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 CELA2A 63036 broad.mit.edu 36 1 15666565 15666565 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15666565 15666565 CELA2A 1 A A G 14 GRIK3 2899 broad.mit.edu 36 1 37118979 37118979 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 37118979 37118979 GRIK3 1 G G A 43 RPS8 6202 broad.mit.edu 36 1 45016021 45016021 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 45016021 45016021 RPS8 1 C C T 22 BEST4 266675 broad.mit.edu 36 1 45023441 45023441 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45023441 45023441 BEST4 1 C C G 28 CDKN2C 1031 broad.mit.edu 36 1 51208750 51208750 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51208750 51208750 CDKN2C 1 C C G 27 NEXN 91624 broad.mit.edu 36 1 78155936 78155936 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 78155936 78155936 NEXN 1 G G T 35 MCOLN2 255231 broad.mit.edu 36 1 85169778 85169778 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 85169778 85169778 MCOLN2 1 A A G 1 LRRC39 127495 broad.mit.edu 36 1 100398634 100398634 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 100398634 100398634 LRRC39 1 C C T 29 CD101 9398 broad.mit.edu 36 1 117355939 117355939 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117355939 117355939 CD101 1 G G C 34 HMCN1 83872 broad.mit.edu 36 1 184301077 184301077 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 184301077 184301077 HMCN1 1 G G A 40 B3GALT2 8707 broad.mit.edu 36 1 191416309 191416309 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 191416309 191416309 B3GALT2 1 C C A 19 MGMT 4255 broad.mit.edu 36 10 131396251 131396251 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 131396251 131396251 MGMT 10 C C T 31 EFEMP2 30008 broad.mit.edu 36 11 65391929 65391929 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 65391929 65391929 EFEMP2 11 C C T 27 CACNA1C 775 broad.mit.edu 36 12 2645016 2645016 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 2645016 2645016 CACNA1C 12 C C T 18 ERGIC2 51290 broad.mit.edu 36 12 29401902 29401902 + Silent SNP T T G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 29401902 29401902 ERGIC2 12 T T G 53 MDM1 56890 broad.mit.edu 36 12 66977002 66977002 + Missense_Mutation SNP T T A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66977002 66977002 MDM1 12 T T A 55 CIT 11113 broad.mit.edu 36 12 118619884 118619884 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 118619884 118619884 CIT 12 C C T 23 GPR109A 338442 broad.mit.edu 36 12 121753766 121753766 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 121753766 121753766 GPR109A 12 C C T 25 NIACR2 8843 broad.mit.edu 36 12 121767220 121767220 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 121767220 121767220 NIACR2 12 C C T 25 TBC1D4 9882 broad.mit.edu 36 13 74771643 74771643 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74771643 74771643 TBC1D4 13 G G C 35 RNASE9 390443 broad.mit.edu 36 14 20094690 20094690 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20094690 20094690 RNASE9 14 T T G 52 RSL24D1 51187 broad.mit.edu 36 15 53262833 53262833 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 53262833 53262833 RSL24D1 15 G G A 48 SRRM2 23524 broad.mit.edu 36 16 2753348 2753348 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2753348 2753348 SRRM2 16 A A G 15 SPN 6693 broad.mit.edu 36 16 29583716 29583716 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29583716 29583716 SPN 16 C C A 24 ZNF423 23090 broad.mit.edu 36 16 48380912 48380912 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 48380912 48380912 ZNF423 16 G G A 39 TP53 7157 broad.mit.edu 36 17 7517867 7517867 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7517867 7517867 TP53 17 C C T 22 CA10 56934 broad.mit.edu 36 17 47180163 47180163 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47180163 47180163 CA10 17 C C T 17 NPLOC4 55666 broad.mit.edu 36 17 77190937 77190937 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77190937 77190937 NPLOC4 17 G G C 37 KIAA0802 23255 broad.mit.edu 36 18 8809155 8809155 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 8809155 8809155 KIAA0802 18 G G A 39 TRAPPC8 22878 broad.mit.edu 36 18 27673300 27673300 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27673300 27673300 TRAPPC8 18 G G A 45 POLI 11201 broad.mit.edu 36 18 50063294 50063294 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50063294 50063294 POLI 18 A A G 1 ATP9B 374868 broad.mit.edu 36 18 74957468 74957468 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74957468 74957468 ATP9B 18 C C G 21 NDUFA7 4701 broad.mit.edu 