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 IQCC 55721 broad.mit.edu 36 1 32445780 32445780 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32445780 32445780 IQCC 1 A A T 12 MAP7D1 55700 broad.mit.edu 36 1 36418125 36418125 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36418125 36418125 MAP7D1 1 G G C 35 PRKAA2 5563 broad.mit.edu 36 1 56912766 56912766 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 56912766 56912766 PRKAA2 1 T T A 50 BTBD8 284697 broad.mit.edu 36 1 92340678 92340678 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92340678 92340678 BTBD8 1 G G T 33 LRIG2 9860 broad.mit.edu 36 1 113468234 113468234 + Missense_Mutation SNP T T G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113468234 113468234 LRIG2 1 T T G 59 SLC22A15 55356 broad.mit.edu 36 1 116363748 116363748 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 116363748 116363748 SLC22A15 1 C C A 30 RNF115 27246 broad.mit.edu 36 1 144393403 144393403 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 144393403 144393403 RNF115 1 G G A 41 SPRR2E 6704 broad.mit.edu 36 1 151332732 151332732 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 151332732 151332732 SPRR2E 1 C C T 20 ISG20L2 81875 broad.mit.edu 36 1 154959853 154959853 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154959853 154959853 ISG20L2 1 A A G 6 UCHL5 51377 broad.mit.edu 36 1 191285522 191285522 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 191285522 191285522 UCHL5 1 C C G 29 USH2A 7399 broad.mit.edu 36 1 214118802 214118802 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 214118802 214118802 USH2A 1 C C A 17 PRTFDC1 56952 broad.mit.edu 36 10 25200965 25200965 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25200965 25200965 PRTFDC1 10 C C T 23 ANKRD30A 91074 broad.mit.edu 36 10 37470852 37470852 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37470852 37470852 ANKRD30A 10 T T A 51 SLC18A3 6572 broad.mit.edu 36 10 50490335 50490335 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50490335 50490335 SLC18A3 10 C C G 26 MYOZ1 58529 broad.mit.edu 36 10 75063684 75063684 + Silent SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 75063684 75063684 MYOZ1 10 G G T 47 ELOVL3 83401 broad.mit.edu 36 10 103978940 103978940 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103978940 103978940 ELOVL3 10 C C A 21 FRG2B 441581 broad.mit.edu 36 10 135288790 135288790 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135288790 135288790 FRG2B 10 G G A 39 DCHS1 8642 broad.mit.edu 36 11 6609533 6609533 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6609533 6609533 DCHS1 11 G G T 43 DDB2 1643 broad.mit.edu 36 11 47213528 47213528 + Missense_Mutation SNP A A C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47213528 47213528 DDB2 11 A A C 6 LRP5 4041 broad.mit.edu 36 11 67949190 67949190 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67949190 67949190 LRP5 11 A A G 9 VWF 7450 broad.mit.edu 36 12 6054778 6054778 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 6054778 6054778 VWF 12 G G A 39 KRT6C 286887 broad.mit.edu 36 12 51149845 51149845 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 51149845 51149845 KRT6C 12 G G A 35 C12orf66 144577 broad.mit.edu 36 12 62895970 62895970 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62895970 62895970 C12orf66 12 G G A 47 SACS 26278 broad.mit.edu 36 13 22810946 22810946 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 22810946 22810946 SACS 13 A A T 14 ATP8A2 51761 broad.mit.edu 36 13 25042928 25042928 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 25042928 25042928 ATP8A2 13 G G T 36 INTS6 26512 broad.mit.edu 36 13 50846393 50846393 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50846393 50846393 INTS6 13 T T C 57 GRK1 6011 broad.mit.edu 36 13 113372123 113372123 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 113372123 113372123 GRK1 13 G G T 45 LRRC16B 90668 broad.mit.edu 36 14 23601595 23601595 + Silent SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 23601595 23601595 LRRC16B 14 C C G 32 C14orf135 64430 broad.mit.edu 36 14 59661565 59661565 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59661565 59661565 C14orf135 14 G G C 36 SPTB 6710 broad.mit.edu 36 14 64329952 64329952 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 64329952 64329952 SPTB 14 G G