(lung)","PATHOGENIC","nonsynonymous SNV","SF1:NM_001178030:c.1408C>T:NP_001171501:p.R470C|SF1:NM_001178031:c.955C>T:NP_001171502:p.R319C|SF1:NM_004630:c.1033C>T:NP_004621:p.R345C|SF1:NM_201995:c.1033C>T:NP_973724:p.R345C|SF1:NM_201997:c.1033C>T:NP_973726:p.R345C|SF1:NM_201998:c.1033C>T:NP_973727:p.R345C","Deleterious","Probably damaging","Probably damaging",28.8,"LUAD;","Pathogenic_prediction"]
[{"$nulls":4},"64/111 (57.66%)","45/85 (52.94%)",null,null,"chr20",57415366,57415366,"C","A","chr20:g.57415366C>A (NC_000020.10)",0.005,null,"rs187415363","COSM1645432","1(large_intestine)","PATHOGENIC","nonsynonymous SNV","GNAS:NM_016592:c.205C>A:NP_057676:p.H69N","Deleterious","Probably damaging","Possibly damaging",24.1,null,"Pathogenic_prediction"]
[{"$nulls":3},"3/13 (23.08%)",{"$nulls":4},"chr6",31324465,31324465,"C","T","chr6:g.31324465C>T (NC_000006.11)",0.0008,null,"rs137854696","COSM4006333","1(urinary_tract),1(thyroid)","NEUTRAL","nonsynonymous SNV","HLA-B:NM_005514:c.343G>A:NP_005505:p.G115R","Deleterious","Probably damaging","Probably damaging",26.8,"BLCA;GBM;","Pathogenic_prediction"]
[{"$nulls":4},"9/87 (10.34%)","9/60 (15.00%)",null,null,"chr5",176637570,176637570,"G","A","chr5:g.176637570G>A (NC_000005.9)",0.0016,"Likely_benign","rs771456995","COSM1581355,COSM1581354","1(haematopoietic_and_lymphoid_tissue)","PATHOGENIC","nonsynonymous SNV","NSD1:NM_022455:c.2170G>A:NP_071900:p.E724K|NSD1:NM_172349:c.1363G>A:NP_758859:p.E455K","Deleterious","Probably damaging","Possibly damaging",22.6,null,"Pathogenic_prediction"]
["35/263 (13.31%)","29/277 (10.47%)",{"$nulls":6},"chr7",74162369,74162369,"C","-","chr7:g.74162368T>-C (NC_000007.13)",{"$nulls":6},"frameshift deletion","GTF2I:NM_001163636:c.2020delC:NP_001157108:p.P674fs|GTF2I:NM_001518:c.1963delC:NP_001509:p.P655fs|GTF2I:NM_032999:c.2086delC:NP_127492:p.P696fs|GTF2I:NM_033000:c.2026delC:NP_127493:p.P676fs|GTF2I:NM_033001:c.2023delC:NP_127494:p.P675fs",{"$nulls":5},"Pathogenic_others"]
["34/87 (39.08%)","22/60 (36.67%)",{"$nulls":6},"chr12",46123662,46123662,"A","C","chr12:g.46123662A>C (NC_000012.11)",0.0007,null,"rs774482788",{"$nulls":3},"nonsynonymous SNV","ARID2:NM_152641:c.43A>C:NP_689854:p.K15Q","Deleterious","Probably damaging","Probably damaging",22.1,null,"Pathogenic_prediction"]
[null,"2/12 (16.67%)",{"$nulls":6},"chr12",46233114,46233114,"-","G","chr12:g.46233114A>+G (NC_000012.11)",{"$nulls":6},"frameshift insertion","ARID2:NM_152641:c.1333_1334insG:NP_689854:p.M445fs",{"$nulls":5},"Pathogenic_others"]
[{"$nulls":4},"34/45 (75.56%)","22/37 (59.46%)",null,null,"chr12",46285690,46285690,"A","T","chr12:g.46285690A>T (NC_000012.11)",{"$nulls":6},"nonsynonymous SNV","ARID2:NM_152641:c.5050A>T:NP_689854:p.T1684S","Deleterious","Probably damaging","Probably damaging",22.2,null,"Pathogenic_prediction"]
[null,"3/24 (12.50%)",{"$nulls":6},"chr12",46298732,46298732,"T","G","chr12:g.46298732T>G (NC_000012.11)",{"$nulls":6},"nonsynonymous SNV","ARID2:NM_152641:c.5379T>G:NP_689854:p.H1793Q","Deleterious","Probably damaging","Probably damaging",24.1,null,"Pathogenic_prediction"]
[{"$nulls":4},"21/63 (33.33%)","14/51 (27.45%)",null,null,"chr7",151904433,151904433,"C","A","chr7:g.151904433C>A (NC_000007.13)",{"$nulls":6},"stopgain","KMT2C:NM_170606:c.3793G>T:NP_733751:p.E1265X",".",".",".",41,null,"Pathogenic_others"]
[null,"13/130 (10.00%)",{"$nulls":5},"16/132 (12.12%)","chr7",151927023,151927023,"G","C","chr7:g.151927023G>C (NC_000007.13)",null,null,"rs58528565","COSM216053,COSM216054","1(thyroid),2(central_nervous_system)","PATHOGENIC","stopgain","KMT2C:NM_170606:c.2961C>G:NP_733751:p.Y987X",".",".",".",37,null,"Pathogenic_others"]
