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 MASP2 10747 broad.mit.edu 36 1 11009954 11009954 + Missense_Mutation SNP T T A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11009954 11009954 MASP2 1 T T A 53 IQCC 55721 broad.mit.edu 36 1 32444397 32444397 + Missense_Mutation SNP A A T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32444397 32444397 IQCC 1 A A T 16 ST3GAL3 6487 broad.mit.edu 36 1 44132700 44132700 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44132700 44132700 ST3GAL3 1 C C T 23 SLC5A9 200010 broad.mit.edu 36 1 48463001 48463001 + Nonsense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 48463001 48463001 SLC5A9 1 C C T 31 ORC1L 4998 broad.mit.edu 36 1 52631834 52631834 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52631834 52631834 ORC1L 1 G G C 41 LRRC7 57554 broad.mit.edu 36 1 70030338 70030338 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70030338 70030338 LRRC7 1 C C G 19 GDAP2 54834 broad.mit.edu 36 1 118225983 118225983 + Silent SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 118225983 118225983 GDAP2 1 G G A 47 PRUNE 58497 broad.mit.edu 36 1 149273181 149273181 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149273181 149273181 PRUNE 1 G G C 35 FLG 2312 broad.mit.edu 36 1 150543512 150543512 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150543512 150543512 FLG 1 C C A 29 PPOX 5498 broad.mit.edu 36 1 159407584 159407584 + Silent SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 159407584 159407584 PPOX 1 C C T 17 PLAU 5328 broad.mit.edu 36 10 75342766 75342766 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75342766 75342766 PLAU 10 G G T 46 BUB3 9184 broad.mit.edu 36 10 124911860 124911860 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124911860 124911860 BUB3 10 A A G 11 LUZP2 338645 broad.mit.edu 36 11 24954714 24954714 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24954714 24954714 LUZP2 11 C C G 27 SLCO2B1 11309 broad.mit.edu 36 11 74588976 74588976 + Nonsense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 74588976 74588976 SLCO2B1 11 C C A 27 KCTD14 65987 broad.mit.edu 36 11 77405940 77405940 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77405940 77405940 KCTD14 11 C C T 19 FAT3 120114 broad.mit.edu 36 11 91727199 91727199 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91727199 91727199 FAT3 11 A A G 4 ETV6 2120 broad.mit.edu 36 12 11928759 11928759 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11928759 11928759 ETV6 12 G G C 39 OVCH1 341350 broad.mit.edu 36 12 29520447 29520447 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29520447 29520447 OVCH1 12 G G A 34 SLC38A4 55089 broad.mit.edu 36 12 45468075 45468075 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45468075 45468075 SLC38A4 12 C C T 23 ACTR6 64431 broad.mit.edu 36 12 99136382 99136382 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99136382 99136382 ACTR6 12 T T G 63 B3GNT4 79369 broad.mit.edu 36 12 121257149 121257149 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121257149 121257149 B3GNT4 12 G G A 37 UTP14C 9724 broad.mit.edu 36 13 51502326 51502326 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51502326 51502326 UTP14C 13 C C T 32 DCT 1638 broad.mit.edu 36 13 93919161 93919161 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 93919161 93919161 DCT 13 T T G 53 CHD8 57680 broad.mit.edu 36 14 20966253 20966253 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20966253 20966253 CHD8 14 C C G 26 DDX24 57062 broad.mit.edu 36 14 93591272 93591272 + Silent SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 93591272 93591272 DDX24 14 G G A 35 CILP 8483 broad.mit.edu 36 15 63286379 63286379 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63286379 63286379 CILP 15 C C T 23 CDH11 1009 broad.mit.edu 36 16 63563441 63563441 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63563441 63563441 CDH11 16 G G C 47 TAT 6898 broad.mit.edu 36 16 70167813 70167813 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70167813 70167813 TAT 16 G G A 43 TP53 7157 broad.mit.edu 36 17 7519186 7519186 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7519186 7519186 TP53 17 C C A 19 OMG 4974 broad.mit.edu 36 17 26646718 26646718 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26646718 26646718 OMG 17 G G A 47 EVI2A 2123 broad.mit.edu 36 17 26670112 26670112 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26670112 26670112 EVI2A 17 A A G 3 KRTAP9-8 83901 broad.mit.edu 36 17 36648176 36648176 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36648176 36648176 KRTAP9-8 17 G G C 46 ITGA3 3675 broad.mit.edu 36 17 45504480 45504480 + Missense_Mutation SNP C C G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45504480 45504480 ITGA3 17 C C G 22 EPX 8288 broad.mit.edu 36 17 53636619 53636619 