C 34 PTPN21 11099 broad.mit.edu 36 14 88006112 88006112 + Silent SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 88006112 88006112 PTPN21 14 G G C 47 IGDCC4 57722 broad.mit.edu 36 15 63489665 63489665 + Missense_Mutation SNP T T A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63489665 63489665 IGDCC4 15 T T A 54 LASS3 204219 broad.mit.edu 36 15 98842345 98842345 + Nonsense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 98842345 98842345 LASS3 15 C C A 30 C16orf11 146325 broad.mit.edu 36 16 553413 553414 + Missense_Mutation DNP TT TT CC novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 553413 553414 C16orf11 16 TT TT CC 56 ZG16B 124220 broad.mit.edu 36 16 2821991 2821991 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2821991 2821991 ZG16B 16 T T C 54 MMP2 4313 broad.mit.edu 36 16 54083231 54083231 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 54083231 54083231 MMP2 16 G G C 40 MMP15 4324 broad.mit.edu 36 16 56634731 56634731 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 56634731 56634731 MMP15 16 C C T 26 RLTPR 146206 broad.mit.edu 36 16 66239510 66239510 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66239510 66239510 RLTPR 16 G G C 35 CA5A 763 broad.mit.edu 36 16 86482930 86482930 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 86482930 86482930 CA5A 16 C C A 28 UNC45B 146862 broad.mit.edu 36 17 30506569 30506569 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30506569 30506569 UNC45B 17 C C A 31 UNC45B 146862 broad.mit.edu 36 17 30537436 30537436 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30537436 30537436 UNC45B 17 C C A 22 DGKE 8526 broad.mit.edu 36 17 52267221 52267221 + Silent SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 52267221 52267221 DGKE 17 G G C 45 MGAT5B 146664 broad.mit.edu 36 17 72389849 72389849 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72389849 72389849 MGAT5B 17 G G A 38 USP14 9097 broad.mit.edu 36 18 188094 188094 + Missense_Mutation SNP T T G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 188094 188094 USP14 18 T T G 60 CEP192 55125 broad.mit.edu 36 18 13046284 13046284 + Missense_Mutation SNP C C G rs73950982 Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13046284 13046284 CEP192 18 C C G 17 CCBE1 147372 broad.mit.edu 36 18 55258017 55258017 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55258017 55258017 CCBE1 18 G G T 44 SERPINB5 5268 broad.mit.edu 36 18 59321726 59321726 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 59321726 59321726 SERPINB5 18 A A T 4 CD97 976 broad.mit.edu 36 19 14369896 14369896 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14369896 14369896 CD97 19 A A T 1 EHD2 30846 broad.mit.edu 36 19 52911793 52911793 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 52911793 52911793 EHD2 19 G G T 41 AP2A1 160 broad.mit.edu 36 19 54987066 54987066 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54987066 54987066 AP2A1 19 C C T 31 FPR2 2358 broad.mit.edu 36 19 56964209 56964209 + Silent SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 56964209 56964209 FPR2 19 C C G 32 MEMO1 51072 broad.mit.edu 36 2 31996505 31996505 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31996505 31996505 MEMO1 2 A A T 8 CLEC4F 165530 broad.mit.edu 36 2 70897731 70897731 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70897731 70897731 CLEC4F 2 T T C 54 SNRNP200 23020 broad.mit.edu 36 2 96320908 96320908 + Silent SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 96320908 96320908 SNRNP200 2 G G T 47 PTPN18 26469 broad.mit.edu 36 2 130843191 130843191 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 130843191 130843191 PTPN18 2 T T C 57 ARHGEF4 50649 broad.mit.edu 36 2 131502040 131502040 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131502040 131502040 ARHGEF4 2 C C A 27 ACVR1 90 broad.mit.edu 36 2 158345220 158345220 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 158345220 158345220 ACVR1 2 C C A 26 KCNH7 90134 broad.mit.edu 36 2 162961626 162961626 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 162961626 162961626 KCNH7 2 A A T 11 SCN9A 6335 broad.mit.edu 36 2 166857999 166857999 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 166857999 166857999 SCN9A 2 G G C 44 TTN 7273 broad.mit.edu 36 2 179284993 179284993 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 179284993 