[{"$nulls":6},"25/239 (10.46%)","25/218 (11.47%)","chr7",151927067,151927067,"T","C","chr7:g.151927067T>C (NC_000007.13)",null,null,"rs60244562","COSM4161993,COSM4161994","1(bone),1(thyroid),1(large_intestine)","PATHOGENIC","nonsynonymous SNV","KMT2C:NM_170606:c.2917A>G:NP_733751:p.R973G","Deleterious","Probably damaging","Probably damaging",25.1,"HNSC;STAD;","Pathogenic_prediction"]
[{"$nulls":3},"9/68 (13.24%)",{"$nulls":4},"chr7",151933014,151933014,"C","T","chr7:g.151933014C>T (NC_000007.13)",0.0015,null,"rs112773078","COSM4387636,COSM4387635","1(pancreas),1(skin)","PATHOGENIC","nonsynonymous SNV","KMT2C:NM_170606:c.2657G>A:NP_733751:p.R886H","Deleterious","Probably damaging","Possibly damaging",35,null,"Pathogenic_prediction"]
["16/79 (20.25%)",{"$nulls":3},"22/91 (24.18%)","23/69 (33.33%)","10/92 (10.87%)","14/69 (20.29%)","chr7",151933015,151933015,"G","A","chr7:g.151933015G>A (NC_000007.13)",null,null,"rs199796679","COSM4162002,COSM4162001","1(bone),2(oesophagus),6(thyroid),1(large_intestine)","PATHOGENIC","nonsynonymous SNV","KMT2C:NM_170606:c.2656C>T:NP_733751:p.R886C","Deleterious","Probably damaging","Probably damaging",35,null,"Pathogenic_prediction"]
["3/20 (15.00%)","5/39 (12.82%)","3/16 (18.75%)","5/39 (12.82%)","7/39 (17.95%)","8/28 (28.57%)","10/33 (30.30%)","3/18 (16.67%)","chr7",151935799,151935799,"A","G","chr7:g.151935799A>G (NC_000007.13)",null,null,"rs199839047","COSM4162005,COSM4162006","3(thyroid)","PATHOGENIC","nonsynonymous SNV","KMT2C:NM_170606:c.2645T>C:NP_733751:p.I882T","Deleterious","Probably damaging","Possibly damaging",23.9,null,"Pathogenic_prediction"]
[{"$nulls":4},"7/67 (10.45%)","9/58 (15.52%)","13/63 (20.63%)",null,"chr7",151935871,151935871,"C","A","chr7:g.151935871C>A (NC_000007.13)",null,null,"rs111493987","COSM4162009,COSM4162010","1(lung),4(thyroid),2(large_intestine)","PATHOGENIC","nonsynonymous SNV","KMT2C:NM_170606:c.2573G>T:NP_733751:p.W858L","Deleterious","Probably damaging","Probably damaging",25.8,"CHOL;","Pathogenic_prediction"]
[{"$nulls":4},"4/26 (15.38%)",{"$nulls":3},"chr12",49445352,49445378,"GAGTCCTCAGGTGGTGGGGATGTGGGG","-","chr12:g.49445351T>-GAGTCCTCAGGTGGTGGGGATGTGGGG (NC_000012.11)",null,"Benign","rs780334086",{"$nulls":3},"nonframeshift deletion","KMT2D:NM_003482:c.2088_2114del:NP_003473:p.696_705del",{"$nulls":5},"Pathogenic_others"]
["3/20 (15.00%)",null,"3/29 (10.34%)",null,"6/60 (10.00%)",{"$nulls":3},"chr9",80537223,80537223,"T","G","chr9:g.80537223T>G (NC_000009.11)",0.0011,null,"rs773781296","COSM6304070,COSM6304069","1(liver)","PATHOGENIC","nonsynonymous SNV","GNAQ:NM_002072:c.175A>C:NP_002063:p.M59L","Deleterious","Possibly damaging","Possibly damaging",27.2,null,"Pathogenic_prediction"]
[{"$nulls":6},"37/48 (77.08%)","31/43 (72.09%)","chr9",5080268,5080268,"T","C","chr9:g.5080268T>C (NC_000009.11)",0.0003,"Uncertain_significance","rs372254348","COSM6495316","1(haematopoietic_and_lymphoid_tissue)","PATHOGENIC","nonsynonymous SNV","JAK2:NM_001322194:c.2171T>C:NP_001309123:p.I724T|JAK2:NM_001322195:c.2171T>C:NP_001309124:p.I724T|JAK2:NM_001322196:c.2171T>C:NP_001309125:p.I724T|JAK2:NM_001322198:c.956T>C:NP_001309127:p.I319T|JAK2:NM_001322199:c.956T>C:NP_001309128:p.I319T|JAK2:NM_001322204:c.1724T>C:NP_001309133:p.I575T|JAK2:NM_004972:c.2171T>C:NP_004963:p.I724T","Deleterious","Possibly damaging","Possibly damaging",26.3,null,"Pathogenic_prediction"]
[{"$nulls":4},"2/19 (10.53%)",{"$nulls":3},"chr3",47158125,47158125,"A","G","chr3:g.47158125A>G (NC_000003.11)",{"$nulls":6},"nonsynonymous SNV","SETD2:NM_014159:c.4574T>C:NP_054878:p.L1525P","Deleterious","Probably damaging","Probably damaging",33,null,"Pathogenic_prediction"]