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53636619 53636619 EPX 17 C C A 17 TEX14 56155 broad.mit.edu 36 17 54016917 54016917 + Silent SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54016917 54016917 TEX14 17 A A G 16 HELZ 9931 broad.mit.edu 36 17 62629903 62629903 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62629903 62629903 HELZ 17 C C A 20 ABCA8 10351 broad.mit.edu 36 17 64413882 64413882 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64413882 64413882 ABCA8 17 C C A 29 MYO5B 4645 broad.mit.edu 36 18 45717663 45717663 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45717663 45717663 MYO5B 18 G G T 44 MAST3 23031 broad.mit.edu 36 19 18096582 18096582 + Missense_Mutation SNP A A C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18096582 18096582 MAST3 19 A A C 11 CAPN13 92291 broad.mit.edu 36 2 30846817 30846817 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30846817 30846817 CAPN13 2 G G C 33 PLA2R1 22925 broad.mit.edu 36 2 160542040 160542040 + Splice_Site_SNP SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 160542040 160542040 PLA2R1 2 C C T 18 ZDBF2 57683 broad.mit.edu 36 2 206878193 206878193 + Silent SNP T T C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 206878193 206878193 ZDBF2 2 T T C 51 FASTKD2 22868 broad.mit.edu 36 2 207344979 207344979 + Silent SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 207344979 207344979 FASTKD2 2 G G C 47 KIF3B 9371 broad.mit.edu 36 20 30378311 30378311 + Nonsense_Mutation SNP G G T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 30378311 30378311 KIF3B 20 G G T 41 EPB41L1 2036 broad.mit.edu 36 20 34260898 34260898 + Silent SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 34260898 34260898 EPB41L1 20 C C T 27 ZNF70 7621 broad.mit.edu 36 22 22416108 22416108 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22416108 22416108 ZNF70 22 A A G 4 SEC13 6396 broad.mit.edu 36 3 10332041 10332041 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10332041 10332041 SEC13 3 C C T 27 NUP210 23225 broad.mit.edu 36 3 13392904 13392904 + Missense_Mutation SNP C C A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13392904 13392904 NUP210 3 C C A 25 TGFBR2 7048 broad.mit.edu 36 3 30704919 30704919 + Missense_Mutation SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30704919 30704919 TGFBR2 3 G G A 39 C3orf30 152405 broad.mit.edu 36 3 120347988 120347988 + Missense_Mutation SNP G G T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120347988 120347988 C3orf30 3 G G T 47 COL6A5 256076 broad.mit.edu 36 3 131641985 131641985 + Missense_Mutation SNP A A G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131641985 131641985 COL6A5 3 A A G 5 COL6A6 131873 broad.mit.edu 36 3 131772745 131772745 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131772745 131772745 COL6A6 3 C C T 19 UGT2B7 7364 broad.mit.edu 36 4 70008630 70008630 + Splice_Site_SNP SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 70008630 70008630 UGT2B7 4 G G C 40 WDFY3 23001 broad.mit.edu 36 4 85961620 85961620 + Missense_Mutation SNP T T G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 85961620 85961620 WDFY3 4 T T G 57 CARTPT 9607 broad.mit.edu 36 5 71051001 71051001 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71051001 71051001 CARTPT 5 C C T 32 FBN2 2201 broad.mit.edu 36 5 127740396 127740396 + Silent SNP G G A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 127740396 127740396 FBN2 5 G G A 45 PCDHGC5 56097 broad.mit.edu 36 5 140851075 140851075 + Missense_Mutation SNP T T A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140851075 140851075 PCDHGC5 5 T T A 52 CDK19 23097 broad.mit.edu 36 6 111098373 111098373 + Missense_Mutation SNP T T C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 111098373 111098373 CDK19 6 T T C 58 RAPGEF5 9771 broad.mit.edu 36 7 22151226 22151226 + Missense_Mutation SNP C C T novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22151226 22151226 RAPGEF5 7 C C T 31 EPDR1 54749 broad.mit.edu 36 7 37927028 37927028 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37927028 37927028 EPDR1 7 G G C 43 FIGNL1 63979 broad.mit.edu 36 7 50481161 50481161 + Missense_Mutation SNP A A C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50481161 50481161 FIGNL1 7 A A C 1 KIAA1324L 222223 broad.mit.edu 36 7 86394166 86394166 + Silent SNP T T G novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 86394166 86394166 KIAA1324L 7 T T G 59 TNC 3371 broad.mit.edu 36 9 116883940 116883940 + Missense_Mutation SNP T T A novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116883940 116883940 TNC 9 T T A 49 OR1L8 138881 broad.mit.edu 36 9 124370412 124370412 + Missense_Mutation SNP G G C novel Unknown TCGA-61-2009-01 TCGA-61-2009-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124370412 124370412 OR1L8 9 G G C 33