Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_file Sequencer dataset type classification start end gene chr ref_allele tum_allele1 tum_allele2 context LRRC40 55631 broad.mit.edu 36 1 70423164 70423164 + Silent SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 70423164 70423164 LRRC40 1 G G C 41 KCND3 3752 broad.mit.edu 36 1 112325794 112325794 + Missense_Mutation SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112325794 112325794 KCND3 1 A A G 14 KCTD3 51133 broad.mit.edu 36 1 213851829 213851829 + Missense_Mutation SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 213851829 213851829 KCTD3 1 A A G 7 LYST 1130 broad.mit.edu 36 1 233907505 233907505 + Missense_Mutation SNP T T C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 233907505 233907505 LYST 1 T T C 49 LARP4B 23185 broad.mit.edu 36 10 861158 861158 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 861158 861158 LARP4B 10 C C T 31 HELLS 3070 broad.mit.edu 36 10 96331226 96331226 + Silent SNP T T C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 96331226 96331226 HELLS 10 T T C 52 PPFIBP2 8495 broad.mit.edu 36 11 7627461 7627461 + Missense_Mutation SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7627461 7627461 PPFIBP2 11 G G C 35 OR5F1 338674 broad.mit.edu 36 11 55518467 55518467 + Missense_Mutation SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55518467 55518467 OR5F1 11 C C G 19 ANO2 57101 broad.mit.edu 36 12 5579037 5579037 + Nonsense_Mutation SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 5579037 5579037 ANO2 12 G G A 37 ATF1 466 broad.mit.edu 36 12 49499695 49499695 + Missense_Mutation SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49499695 49499695 ATF1 12 C C G 31 KRT78 196374 broad.mit.edu 36 12 51528647 51528647 + Missense_Mutation SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51528647 51528647 KRT78 12 G G A 44 ALX1 8092 broad.mit.edu 36 12 84204851 84204851 + Nonsense_Mutation SNP T T A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 84204851 84204851 ALX1 12 T T A 51 MYBPC1 4604 broad.mit.edu 36 12 100567277 100567277 + Silent SNP T T C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100567277 100567277 MYBPC1 12 T T C 55 CATSPERB 79820 broad.mit.edu 36 14 91172645 91172645 + Missense_Mutation SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91172645 91172645 CATSPERB 14 G G C 42 SCAPER 49855 broad.mit.edu 36 15 74884026 74884026 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74884026 74884026 SCAPER 15 C C T 18 FAM65A 79567 broad.mit.edu 36 16 66133119 66133119 + Missense_Mutation SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66133119 66133119 FAM65A 16 C C G 18 TP53 7157 broad.mit.edu 36 17 7517577 7517577 + Splice_Site_SNP SNP C C T rs11575997 Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 7517577 7517577 TP53 17 C C T 18 ENOSF1 55556 broad.mit.edu 36 18 678606 678606 + Silent SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 678606 678606 ENOSF1 18 G G C 33 ZNF257 113835 broad.mit.edu 36 19 22063063 22063063 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22063063 22063063 ZNF257 19 C C T 20 HKR1 284459 broad.mit.edu 36 19 42527429 42527429 + Missense_Mutation SNP G G T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42527429 42527429 HKR1 19 G G T 45 KCNK6 9424 broad.mit.edu 36 19 43509738 43509738 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43509738 43509738 KCNK6 19 C C T 19 KIR3DL2 3812 broad.mit.edu 36 19 60069681 60069681 + Missense_Mutation SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60069681 60069681 KIR3DL2 19 A A G 9 APOB 338 broad.mit.edu 36 2 21088990 21088990 + Missense_Mutation SNP T T C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21088990 21088990 APOB 2 T T C 59 HADHA 3030 broad.mit.edu 36 2 26277614 26277614 + Missense_Mutation SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26277614 26277614 HADHA 2 C C G 29 SLC5A6 8884 broad.mit.edu 36 2 27277434 27277434 + Missense_Mutation SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27277434 27277434 SLC5A6 2 G G A 47 MRPS9 64965 broad.mit.edu 36 2 105021032 105021032 + Missense_Mutation SNP T T G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105021032 105021032 MRPS9 2 T T G 56 LRP2 4036 broad.mit.edu 36 2 169776879 169776879 + Missense_Mutation SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 169776879 169776879 LRP2 2 G G C 41 FBLN2 2199 broad.mit.edu 36 3 13588029 13588029 + Missense_Mutation SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13588029 13588029 FBLN2 3 A A G 8 ZBTB20 26137 broad.mit.edu 36 3 115552819 115552819 