[null,null,"15/64 (23.44%)","21/73 (28.77%)",{"$nulls":4},"chr1",39853233,39853233,"A","G","chr1:g.39853233A>G (NC_000001.10)",0,null,"rs781047758",{"$nulls":3},"nonsynonymous SNV","MACF1:NM_012090:c.8533A>G:NP_036222:p.K2845E","Deleterious","Probably damaging","Probably damaging",22.7,null,"Pathogenic_prediction"]
[{"$nulls":6},"17/67 (25.37%)","18/54 (33.33%)","chr2",21230328,21230328,"G","C","chr2:g.21230328G>C (NC_000002.11)",0.0006,null,"rs755753065",{"$nulls":3},"nonsynonymous SNV","APOB:NM_000384:c.9412C>G:NP_000375:p.P3138A","Deleterious","Probably damaging","Probably damaging",14.21,null,"Pathogenic_prediction"]
[{"$nulls":6},"25/248 (10.08%)",null,"chr11",1017092,1017092,"G","C","chr11:g.1017092G>C (NC_000011.9)",0.0011,null,"rs748974740",{"$nulls":3},"nonsynonymous SNV","MUC6:NM_005961:c.5709C>G:NP_005952:p.S1903R","Deleterious","Probably damaging","Probably damaging",16.75,"HNSC;KIRC;SARC;TGCT;UCS;","Pathogenic_prediction"]
["26/152 (17.11%)","33/193 (17.10%)","33/301 (10.96%)",null,"57/493 (11.56%)","34/283 (12.01%)","51/307 (16.61%)","41/304 (13.49%)","chr11",1017661,1017663,"TGT","-","chr11:g.1017660A>-TGT (NC_000011.9)",0.0002,null,"rs770765288","COSM5420173,COSM5420174","1(pancreas)",null,"nonframeshift deletion","MUC6:NM_005961:c.5138_5140del:NP_005952:p.1713_1714del",{"$nulls":4},"KIRC;LUAD;PRAD;THCA;","Pathogenic_others"]
["36/57 (63.16%)","35/47 (74.47%)",{"$nulls":6},"chr17",7578517,7578517,"G","A","chr17:g.7578517G>A (NC_000017.10)",0,"Uncertain_significance","rs750600586","COSM288784,COSM288785,COSM288787,COSM43818,COSM3421939,COSM3421938,COSM288786","1(vulva),2(ovary),2(breast),3(stomach),4(haematopoietic_and_lymphoid_tissue),1(soft_tissue),3(liver),1(oesophagus),1(skin),1(lung),7(large_intestine),1(central_nervous_system),2(endometrium)","PATHOGENIC","nonsynonymous SNV","TP53:NM_000546:c.413C>T:NP_000537:p.A138V|TP53:NM_001126112:c.413C>T:NP_001119584:p.A138V|TP53:NM_001126113:c.413C>T:NP_001119585:p.A138V|TP53:NM_001126114:c.413C>T:NP_001119586:p.A138V|TP53:NM_001126115:c.17C>T:NP_001119587:p.A6V|TP53:NM_001126116:c.17C>T:NP_001119588:p.A6V|TP53:NM_001126117:c.17C>T:NP_001119589:p.A6V|TP53:NM_001126118:c.296C>T:NP_001119590:p.A99V|TP53:NM_001276695:c.296C>T:NP_001263624:p.A99V|TP53:NM_001276696:c.296C>T:NP_001263625:p.A99V|TP53:NM_001276760:c.296C>T:NP_001263689:p.A99V|TP53:NM_001276761:c.296C>T:NP_001263690:p.A99V","Deleterious","Possibly damaging","Possibly damaging",27.4,"ESCA;READ;","Pathogenic_prediction"]
[{"$nulls":6},"3/20 (15.00%)",null,"chr3",142274739,142274739,"-","T","chr3:g.142274739A>+T (NC_000003.11)",0.0084,null,"rs778867790","COSM1617015","1(liver),1(large_intestine),3(endometrium)",null,"frameshift insertion","ATR:NM_001184:c.2320dupA:NP_001175:p.I774fs",{"$nulls":4},"BLCA;GBM;LUAD;UCEC;","Pathogenic_others"]
[{"$nulls":6},"15/56 (26.79%)","12/40 (30.00%)","chr5",80040376,80040376,"A","G","chr5:g.80040376A>G (NC_000005.9)",0.0001,null,"rs772419130",{"$nulls":3},"nonsynonymous SNV","MSH3:NM_002439:c.1705A>G:NP_002430:p.T569A","Deleterious","Probably damaging","Probably damaging",26.9,null,"Pathogenic_prediction"]
[{"$nulls":4},"20/94 (21.28%)","16/82 (19.51%)",null,null,"chr17",44109457,44109457,"C","A","chr17:g.44109457C>A (NC_000017.10)",{"$nulls":6},"stopgain","KANSL1:NM_001193465:c.3043G>T:NP_001180394:p.E1015X|KANSL1:NM_001193466:c.3046G>T:NP_001180395:p.E1016X|KANSL1:NM_015443:c.3046G>T:NP_056258:p.E1016X",".",".",".",45,null,"Pathogenic_others"]