179284993 TTN 2 T T C 52 PPP1R7 5510 broad.mit.edu 36 2 241754482 241754482 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 241754482 241754482 PPP1R7 2 T T C 57 SIGLEC1 6614 broad.mit.edu 36 20 3620593 3620593 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 3620593 3620593 SIGLEC1 20 G G A 36 SIGLEC1 6614 broad.mit.edu 36 20 3622093 3622093 + Splice_Site_SNP SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 3622093 3622093 SIGLEC1 20 C C A 17 ZNF133 7692 broad.mit.edu 36 20 18245068 18245068 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 18245068 18245068 ZNF133 20 C C A 23 MYH7B 57644 broad.mit.edu 36 20 33048946 33048946 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33048946 33048946 MYH7B 20 G G C 42 NCOA3 8202 broad.mit.edu 36 20 45698233 45698233 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 45698233 45698233 NCOA3 20 G G T 41 IL17RA 23765 broad.mit.edu 36 22 15969845 15969845 + Missense_Mutation SNP T T G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15969845 15969845 IL17RA 22 T T G 58 MYO18B 84700 broad.mit.edu 36 22 24506162 24506162 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24506162 24506162 MYO18B 22 C C T 30 TTLL8 164714 broad.mit.edu 36 22 48813919 48813919 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48813919 48813919 TTLL8 22 C C A 21 C3orf20 84077 broad.mit.edu 36 3 14699308 14699308 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 14699308 14699308 C3orf20 3 C C A 30 SHQ1 55164 broad.mit.edu 36 3 72964217 72964217 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72964217 72964217 SHQ1 3 G G T 45 FRG2C 100288801 broad.mit.edu 36 3 75797676 75797676 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75797676 75797676 FRG2C 3 C C T 23 BCHE 590 broad.mit.edu 36 3 167030584 167030584 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 167030584 167030584 BCHE 3 C C A 22 CPN2 1370 broad.mit.edu 36 3 195544478 195544478 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 195544478 195544478 CPN2 3 C C A 22 PIGZ 80235 broad.mit.edu 36 3 198163285 198163285 + Silent SNP T T A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 198163285 198163285 PIGZ 3 T T A 50 ATP10D 57205 broad.mit.edu 36 4 47254715 47254715 + Missense_Mutation SNP A A T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47254715 47254715 ATP10D 4 A A T 12 PPEF2 5470 broad.mit.edu 36 4 77016653 77016653 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 77016653 77016653 PPEF2 4 G G T 46 BMP3 651 broad.mit.edu 36 4 82186177 82186177 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 82186177 82186177 BMP3 4 A A G 12 MMRN1 22915 broad.mit.edu 36 4 91035335 91035335 + Nonsense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 91035335 91035335 MMRN1 4 G G T 41 MMRN1 22915 broad.mit.edu 36 4 91093337 91093337 + Silent SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 91093337 91093337 MMRN1 4 A A G 16 TNIP3 79931 broad.mit.edu 36 4 122287746 122287746 + Nonsense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 122287746 122287746 TNIP3 4 G G A 40 FHDC1 85462 broad.mit.edu 36 4 154094886 154094886 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154094886 154094886 FHDC1 4 C C G 27 CPE 1363 broad.mit.edu 36 4 166625129 166625129 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 166625129 166625129 CPE 4 C C A 21 SEMA5A 9037 broad.mit.edu 36 5 9277934 9277934 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 9277934 9277934 SEMA5A 5 C C T 28 DNAH5 1767 broad.mit.edu 36 5 13822114 13822114 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 13822114 13822114 DNAH5 5 C C A 21 DNAH5 1767 broad.mit.edu 36 5 13822233 13822233 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13822233 13822233 DNAH5 5 C C T 20 JAKMIP2 9832 broad.mit.edu 36 5 147031461 147031461 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 147031461 147031461 JAKMIP2 5 C C G 32 USP49 25862 broad.mit.edu 36 6 41879597 41879597 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41879597 41879597 USP49 6 G G A 34 SUPT3H 8464 broad.mit.edu 36 6 45079473 45079473 + Silent SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 45079473 45079473 SUPT3H 6 T T C 58 GRIK2 2898 broad.mit.edu 36 6 102372964 102372964 + Silent SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 102372964 102372964 GRIK2 6 C C G 26 