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 RERE 473 broad.mit.edu 36 1 8477741 8477741 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8477741 8477741 RERE 1 C C T 23 ARHGEF19 128272 broad.mit.edu 36 1 16407167 16407167 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16407167 16407167 ARHGEF19 1 G G C 39 HSPG2 3339 broad.mit.edu 36 1 22031587 22031587 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22031587 22031587 HSPG2 1 C C T 24 TMEM39B 55116 broad.mit.edu 36 1 32333107 32333107 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32333107 32333107 TMEM39B 1 G G C 43 MACF1 23499 broad.mit.edu 36 1 39579069 39579069 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39579069 39579069 MACF1 1 G G C 36 KNCN 148930 broad.mit.edu 36 1 46789436 46789436 + Silent SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 46789436 46789436 KNCN 1 C C A 25 TNNI3K 51086 broad.mit.edu 36 1 74581390 74581390 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74581390 74581390 TNNI3K 1 C C G 21 DNAJB4 11080 broad.mit.edu 36 1 78254490 78254490 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 78254490 78254490 DNAJB4 1 G G T 36 REG4 83998 broad.mit.edu 36 1 120143975 120143975 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120143975 120143975 REG4 1 G G C 35 GON4L 54856 broad.mit.edu 36 1 153998658 153998658 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 153998658 153998658 GON4L 1 C C T 32 ABL2 0 broad.mit.edu 36 1 177369080 177369080 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 177369080 177369080 ABL2 1 G G A 46 TUBB8 347688 broad.mit.edu 36 10 83410 83410 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 83410 83410 TUBB8 10 C C A 23 SFMBT2 57713 broad.mit.edu 36 10 7449840 7449840 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7449840 7449840 SFMBT2 10 C C G 32 ITIH5 80760 broad.mit.edu 36 10 7658958 7658958 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7658958 7658958 ITIH5 10 G G A 39 SLC39A12 221074 broad.mit.edu 36 10 18320236 18320236 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18320236 18320236 SLC39A12 10 A A G 5 EPC1 80314 broad.mit.edu 36 10 32620219 32620219 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32620219 32620219 EPC1 10 C C G 29 ZNF248 57209 broad.mit.edu 36 10 38160907 38160907 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38160907 38160907 ZNF248 10 T T C 54 FRMPD2 0 broad.mit.edu 36 10 49051061 49051061 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49051061 49051061 FRMPD2 10 G G T 40 NRG3 10718 broad.mit.edu 36 10 83625517 83625517 + Silent SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 83625517 83625517 NRG3 10 C C A 24 CRTAC1 55118 broad.mit.edu 36 10 99645147 99645147 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99645147 99645147 CRTAC1 10 T T A 60 TACC2 10579 broad.mit.edu 36 10 123893177 123893177 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 123893177 123893177 TACC2 10 C C G 30 OR4C46 119749 broad.mit.edu 36 11 51372631 51372631 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51372631 51372631 OR4C46 11 A A T 10 MYO7A 4647 broad.mit.edu 36 11 76544673 76544673 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76544673 76544673 MYO7A 11 C C A 23 GRIA4 2893 broad.mit.edu 36 11 105309706 105309706 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105309706 105309706 GRIA4 11 G G C 34 MLL 4297 broad.mit.edu 36 11 117881432 117881432 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117881432 117881432 MLL 11 C C A 26 FAM118B 79607 broad.mit.edu 36 11 125631830 125631830 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 125631830 125631830 FAM118B 11 G G C 36 ETS1 2113 broad.mit.edu 36 11 127860089 127860089 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127860089 127860089 ETS1 11 G G C 43 CHD4 1108 broad.mit.edu 36 12 6577472 6577472 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6577472 6577472 CHD4 12 C C G 30 EPS8 2059 broad.mit.edu 36 12 15702324 15702324 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15702324 15702324 EPS8 12 T T C 53 SLC38A4 55089 broad.mit.edu 36 12 45459712 