[{"$nulls":6},"24/31 (77.42%)","36/52 (69.23%)","chr11",1029544,1029544,"C","T","chr11:g.1029544C>T (NC_000011.9)",{"$nulls":6},"nonsynonymous SNV","MUC6:NM_005961:c.1087G>A:NP_005952:p.G363S","Deleterious","Probably damaging","Probably damaging",22.9,null,"Pathogenic_prediction"]
[{"$nulls":4},"19/46 (41.30%)","15/34 (44.12%)",null,null,"chr19",47424219,47424219,"C","T","chr19:g.47424219C>T (NC_000019.9)",0.0079,null,"rs184959520",{"$nulls":3},"nonsynonymous SNV","ARHGAP35:NM_004491:c.2287C>T:NP_004482:p.R763C","Deleterious","Probably damaging","Probably damaging",33,null,"Pathogenic_prediction"]
[{"$nulls":4},"23/28 (82.14%)","15/25 (60.00%)",null,null,"chrX",53657897,53657897,"T","C","chrX:g.53657897T>C (NC_000023.10)",{"$nulls":6},"nonsynonymous SNV","HUWE1:NM_031407:c.852A>G:NP_113584:p.I284M","Deleterious","Probably damaging","Possibly damaging",25.8,null,"Pathogenic_prediction"]
[null,null,"4/14 (28.57%)",{"$nulls":5},"chr20",22563452,22563452,"T","C","chr20:g.22563452T>C (NC_000020.10)",0.0069,null,"rs377224269",{"$nulls":3},"nonsynonymous SNV","FOXA2:NM_021784:c.428A>G:NP_068556:p.Y143C|FOXA2:NM_153675:c.410A>G:NP_710141:p.Y137C","Deleterious","Probably damaging","Probably damaging",24.7,null,"Pathogenic_prediction"]
["3/29 (10.34%)",{"$nulls":7},"chr22",22123546,22123546,"T","G","chr22:g.22123546T>G (NC_000022.10)",{"$nulls":6},"nonsynonymous SNV","MAPK1:NM_002745:c.1030A>C:NP_002736:p.K344Q|MAPK1:NM_138957:c.1030A>C:NP_620407:p.K344Q","Deleterious","Probably damaging","Probably damaging",22,null,"Pathogenic_prediction"]
[{"$nulls":3},"6/20 (30.00%)",{"$nulls":4},"chr6",29910627,29910627,"A","T","chr6:g.29910627A>T (NC_000006.11)",0.0034,null,"rs201603558","COSM5887318,COSM5887317","2(skin)","NEUTRAL","nonsynonymous SNV","HLA-A:NM_001242758:c.167A>T:NP_001229687:p.Q56L|HLA-A:NM_002116:c.167A>T:NP_002107:p.Q56L","Deleterious","Probably damaging","Probably damaging",26.7,"GBM;LGG;","Pathogenic_prediction"]
[null,null,"6/40 (15.00%)",{"$nulls":5},"chr3",121263714,121263714,"-","C","chr3:g.121263714T>+C (NC_000003.11)",{"$nulls":6},"frameshift insertion","POLQ:NM_199420:c.202_203insG:NP_955452:p.K68fs",{"$nulls":5},"Pathogenic_others"]
[{"$nulls":5},"2/14 (14.29%)",null,null,"chr11",69465988,69465990,"GAG","-","chr11:g.69465987A>-GAG (NC_000011.9)",0.0023,null,"rs753296543","COSM1356611,COSM931394","2(large_intestine),1(endometrium)",null,"nonframeshift deletion","CCND1:NM_053056:c.826_828del:NP_444284:p.276_276del",{"$nulls":4},"BLCA;COAD;ESCA;HNSC;LIHC;PAAD;UCEC;","Pathogenic_others"]
[null,"4/17 (23.53%)",{"$nulls":6},"chrX",66765158,66765158,"-","GCAGCAGCAGCA","chrX:g.66765158T>+GCAGCAGCAGCA (NC_000023.10)",{"$nulls":6},"nonframeshift insertion","AR:NM_000044:c.170_171insGCAGCAGCAGCA:NP_000035:p.L57delinsLQQQQ",{"$nulls":5},"Pathogenic_others"]
[{"$nulls":6},"2/12 (16.67%)","3/18 (16.67%)","chr8",55370925,55370925,"T","C","chr8:g.55370925T>C (NC_000008.10)",{"$nulls":6},"nonsynonymous SNV","SOX17:NM_022454:c.227T>C:NP_071899:p.M76T","Deleterious","Probably damaging","Probably damaging",27.5,null,"Pathogenic_prediction"]
[null,"13/124 (10.48%)",{"$nulls":6},"chr1",226252138,226252138,"G","C","chr1:g.226252138G>C (NC_000001.10)",{"$nulls":3},"COSM6424918","1(thyroid)","PATHOGENIC","nonsynonymous SNV","H3F3A:NM_002107:c.86G>C:NP_002098:p.S29T","Deleterious","Probably damaging","Probably damaging",17.48,null,"Pathogenic_prediction"]
["6/51 (11.76%)",{"$nulls":7},"chrX",70642995,70642995,"A","C","chrX:g.70642995A>C (NC_000023.10)",{"$nulls":6},"nonsynonymous SNV","TAF1:NM_001286074:c.4541A>C:NP_001273003:p.K1514T|TAF1:NM_004606:c.4541A>C:NP_004597:p.K1514T|TAF1:NM_138923:c.4478A>C:NP_620278:p.K1493T","Deleterious","Probably damaging","Probably damaging",27.4,null,"Pathogenic_prediction"]