36 19 8287481 8287482 + Missense_Mutation DNP GG GG AA novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 8287481 8287482 NDUFA7 19 GG GG AA 47 MAST3 23031 broad.mit.edu 36 19 18116395 18116395 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18116395 18116395 MAST3 19 G G A 34 ZNF383 163087 broad.mit.edu 36 19 42418782 42418782 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42418782 42418782 ZNF383 19 G G A 47 ZNF761 388561 broad.mit.edu 36 19 58650172 58650172 + Nonsense_Mutation SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 58650172 58650172 ZNF761 19 C C A 29 ZSCAN4 201516 broad.mit.edu 36 19 62881095 62881095 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62881095 62881095 ZSCAN4 19 T T G 58 GLI2 2736 broad.mit.edu 36 2 121444566 121444566 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121444566 121444566 GLI2 2 G G T 42 KCTD18 130535 broad.mit.edu 36 2 201079890 201079890 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 201079890 201079890 KCTD18 2 C C A 27 SP100 6672 broad.mit.edu 36 2 231114284 231114284 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 231114284 231114284 SP100 2 G G C 44 PASK 23178 broad.mit.edu 36 2 241700379 241700379 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 241700379 241700379 PASK 2 G G T 36 ULK4 54986 broad.mit.edu 36 3 41721792 41721792 + Nonsense_Mutation SNP T T A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 41721792 41721792 ULK4 3 T T A 61 ATP10D 57205 broad.mit.edu 36 4 47232703 47232703 + Missense_Mutation SNP A A C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47232703 47232703 ATP10D 4 A A C 2 FAT4 79633 broad.mit.edu 36 4 126461042 126461042 + Silent SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 126461042 126461042 FAT4 4 C C T 23 LRBA 987 broad.mit.edu 36 4 151577369 151577369 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 151577369 151577369 LRBA 4 T T G 51 IQGAP2 10788 broad.mit.edu 36 5 76032686 76032686 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76032686 76032686 IQGAP2 5 G G C 41 CAST 831 broad.mit.edu 36 5 96104194 96104194 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96104194 96104194 CAST 5 G G A 38 FBN2 2201 broad.mit.edu 36 5 127738240 127738240 + Missense_Mutation SNP A A T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127738240 127738240 FBN2 5 A A T 8 GPRIN1 114787 broad.mit.edu 36 5 175957797 175957797 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 175957797 175957797 GPRIN1 5 C C A 22 BAT1 7919 broad.mit.edu 36 6 31606559 31606559 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31606559 31606559 BAT1 6 C C G 29 GPR110 266977 broad.mit.edu 36 6 47092432 47092432 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47092432 47092432 GPR110 6 C C G 17 UTRN 7402 broad.mit.edu 36 6 144825491 144825491 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 144825491 144825491 UTRN 6 T T G 51 MEOX2 4223 broad.mit.edu 36 7 15692124 15692124 + Silent SNP C C A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 15692124 15692124 MEOX2 7 C C A 19 CCDC126 90693 broad.mit.edu 36 7 23649244 23649244 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 23649244 23649244 CCDC126 7 G G A 39 HOXA10 3206 broad.mit.edu 36 7 27180331 27180331 + Silent SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 27180331 27180331 HOXA10 7 G G A 38 MUC17 140453 broad.mit.edu 36 7 100465211 100465211 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100465211 100465211 MUC17 7 G G T 44 PRKDC 5591 broad.mit.edu 36 8 48973650 48973650 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48973650 48973650 PRKDC 8 G G C 45 TM7SF4 81501 broad.mit.edu 36 8 105430027 105430027 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105430027 105430027 TM7SF4 8 C C T 22 TPM2 7169 broad.mit.edu 36 9 35679193 35679193 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35679193 35679193 TPM2 9 C C G 19 SPTAN1 6709 broad.mit.edu 36 9 130400554 130400554 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130400554 130400554 SPTAN1 9 C C G 24 CCBL1 883 broad.mit.edu 36 9 130639832 130639832 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130639832 130639832 CCBL1 9 G G A 40 PPL 5493 broad.mit.edu 36 16 4875454 4875459 + In_Frame_Del DEL GCCTCC - - novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 4875454 4875459 PPL 16 GCCTCC - - 46 C16orf70 80262 broad.mit.edu 36 16 65717447 65717448 + Splice_Site_Ins INS - T - novel Unknown TCGA-61-2102-01 TCGA-61-2102-11 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Ins INS 65717447 65717448 C16orf70 16 - T - 44