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 SMAP2 64744 broad.mit.edu 36 1 40651355 40651355 + Silent SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40651355 40651355 SMAP2 1 G G A 45 KLF17 128209 broad.mit.edu 36 1 44367741 44367741 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44367741 44367741 KLF17 1 C C A 22 BCAN 63827 broad.mit.edu 36 1 154888064 154888064 + Missense_Mutation SNP C C G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154888064 154888064 BCAN 1 C C G 30 DUSP27 92235 broad.mit.edu 36 1 165363449 165363449 + Silent SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 165363449 165363449 DUSP27 1 C C A 21 MYOC 4653 broad.mit.edu 36 1 169872085 169872085 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 169872085 169872085 MYOC 1 C C A 21 IL24 11009 broad.mit.edu 36 1 205142011 205142011 + Missense_Mutation SNP T T A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 205142011 205142011 IL24 1 T T A 60 YOD1 55432 broad.mit.edu 36 1 205289203 205289203 + Missense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 205289203 205289203 YOD1 1 G G T 41 YOD1 55432 broad.mit.edu 36 1 205290841 205290841 + Missense_Mutation SNP G G C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 205290841 205290841 YOD1 1 G G C 42 RYR2 6262 broad.mit.edu 36 1 235947210 235947210 + Missense_Mutation SNP G G C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 235947210 235947210 RYR2 1 G G C 34 UNC5B 219699 broad.mit.edu 36 10 72717487 72717487 + Missense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72717487 72717487 UNC5B 10 G G A 42 CCDC147 159686 broad.mit.edu 36 10 106142137 106142137 + Missense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 106142137 106142137 CCDC147 10 G G T 42 PAOX 196743 broad.mit.edu 36 10 135043934 135043934 + Missense_Mutation SNP T T C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135043934 135043934 PAOX 10 T T C 64 LRRC4C 57689 broad.mit.edu 36 11 40093534 40093534 + Silent SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40093534 40093534 LRRC4C 11 C C T 30 C11orf82 220042 broad.mit.edu 36 11 82322093 82322093 + Missense_Mutation SNP A A T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 82322093 82322093 C11orf82 11 A A T 8 CTSC 1075 broad.mit.edu 36 11 87682116 87682116 + Nonsense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 87682116 87682116 CTSC 11 G G T 48 C11orf70 85016 broad.mit.edu 36 11 101442564 101442564 + Missense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101442564 101442564 C11orf70 11 C C T 21 WNK1 65125 broad.mit.edu 36 12 875810 875810 + Missense_Mutation SNP A A G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 875810 875810 WNK1 12 A A G 5 OR6C75 390323 broad.mit.edu 36 12 54045240 54045240 + Missense_Mutation SNP A A G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54045240 54045240 OR6C75 12 A A G 8 ARHGAP9 64333 broad.mit.edu 36 12 56159424 56159424 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56159424 56159424 ARHGAP9 12 C C A 22 CENPJ 55835 broad.mit.edu 36 13 24385017 24385017 + Silent SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24385017 24385017 CENPJ 13 G G A 48 ERCC5 2073 broad.mit.edu 36 13 102325926 102325926 + Missense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102325926 102325926 ERCC5 13 C C T 32 LTB4R2 56413 broad.mit.edu 36 14 23849749 23849749 + Silent SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 23849749 23849749 LTB4R2 14 G G A 46 ADAM10 102 broad.mit.edu 36 15 56720384 56720384 + Missense_Mutation SNP T T A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56720384 56720384 ADAM10 15 T T A 56 DNAH3 55567 broad.mit.edu 36 16 20938623 20938623 + Missense_Mutation SNP A A T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20938623 20938623 DNAH3 16 A A T 11 USP31 57478 broad.mit.edu 36 16 22988358 22988358 + Missense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22988358 22988358 USP31 16 C C T 26 SULT1A1 6817 broad.mit.edu 36 16 28527166 28527166 + Missense_Mutation SNP T T C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28527166 28527166 SULT1A1 16 T T C 58 ITGAM 3684 broad.mit.edu 36 16 31240176 31240176 + Silent SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31240176 31240176 ITGAM 16 G G T 42 MT1B 4490 broad.mit.edu 36 16 55243995 55243995 + Missense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55243995 55243995 MT1B 16 G G T 46 KCTD19 146212 broad.mit.edu 36 16 65893250 65893250 + Missense_Mutation SNP T T G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65893250 65893250 KCTD19 16 T T G 64 YWHAE 7531 broad.mit.edu 36 17 1215037 1215037 + Missense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1215037 1215037 YWHAE 17 G G A 35 TP53 7157 broad.mit.edu 36 17 7518993 7518993 + Missense_Mutation SNP A A C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518993 7518993 TP53 17 A A C 3 PER1 5187 broad.mit.edu 36 17 7987845 7987845 + Nonsense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 7987845 7987845 PER1 17 G G A 47 MYH13 8735 broad.mit.edu 36 17 10168138 10168138 + Missense_Mutation SNP G G C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10168138 10168138 MYH13 17 G G C 33 KRT12 3859 broad.mit.edu 36 17 36273065 36273065 + Silent SNP C C G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 36273065 36273065 KRT12 17 C C G 17 HAP1 9001 broad.mit.edu 36 17 37137979 37137979 + Missense_Mutation SNP C C G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37137979 37137979 HAP1 17 C C G 21 RUNDC3A 10900 broad.mit.edu 36 17 39746378 39746378 + Missense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39746378 39746378 RUNDC3A 17 C C T 27 FARSA 2193 broad.mit.edu 36 19 12896065 12896065 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 12896065 12896065 FARSA 19 C C A 18 FKBP8 23770 broad.mit.edu 36 19 18511469 18511469 + Silent SNP G G C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 18511469 18511469 FKBP8 19 G G C 45 MAPRE3 22924 broad.mit.edu 36 2 27102380 27102380 + Silent SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 27102380 27102380 MAPRE3 2 C C T 29 FAM161A 84140 broad.mit.edu 36 2 61920995 61920995 + Missense_Mutation SNP A A C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61920995 61920995 FAM161A 2 A A C 16 ANKRD57 65124 broad.mit.edu 36 2 109730442 109730442 + Missense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 109730442 109730442 ANKRD57 2 G G A 42 TANC1 85461 broad.mit.edu 36 2 159794846 159794846 + Nonsense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 159794846 159794846 TANC1 2 C C T 29 TTN 7273 broad.mit.edu 36 2 179133837 179133837 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179133837 179133837 TTN 2 C C A 31 PROKR2 128674 broad.mit.edu 36 20 5242722 5242722 + Silent SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 5242722 5242722 PROKR2 20 G G A 39 PHF20 51230 broad.mit.edu 36 20 33990179 33990179 + Missense_Mutation SNP T T A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33990179 33990179 PHF20 20 T T A 59 MRPL39 54148 broad.mit.edu 36 21 25887033 25887033 + Missense_Mutation SNP G G C rs61735761 Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25887033 25887033 MRPL39 21 G G C 40 SH3BP5 9467 broad.mit.edu 36 3 15273559 15273559 + Nonsense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 15273559 15273559 SH3BP5 3 G G A 47 ANKRD28 23243 broad.mit.edu 36 3 15724566 15724566 + Silent SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 15724566 15724566 ANKRD28 3 C C T 25 SCN5A 6331 broad.mit.edu 36 3 38567056 38567056 + Silent SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 38567056 38567056 SCN5A 3 G G A 39 TM4SF4 7104 broad.mit.edu 36 3 150699338 150699338 + Missense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150699338 150699338 TM4SF4 3 G G T 47 CLDN11 5010 broad.mit.edu 36 3 171633065 171633065 + Missense_Mutation SNP A A G novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 171633065 171633065 CLDN11 3 A A G 8 TRA2B 6434 broad.mit.edu 36 3 187122592 187122592 + Missense_Mutation SNP T T C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 187122592 187122592 TRA2B 3 T T C 52 GRK6 2870 broad.mit.edu 36 5 176790490 176790490 + Missense_Mutation SNP A A T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 176790490 176790490 GRK6 5 A A T 1 LRRC16A 55604 broad.mit.edu 36 6 25625596 25625596 + Silent SNP T T C novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 25625596 25625596 LRRC16A 6 T T C 62 MAD1L1 8379 broad.mit.edu 36 7 2222320 2222320 + Silent SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 2222320 2222320 MAD1L1 7 C C A 25 ABCB5 340273 broad.mit.edu 36 7 20651927 20651927 + Missense_Mutation SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20651927 20651927 ABCB5 7 G G T 35 NPC1L1 29881 broad.mit.edu 36 7 44545867 44545867 + Silent SNP G G T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 44545867 44545867 NPC1L1 7 G G T 45 MUC17 140453 broad.mit.edu 36 7 100472480 100472480 + Missense_Mutation SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100472480 100472480 MUC17 7 C C A 19 ZBTB10 65986 broad.mit.edu 36 8 81593361 81593361 + Nonsense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 81593361 81593361 ZBTB10 8 G G A 47 PKHD1L1 93035 broad.mit.edu 36 8 110466974 110466974 + Missense_Mutation SNP A A T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110466974 110466974 PKHD1L1 8 A A T 6 PTPRD 5789 broad.mit.edu 36 9 8487241 8487241 + Splice_Site_SNP SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 8487241 8487241 PTPRD 9 C C A 17 ZNF79 7633 broad.mit.edu 36 9 129238088 129238088 + Nonsense_Mutation SNP C C T novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 129238088 129238088 ZNF79 9 C C T 27 WNK3 65267 broad.mit.edu 36 X 54337938 54337938 + Missense_Mutation SNP G G A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54337938 54337938 WNK3 23 G G A 40 XKRX 402415 broad.mit.edu 36 X 100056313 100056313 + Silent SNP G G T rs61740851 Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100056313 100056313 XKRX 23 G G T 37 DCAF12L2 340578 broad.mit.edu 36 X 125127403 125127403 + Silent SNP C C A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 125127403 125127403 DCAF12L2 23 C C A 27 DDX60L 91351 broad.mit.edu 36 4 169610856 169610882 + In_Frame_Del DEL TAAGAAAGAATCACTGTTCCTAATCCA - TAAGAAAGAATCACTGTTCCTAATCCA novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 169610856 169610882 DDX60L 4 TAAGAAAGAATCACTGTTCCTAATCCA - TAAGAAAGAATCACTGTTCCTAATCCA 61 LATS1 9113 broad.mit.edu 36 6 150064723 150064723 + Frame_Shift_Del DEL A - A novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 150064723 150064723 LATS1 6 A - A 5 SAMD9L 219285 broad.mit.edu 36 7 92601563 92601564 + Frame_Shift_Ins INS - C - novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Ins INS 92601563 92601564 SAMD9L 7 - C - 6 BCORL1 63035 broad.mit.edu 36 X 128977107 128977122 + Frame_Shift_Del DEL GCTCCTTCGTTCCAGA - GCTCCTTCGTTCCAGA novel Unknown TCGA-30-1891-01 TCGA-30-1891-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 128977107 128977122 BCORL1 23 GCTCCTTCGTTCCAGA - GCTCCTTCGTTCCAGA 42