[null,null,"50/75 (66.67%)","44/84 (52.38%)",{"$nulls":4},"chr16",68847374,68847374,"C","G","chr16:g.68847374C>G (NC_000016.9)",0,"Uncertain_significance","rs187862045",{"$nulls":3},"nonsynonymous SNV","CDH1:NM_004360:c.1296C>G:NP_004351:p.N432K","Deleterious","Probably damaging","Probably damaging",23.4,null,"Pathogenic_prediction"]
["11/86 (12.79%)","26/119 (21.85%)","45/198 (22.73%)","50/211 (23.70%)","111/366 (30.33%)","44/182 (24.18%)","39/207 (18.84%)","39/213 (18.31%)","chr11",1017041,1017041,"G","T","chr11:g.1017041G>T (NC_000011.9)",0.0023,null,"rs75482640","COSM3931190,COSM3931191","2(urinary_tract),3(thyroid),20(upper_aerodigestive_tract)","NEUTRAL","stopgain","MUC6:NM_005961:c.5760C>A:NP_005952:p.Y1920X",".",".",".",33,null,"Pathogenic_others"]
[{"$nulls":4},"38/44 (86.36%)","19/25 (76.00%)",null,null,"chrX",44969391,44969391,"G","C","chrX:g.44969391G>C (NC_000023.10)",{"$nulls":6},"nonsynonymous SNV","KDM6A:NM_001291415:c.4229G>C:NP_001278344:p.C1410S|KDM6A:NM_001291416:c.4094G>C:NP_001278345:p.C1365S|KDM6A:NM_001291417:c.3938G>C:NP_001278346:p.C1313S|KDM6A:NM_001291418:c.3836G>C:NP_001278347:p.C1279S|KDM6A:NM_001291421:c.3185G>C:NP_001278350:p.C1062S|KDM6A:NM_021140:c.4073G>C:NP_066963:p.C1358S","Deleterious","Probably damaging","Probably damaging",25.8,null,"Pathogenic_prediction"]

{"sheet":"Table S5","index":4,"n_rows":19,"n_cols":8,"rows_kept":19,"merged":[[0,0,0,7]],"flags":["formulas_cached_only"]}
["Table S5: List of differentially expressed genes with a fold change in expression >4 in four paired samples "]
["Gene","biotype","Lung-T65","Lung-T311","Lung-T65_log2plus1","Lung-T311_log2plus1","Log2FC","higher_sample"]
["FGFR2|ENSG00000066468","protein_coding",44.241674,7.841809,5.499580406770744,3.144341569653996,2.355238837116748,"Lung-T65"]
["PRKAR1A|ENSG00000108946","protein_coding",185.339557,24.97237599999999,7.541790158364017,4.698906095296432,2.842884063067585,"Lung-T65"]
["MYC|ENSG00000136997","protein_coding",1.490871,20.845291,1.31665030761674,4.449250418864075,-3.132600111247336,"Lung-T311"]
["MYD88|ENSG00000172936","protein_coding",73.686338,12.044952,6.222772457014674,3.705419730534535,2.517352726480139,"Lung-T65"]
[]
["Gene","biotype","Lung-T69","Lung-T256","Lung-T69_log2plus1","Lung-T256_log2plus1","Log2FC","higher_sample"]
["MYD88|ENSG00000172936","protein_coding",3.496732,22.058833,2.168876903621684,4.527247595400211,-2.358370691778527,"Lung-T256"]
[]
["Gene","biotype","Lung-T99","Lung-T364","Lung-T99_log2plus1","Lung-T364_log2plus1","Log2FC","higher_sample"]
["KMT2C|ENSG00000055609","protein_coding",4.06378,19.635138,2.340214727079921,4.367031181463466,-2.026816454383545,"Lung-T364"]
["GNA11|ENSG00000088256","protein_coding",4.734042,37.615067,2.519552471890924,5.271091969450473,-2.751539497559549,"Lung-T364"]
["ALB|ENSG00000163631","protein_coding",17.949634,325.665944,4.244098078825461,8.35167224668314,-4.107574167857679,"Lung-T364"]
["B2M|ENSG00000166710","protein_coding",381.117643,4217.238395999999,8.577873060610644,12.04242491677994,-3.464551856169299,"Lung-T364"]
[]
["Gene","biotype","Lung-T159","Lung-T251","Lung-T159_log2plus1","Lung-T251_log2plus1","Log2FC","higher_sample"]
["KLF5|ENSG00000102554","protein_coding",434.975855,68.59962499999999,8.768104428363348,6.121007627799041,2.647096800564307,"Lung-T159"]
["CDKN2A|ENSG00000147889","protein_coding",0.462195,25.68556599999999,0.548135723583915,4.737987706053704,-4.189851982469789,"Lung-T251"]

{"sheet":"Table S6","index":5,"n_rows":25,"n_cols":97,"rows_kept":25,"merged":[[0,0,0,96]],"flags":["formulas_cached_only"]}
["Table S6: Novel mutations in cancer driver genes."]