45459712 + Silent SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 45459712 45459712 SLC38A4 12 A A C 5 VDR 7421 broad.mit.edu 36 12 46537571 46537571 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46537571 46537571 VDR 12 C C A 31 GDF11 10220 broad.mit.edu 36 12 54423637 54423637 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54423637 54423637 GDF11 12 G G A 35 DCTN2 10540 broad.mit.edu 36 12 56215838 56215838 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56215838 56215838 DCTN2 12 C C G 29 ACTR6 64431 broad.mit.edu 36 12 99122956 99122956 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99122956 99122956 ACTR6 12 C C A 24 MYBPC1 4604 broad.mit.edu 36 12 100598386 100598386 + Silent SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100598386 100598386 MYBPC1 12 A A G 3 SLITRK1 114798 broad.mit.edu 36 13 83352936 83352936 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 83352936 83352936 SLITRK1 13 G G A 37 LIG4 3981 broad.mit.edu 36 13 107660143 107660143 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107660143 107660143 LIG4 13 G G A 35 OR4K13 390433 broad.mit.edu 36 14 19571935 19571935 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19571935 19571935 OR4K13 14 A A G 13 SLC10A1 6554 broad.mit.edu 36 14 69333346 69333346 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 69333346 69333346 SLC10A1 14 A A C 3 C14orf145 145508 broad.mit.edu 36 14 80367273 80367273 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 80367273 80367273 C14orf145 14 G G T 48 BTBD7 55727 broad.mit.edu 36 14 92778882 92778882 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 92778882 92778882 BTBD7 14 G G A 46 SLC12A6 9990 broad.mit.edu 36 15 32315550 32315550 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32315550 32315550 SLC12A6 15 G G A 38 HDC 3067 broad.mit.edu 36 15 48331931 48331931 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48331931 48331931 HDC 15 G G A 47 ADAMTS7 11173 broad.mit.edu 36 15 76854143 76854143 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76854143 76854143 ADAMTS7 15 C C T 27 DNAH3 55567 broad.mit.edu 36 16 21064853 21064853 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21064853 21064853 DNAH3 16 G G T 42 SRCAP 10847 broad.mit.edu 36 16 30642767 30642767 + Silent SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30642767 30642767 SRCAP 16 A A C 15 TP53 7157 broad.mit.edu 36 17 7518257 7518257 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518257 7518257 TP53 17 G G A 43 AATF 26574 broad.mit.edu 36 17 32384555 32384555 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32384555 32384555 AATF 17 G G C 47 NME1-NME2 4831 broad.mit.edu 36 17 46600614 46600614 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46600614 46600614 NME1-NME2 17 C C A 17 MRPL54 116541 broad.mit.edu 36 19 3713782 3713782 + Silent SNP A A T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 3713782 3713782 MRPL54 19 A A T 9 RANBP3 8498 broad.mit.edu 36 19 5872277 5872277 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5872277 5872277 RANBP3 19 C C T 26 CD209 30835 broad.mit.edu 36 19 7713996 7713996 + Missense_Mutation SNP C C T rs11465393 byFrequency;byHapMap TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7713996 7713996 CD209 19 C C T 28 MUC16 94025 broad.mit.edu 36 19 8943391 8943391 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8943391 8943391 MUC16 19 C C T 32 ILF3 3609 broad.mit.edu 36 19 10650834 10650834 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10650834 10650834 ILF3 19 C C G 20 MAP4K1 11184 broad.mit.edu 36 19 43770262 43770262 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43770262 43770262 MAP4K1 19 G G A 35 NLRP13 126204 broad.mit.edu 36 19 61128189 61128189 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61128189 61128189 NLRP13 19 T T G 63 GEN1 348654 broad.mit.edu 36 2 17806287 17806287 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17806287 17806287 GEN1 2 C C G 32 APOB 338 broad.mit.edu 36 2 21078462 21078462 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21078462 21078462 APOB 2 C C G 32 APOB 338 broad.mit.edu 36 2 