SAMD3 154075 broad.mit.edu 36 6 130517856 130517856 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130517856 130517856 SAMD3 6 G G A 34 IYD 389434 broad.mit.edu 36 6 150732019 150732019 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150732019 150732019 IYD 6 C C A 18 KIF25 3834 broad.mit.edu 36 6 168173123 168173123 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 168173123 168173123 KIF25 6 G G T 41 DAGLB 221955 broad.mit.edu 36 7 6416284 6416284 + Splice_Site_SNP SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 6416284 6416284 DAGLB 7 A A G 6 HECW1 23072 broad.mit.edu 36 7 43462495 43462495 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 43462495 43462495 HECW1 7 C C G 27 BUD31 8896 broad.mit.edu 36 7 98846658 98846658 + Missense_Mutation SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 98846658 98846658 BUD31 7 A A G 13 MUC17 140453 broad.mit.edu 36 7 100469055 100469055 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100469055 100469055 MUC17 7 G G A 47 EMID2 136227 broad.mit.edu 36 7 100793114 100793114 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100793114 100793114 EMID2 7 C C T 32 RELN 5649 broad.mit.edu 36 7 102911473 102911473 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102911473 102911473 RELN 7 G G C 44 KCND2 3751 broad.mit.edu 36 7 119702624 119702624 + Silent SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 119702624 119702624 KCND2 7 G G T 39 PRAGMIN 157285 broad.mit.edu 36 8 8234453 8234453 + Silent SNP G G A rs56187292 Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 8234453 8234453 PRAGMIN 8 G G A 39 MYST3 7994 broad.mit.edu 36 8 41951494 41951494 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 41951494 41951494 MYST3 8 T T C 52 CNBD1 168975 broad.mit.edu 36 8 88435114 88435114 + Silent SNP A A G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 88435114 88435114 CNBD1 8 A A G 3 BAI1 575 broad.mit.edu 36 8 143621771 143621771 + Silent SNP G G T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 143621771 143621771 BAI1 8 G G T 41 FANCG 2189 broad.mit.edu 36 9 35066001 35066001 + Silent SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 35066001 35066001 FANCG 9 G G A 36 TLN1 7094 broad.mit.edu 36 9 35714624 35714624 + Silent SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 35714624 35714624 TLN1 9 C C A 25 TMEM2 23670 broad.mit.edu 36 9 73494923 73494923 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73494923 73494923 TMEM2 9 C C T 19 PRUNE2 158471 broad.mit.edu 36 9 78511811 78511811 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 78511811 78511811 PRUNE2 9 C C G 20 HDAC6 10013 broad.mit.edu 36 X 48549720 48549720 + Silent SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 48549720 48549720 HDAC6 23 C C T 24 HDAC6 10013 broad.mit.edu 36 X 48559520 48559520 + Silent SNP T T C novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48559520 48559520 HDAC6 23 T T C 56 STARD8 9754 broad.mit.edu 36 X 67855089 67855089 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 67855089 67855089 STARD8 23 C C A 20 RLIM 51132 broad.mit.edu 36 X 73729525 73729525 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73729525 73729525 RLIM 23 C C A 32 ODZ1 10178 broad.mit.edu 36 X 123345668 123345668 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 123345668 123345668 ODZ1 23 G G A 38 GPR112 139378 broad.mit.edu 36 X 135255144 135255144 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 135255144 135255144 GPR112 23 C C G 22 TP53 7157 broad.mit.edu 36 17 7517827 7517827 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Missense_Mutation SNP 7517827 7517827 TP53 17 C C T 22 KRT77 374454 broad.mit.edu 36 12 51372607 51372614 + Frame_Shift_Del DEL AGGTCCTG - AGGTCCTG novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 51372607 51372614 KRT77 12 AGGTCCTG - AGGTCCTG 7 HNF1B 6928 broad.mit.edu 36 17 33144652 33144662 + Frame_Shift_Del DEL TGGCCTGGGTC - - novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 - - TGGCCTGGGTC TGGCCTGGGTC Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Del DEL 33144652 33144662 HNF1B 17 TGGCCTGGGTC - - 59 PPP5C 5536 broad.mit.edu 36 19 51542232 51542233 + Frame_Shift_Ins INS - C - novel Unknown TCGA-13-0904-01 TCGA-13-0904-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Ins INS 51542232 51542233 PPP5C 19 - C - 34