["Frequency","Clinical outcome (months of follow-up)"," Histology ","ALL_count","Gene","F7-025","F7-032","F7-045","F7-056","F7-057","F7-072","F7-074","F7-084","F7-087","F7-100","F7-144","F7-153","F7-170","F7-176","F7-180","F7-185","F7-188","F7-202","F7-203","F8-083","F8-078","F8-130","F8-137","Lung-T115","Lung-T123","Lung-T143","Lung-T151","Lung-T159","Lung-T185","Lung-T191","Lung-T203","Lung-T204","Lung-T210","Lung-T216","Lung-T218","Lung-T219","Lung-T227","Lung-T233","Lung-T235","Lung-T236","Lung-T246","Lung-T247","Lung-T250","Lung-T256","Lung-T258","Lung-T260","Lung-T267","Lung-T270","Lung-T289","Lung-T291","Lung-T293","Lung-T295","Lung-T311","Lung-T325","Lung-T327","Lung-T332","Lung-T333","Lung-T334","Lung-T336","Lung-T337","Lung-T339","Lung-T342","Lung-T344","Lung-T345","Lung-T346","Lung-T352","Lung-T368","Lung-T370","Lung-T371","Lung-T374","Lung-T95","Lung-T99","Chrom_vep","PositionS_vep","PositionE_vep","Ref_vep","VarAllele_vep","Variants","PopFreqMax","clinvar_20190315","avsnp150","cosmic83","cosmic83OCCURENCE","Type","FATHMMprediction","HGVS","SIFT","PolyPhen 2 HDIV","PolyPhen 2 HVar","CADD","TCGAbylocation","Group"]
["1/72","alive (101)","SqCC",1,"ARID1A",{"$nulls":26},"15/48 (31.25%)",{"$nulls":45},"chr1",27092776,27092776,"G","-","chr1:g.27092775A>-G (NC_000001.10)",{"$nulls":5},"frameshift deletion",null,"ARID1A:NM_006015:c.2797delG:NP_006006:p.G933fs|ARID1A:NM_139135:c.2797delG:NP_624361:p.G933fs",{"$nulls":5},"Pathogenic_others"]
["1/61","alive (27)","SqCC",1,"ARID2",{"$nulls":46},"5/47 (10.64%)",{"$nulls":25},"chr12",46205277,46205277,"C","T","chr12:g.46205277C>T (NC_000012.11)",{"$nulls":5},"stopgain",null,"ARID2:NM_152641:c.361C>T:NP_689854:p.Q121X",".",".",".","38",null,"Pathogenic_others"]
["1/61","dead (60)","ADC",1,"CDK12",{"$nulls":47},"4/25 (16.00%)",{"$nulls":24},"chr17",37649018,37649018,"G","T","chr17:g.37649018G>T (NC_000017.10)",{"$nulls":5},"nonsynonymous SNV",null,"CDK12:NM_015083:c.2123G>T:NP_055898:p.R708L|CDK12:NM_016507:c.2123G>T:NP_057591:p.R708L","Deleterious","Probably damaging","Probably damaging","35",null,"Pathogenic_prediction"]
["1/61","dead (9)","ADC",1,"CHEK2",{"$nulls":38},"9/39 (23.08%)",{"$nulls":33},"chr22",29099553,29099553,"G","A","chr22:g.29099553G>A (NC_000022.10)",{"$nulls":5},"nonsynonymous SNV",null,"CHEK2:NM_001005735:c.977C>T:NP_001005735:p.P326L|CHEK2:NM_001257387:c.185C>T:NP_001244316:p.P62L|CHEK2:NM_007194:c.848C>T:NP_009125:p.P283L|CHEK2:NM_145862:c.848C>T:NP_665861:p.P283L","Deleterious","Probably damaging","Possibly damaging","32",null,"Pathogenic_prediction"]
["2/61","dead (59), alive (98)","ADC",2,"CHEK2",{"$nulls":31},"3/17 (17.65%)",{"$nulls":10},"2/18 (11.11%)",{"$nulls":29},"chr22",29126530,29126530,"T","-","chr22:g.29126529C>-T (NC_000022.10)",{"$nulls":5},"frameshift deletion",null,"CHEK2:NM_001005735:c.326delA:NP_001005735:p.E109fs",{"$nulls":5},"Pathogenic_others"]
["1/61","dead (37)","ADC",1,"GNAS",{"$nulls":45},"95/134 (70.90%)",{"$nulls":26},"chr20",57428664,57428664,"G","A","chr20:g.57428664G>A (NC_000020.10)",{"$nulls":5},"stopgain",null,"GNAS:NM_080425:c.344G>A:NP_536350:p.W115X","Deleterious",".",".","36",null,"Pathogenic_others"]
["1/61","dead (9)","ADC",1,"GNAS",{"$nulls":38},"3/10 (30.00%)",{"$nulls":33},"chr20",57429744,57429744,"C","-","chr20:g.57429743G>-C (NC_000020.10)",{"$nulls":5},"frameshift deletion",null,"GNAS:NM_001077490:c.1237delC:NP_001070958:p.P413fs|GNAS:NM_001309883:c.1237delC:NP_001296812:p.P413fs|GNAS:NM_080425:c.1424delC:NP_536350:p.A475fs",{"$nulls":5},"Pathogenic_others"]