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 115552819 115552819 ZBTB20 3 C C T 20 OSBPL11 114885 broad.mit.edu 36 3 126781483 126781483 + Missense_Mutation SNP C C A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 126781483 126781483 OSBPL11 3 C C A 25 PLXNA1 5361 broad.mit.edu 36 3 128218095 128218095 + Silent SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 128218095 128218095 PLXNA1 3 C C T 26 RNF175 285533 broad.mit.edu 36 4 154856233 154856233 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154856233 154856233 RNF175 4 C C T 28 IQGAP2 10788 broad.mit.edu 36 5 76006216 76006216 + Missense_Mutation SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76006216 76006216 IQGAP2 5 C C G 17 PPIP5K2 23262 broad.mit.edu 36 5 102546985 102546985 + Missense_Mutation SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102546985 102546985 PPIP5K2 5 G G A 36 PCDHGB3 56102 broad.mit.edu 36 5 140731825 140731825 + Silent SNP G G T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 140731825 140731825 PCDHGB3 5 G G T 38 SLIT3 6586 broad.mit.edu 36 5 168045305 168045305 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 168045305 168045305 SLIT3 5 C C T 27 SLIT3 6586 broad.mit.edu 36 5 168611032 168611032 + Missense_Mutation SNP G G T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 168611032 168611032 SLIT3 5 G G T 48 BMP6 654 broad.mit.edu 36 6 7790411 7790411 + Missense_Mutation SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7790411 7790411 BMP6 6 A A G 6 RNF8 9025 broad.mit.edu 36 6 37466509 37466509 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37466509 37466509 RNF8 6 C C T 32 RBAK 57786 broad.mit.edu 36 7 5069883 5069883 + Silent SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 5069883 5069883 RBAK 7 A A G 9 GPR141 353345 broad.mit.edu 36 7 37746965 37746965 + Missense_Mutation SNP C C T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37746965 37746965 GPR141 7 C C T 18 C7orf44 55744 broad.mit.edu 36 7 43651524 43651524 + Splice_Site_SNP SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 43651524 43651524 C7orf44 7 C C G 32 FOXP2 93986 broad.mit.edu 36 7 114057248 114057248 + Silent SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 114057248 114057248 FOXP2 7 G G A 34 GIMAP1 170575 broad.mit.edu 36 7 150048090 150048090 + Missense_Mutation SNP C C A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150048090 150048090 GIMAP1 7 C C A 30 DKK4 27121 broad.mit.edu 36 8 42350856 42350856 + Silent SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 42350856 42350856 DKK4 8 A A G 7 TRPA1 8989 broad.mit.edu 36 8 73111130 73111130 + Silent SNP A A G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73111130 73111130 TRPA1 8 A A G 6 KIAA1797 54914 broad.mit.edu 36 9 20913752 20913752 + Silent SNP T T A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 20913752 20913752 KIAA1797 9 T T A 55 TSTD2 158427 broad.mit.edu 36 9 99404817 99404817 + Missense_Mutation SNP G G C novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99404817 99404817 TSTD2 9 G G C 47 ALG2 85365 broad.mit.edu 36 9 101020798 101020798 + Nonsense_Mutation SNP C C A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 101020798 101020798 ALG2 9 C C A 30 ZRSR2 8233 broad.mit.edu 36 X 15751193 15751193 + Silent SNP C C G novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 15751193 15751193 ZRSR2 23 C C G 25 GRIPAP1 56850 broad.mit.edu 36 X 48740838 48740838 + Missense_Mutation SNP G G T novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48740838 48740838 GRIPAP1 23 G G T 48 DACH2 117154 broad.mit.edu 36 X 85881416 85881416 + Missense_Mutation SNP C C A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 85881416 85881416 DACH2 23 C C A 21 WDR44 54521 broad.mit.edu 36 X 117411049 117411049 + Missense_Mutation SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117411049 117411049 WDR44 23 G G A 38 PNMA5 114824 broad.mit.edu 36 X 151910022 151910022 + Silent SNP G G A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 151910022 151910022 PNMA5 23 G G A 33 ATP6AP1 537 broad.mit.edu 36 X 153316907 153316907 + Nonsense_Mutation SNP C C A novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 153316907 153316907 ATP6AP1 23 C C A 20 DSPP 1834 broad.mit.edu 36 4 88755481 88755482 + In_Frame_Ins INS - AGTAGTGAC - novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Ins INS 88755481 88755482 DSPP 4 - AGTAGTGAC - 49 INTS1 26173 broad.mit.edu 36 7 1491584 1491586 + In_Frame_Del DEL CTC - CTC novel Unknown TCGA-23-2072-01 TCGA-23-2072-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 1491584 1491586 INTS1 7 CTC - CTC 32