["1/61","alive (4)","ADC",1,"H3F3A",{"$nulls":11},"9/79 (11.39%)",{"$nulls":60},"chr1",226253407,226253407,"A","G","chr1:g.g.226253407A>G(NC_000001.10) (NC_000001.10)",{"$nulls":5},"nonsynonymous SNV",null,"H3F3A:NM_002107:c.179A>G:NP_002098:p.E60G","Deleterious","Probably damaging","Probably damaging","32.0",null,"Pathogenic_prediction"]
["1/61","alive (4)","ADC",1,"H3F3A",{"$nulls":11},"9/78 (11.54%)",{"$nulls":60},"chr1",226253401,226253401,"C","T","chr1:g.g.226253401C>T(NC_000001.10) (NC_000001.10)",{"$nulls":5},"nonsynonymous SNV",null,"H3F3A:NM_002107:c.173C>T:NP_002098:p.S58F","Deleterious","Probably damaging","Probably damaging","33.0",null,"Pathogenic_prediction"]
["1/61","alive (101)","SqCC",1,"KDM6A",{"$nulls":26},"27/31 (87.10%)",{"$nulls":45},"chrX",44918316,44918316,"C","G","chrX:g.44918316C>G (NC_000023.10)",{"$nulls":5},"stopgain",null,"KDM6A:NM_001291415:c.941C>G:NP_001278344:p.S314X|KDM6A:NM_001291416:c.941C>G:NP_001278345:p.S314X|KDM6A:NM_001291417:c.941C>G:NP_001278346:p.S314X|KDM6A:NM_001291418:c.941C>G:NP_001278347:p.S314X|KDM6A:NM_001291421:c.188C>G:NP_001278350:p.S63X|KDM6A:NM_021140:c.941C>G:NP_066963:p.S314X",".",".",".","36",null,"Pathogenic_others"]
["1/61","dead (50)","SqCC",1,"KMT2C",{"$nulls":28},"2/8 (25.00%)",{"$nulls":43},"chr7",151841811,151841811,"C","A","chr7:g.151841811C>A (NC_000007.13)",{"$nulls":5},"nonsynonymous SNV",null,"KMT2C:NM_170606:c.14330G>T:NP_733751:p.R4777L","Deleterious","Probably damaging","Probably damaging","35",null,"Pathogenic_prediction"]
["1/61","dead (24)","SqCC",1,"KMT2C",{"$nulls":27},"21/63 (33.33%)",{"$nulls":44},"chr7",151904433,151904433,"C","A","chr7:g.151904433C>A (NC_000007.13)",{"$nulls":5},"stopgain",null,"KMT2C:NM_170606:c.3793G>T:NP_733751:p.E1265X",".",".",".","41",null,"Pathogenic_others"]
["1/72","dead (27)","SqCC",1,"NOTCH1",{"$nulls":40},"32/98 (32.65%)",{"$nulls":31},"chr9",139390591,139390591,"C","T","chr9:g.139390591C>T (NC_000009.11)",{"$nulls":5},"nonsynonymous SNV",null,"NOTCH1:NM_017617:c.7600G>A:NP_060087:p.E2534K","Deleterious","Probably damaging","Probably damaging","34",null,"Pathogenic_prediction"]
["1/72","alive (4)","ADC",1,"RB1",{"$nulls":11},"11/17 (64.71%)",{"$nulls":60},"chr13",49050860,49050860,"A","-","chr13:g.g.49050859T>-A(NC_000013.10) (NC_000013.10)",{"$nulls":5},"frameshift deletion",null,"RB1:NM_000321:c.2544delA:NP_000312:p.I848fs",{"$nulls":5},"Pathogenic_others"]
["1/60","alive (27)","ADC",1,"RBM10",{"$nulls":5},"218/1434 (15.20%)",{"$nulls":66},"chrX",47039885,47039900,"GCCCAGTGGGCCATCT","-","chrX:g.g.47039884G>-GCCCAGTGGGCCATCT(NC_000023.10) (NC_000023.10)",{"$nulls":5},"frameshift deletion",null,"RBM10:NM_001204466:c.997_1012del:NP_001191395:p.A333fs|RBM10:NM_001204467:c.1225_1240del:NP_001191396:p.A409fs|RBM10:NM_001204468:c.1423_1438del:NP_001191397:p.A475fs|RBM10:NM_005676:c.1228_1243del:NP_005667:p.A410fs|RBM10:NM_152856:c.994_1009del:NP_690595:p.A332fs",{"$nulls":5},"Pathogenic_others"]
["1/61","alive (10)","ADC",1,"RUNX1",{"$nulls":21},"11/61 (18.03%)",{"$nulls":50},"chr21",36259264,36259264,"-","GGT","chr21:g.g.36259264C>+GGT(NC_000021.8) (NC_000021.8)",{"$nulls":5},"nonframeshift insertion",null,"RUNX1:NM_001001890:c.145_146insACC:NP_001001890:p.R49delinsHR|RUNX1:NM_001122607:c.145_146insACC:NP_001116079:p.R49delinsHR|RUNX1:NM_001754:c.226_227insACC:NP_001745:p.R76delinsHR",{"$nulls":5},"Pathogenic_others"]
["1/72","dead (24)","SqCC",1,"SETD2",{"$nulls":27},"2/19 (10.53%)",{"$nulls":44},"chr3",47158125,47158125,"A","G","chr3:g.47158125A>G (NC_000003.11)",{"$nulls":5},"nonsynonymous SNV",null,"SETD2:NM_014159:c.4574T>C:NP_054878:p.L1525P","Deleterious","Probably damaging","Probably damaging","33",null,"Pathogenic_prediction"]
["1/61","alive (46)","ADC",1,"SF3B1",{"$nulls":22},"3/27 (11.11%)",{"$nulls":49},"chr2",198266129,198266129,"G","A","chr2:g.g.198266129G>A(NC_000002.11) (NC_000002.11)",{"$nulls":5},"stopgain",null,"SF3B1:NM_012433:c.2491C>T:NP_036565:p.R831X",".",".",".","41.0",null,"Pathogenic_others"]
["1/72","dead (4)","ADC",1,"SMARCA4",{"$nulls":15},"428/874 (48.97%)",{"$nulls":56},"chr19",11107004,11107011,"AGCACAAG","-","chr19:g.g.11107003C>-AGCACAAG(NC_000019.9) (NC_000019.9)",{"$nulls":5},"frameshift deletion",null,"SMARCA4:NM_001128844:c.1709_1716del:NP_001122316:p.Q570fs|SMARCA4:NM_001128845:c.1709_1716del:NP_001122317:p.Q570fs|SMARCA4:NM_001128846:c.1709_1716del:NP_001122318:p.Q570fs|SMARCA4:NM_001128847:c.1709_1716del:NP_001122319:p.Q570fs|SMARCA4:NM_001128848:c.1709_1716del:NP_001122320:p.Q570fs|SMARCA4:NM_001128849:c.1709_1716del:NP_001122321:p.Q570fs|SMARCA4:NM_003072:c.1709_1716del:NP_003063:p.Q570fs",{"$nulls":5},"Pathogenic_others"]
["5/49","alive (59), dead (9), dead (11), alive (70), dead (43)","4 ADC+1 SqCC",5,"THRAP3",{"$nulls":24},"5/31 (16.13%)",{"$nulls":13},"4/39 (10.26%)",{"$nulls":11},"4/40 (10.00%)",{"$nulls":17},"4/34 (11.76%)",null,"4/37 (10.81%)",null,"chr1",36766509,36766509,"-","G","chr1:g.36766509A>+G (NC_000001.10)",{"$nulls":5},"frameshift insertion",null,"THRAP3:NM_001321471:c.2327dupG:NP_001308400:p.R776fs|THRAP3:NM_001321473:c.2327dupG:NP_001308402:p.R776fs|THRAP3:NM_005119:c.2327dupG:NP_005110:p.R776fs",{"$nulls":5},"Pathogenic_others"]
["1/72","alive (70)","ADC",1,"TP53",{"$nulls":23},"52/110 (47.27%)",{"$nulls":48},"chr17",7578207,7578213,"ATGTCGA","-","chr17:g.7578206T>-ATGTCGA (NC_000017.10)",{"$nulls":5},"frameshift deletion",null,"TP53:NM_000546:c.636_642del:NP_000537:p.F212fs|TP53:NM_001126112:c.636_642del:NP_001119584:p.F212fs|TP53:NM_001126113:c.636_642del:NP_001119585:p.F212fs|TP53:NM_001126114:c.636_642del:NP_001119586:p.F212fs|TP53:NM_001126115:c.240_246del:NP_001119587:p.F80fs|TP53:NM_001126116:c.240_246del:NP_001119588:p.F80fs|TP53:NM_001126117:c.240_246del:NP_001119589:p.F80fs|TP53:NM_001126118:c.519_525del:NP_001119590:p.F173fs|TP53:NM_001276695:c.519_525del:NP_001263624:p.F173fs|TP53:NM_001276696:c.519_525del:NP_001263625:p.F173fs|TP53:NM_001276697:c.159_165del:NP_001263626:p.F53fs|TP53:NM_001276698:c.159_165del:NP_001263627:p.F53fs|TP53:NM_001276699:c.159_165del:NP_001263628:p.F53fs|TP53:NM_001276760:c.519_525del:NP_001263689:p.F173fs|TP53:NM_001276761:c.519_525del:NP_001263690:p.F173fs",{"$nulls":5},"Pathogenic_others"]
["1/72","alive (82)","ADC",1,"TP53",{"$nulls":61},"14/21 (66.67%)",{"$nulls":10},"chr17",7579404,7579404,"A","-","chr17:g.7579403G>-A (NC_000017.10)",{"$nulls":5},"frameshift deletion",null,"TP53:NM_000546:c.283delT:NP_000537:p.S95fs|TP53:NM_001126112:c.283delT:NP_001119584:p.S95fs|TP53:NM_001126113:c.283delT:NP_001119585:p.S95fs|TP53:NM_001126114:c.283delT:NP_001119586:p.S95fs|TP53:NM_001126118:c.166delT:NP_001119590:p.S56fs|TP53:NM_001276695:c.166delT:NP_001263624:p.S56fs|TP53:NM_001276696:c.166delT:NP_001263625:p.S56fs|TP53:NM_001276760:c.166delT:NP_001263689:p.S56fs|TP53:NM_001276761:c.166delT:NP_001263690:p.S56fs",{"$nulls":5},"Pathogenic_others"]
["1/49","alive (81)","ADC",1,"ZMYM2",{"$nulls":62},"5/46 (10.87%)",{"$nulls":9},"chr13",20635256,20635258,"GAG","-","chr13:g.20635255T>-GAG (NC_000013.10)",{"$nulls":5},"nonframeshift deletion",null,"ZMYM2:NM_001190964:c.2803_2805del:NP_001177893:p.935_935del|ZMYM2:NM_001190965:c.2803_2805del:NP_001177894:p.935_935del|ZMYM2:NM_003453:c.2803_2805del:NP_003444:p.935_935del|ZMYM2:NM_197968:c.2803_2805del:NP_932072:p.935_935del",{"$nulls":5},"Pathogenic_others"]