21088287 21088287 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21088287 21088287 APOB 2 G G T 33 SULT1C2 6819 broad.mit.edu 36 2 108276684 108276684 + Silent SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 108276684 108276684 SULT1C2 2 C C A 29 TANC1 85461 broad.mit.edu 36 2 159794529 159794529 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 159794529 159794529 TANC1 2 G G T 42 TANC1 85461 broad.mit.edu 36 2 159795659 159795659 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 159795659 159795659 TANC1 2 C C G 32 COL5A2 1290 broad.mit.edu 36 2 189635838 189635838 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 189635838 189635838 COL5A2 2 G G A 42 SPHKAP 80309 broad.mit.edu 36 2 228563965 228563965 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 228563965 228563965 SPHKAP 2 C C G 29 COL6A3 1293 broad.mit.edu 36 2 237939103 237939103 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 237939103 237939103 COL6A3 2 G G C 48 TOP1 7150 broad.mit.edu 36 20 39178373 39178373 + Silent SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 39178373 39178373 TOP1 20 C C G 28 PTGIS 5740 broad.mit.edu 36 20 47564290 47564290 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47564290 47564290 PTGIS 20 T T C 52 ADAMTS1 9510 broad.mit.edu 36 21 27138624 27138624 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27138624 27138624 ADAMTS1 21 C C T 22 NUP210 23225 broad.mit.edu 36 3 13338792 13338792 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13338792 13338792 NUP210 3 C C G 32 UBP1 7342 broad.mit.edu 36 3 33456238 33456238 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33456238 33456238 UBP1 3 C C A 28 ZBTB47 92999 broad.mit.edu 36 3 42680326 42680326 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42680326 42680326 ZBTB47 3 C C G 28 COL7A1 1294 broad.mit.edu 36 3 48589336 48589336 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48589336 48589336 COL7A1 3 G G A 38 CELSR3 1951 broad.mit.edu 36 3 48674196 48674196 + Silent SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48674196 48674196 CELSR3 3 C C T 26 KIAA2018 205717 broad.mit.edu 36 3 114861540 114861540 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114861540 114861540 KIAA2018 3 G G T 44 IFT122 55764 broad.mit.edu 36 3 130678335 130678335 + Splice_Site_SNP SNP G G T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 130678335 130678335 IFT122 3 G G T 44 PLCH1 23007 broad.mit.edu 36 3 156694660 156694660 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 156694660 156694660 PLCH1 3 A A C 5 BCHE 590 broad.mit.edu 36 3 167031189 167031189 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 167031189 167031189 BCHE 3 C C G 17 MFN1 55669 broad.mit.edu 36 3 180579085 180579085 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 180579085 180579085 MFN1 3 T T C 56 CCDC39 339829 broad.mit.edu 36 3 181832026 181832026 + Silent SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 181832026 181832026 CCDC39 3 T T C 50 EPHB3 2049 broad.mit.edu 36 3 185773023 185773023 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 185773023 185773023 EPHB3 3 C C A 22 HTT 3064 broad.mit.edu 36 4 3191722 3191722 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3191722 3191722 HTT 4 T T A 51 CNGA1 1259 broad.mit.edu 36 4 47633341 47633341 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 47633341 47633341 CNGA1 4 G G A 39 KIT 3815 broad.mit.edu 36 4 55264810 55264810 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55264810 55264810 KIT 4 T T G 57 METAP1 23173 broad.mit.edu 36 4 100179587 100179587 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100179587 100179587 METAP1 4 A A C 7 GUCY1B3 2983 broad.mit.edu 36 4 156943097 156943097 + Silent SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 156943097 156943097 GUCY1B3 4 C C G 21 SLC45A2 51151 broad.mit.edu 36 5 33999621 33999621 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33999621 33999621 SLC45A2 5 C C A 20 MGC42105 167359 broad.mit.edu 36 5 43316048 43316048 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43316048 43316048 MGC42105 5 G G C 47 VCAN 1462 broad.mit.edu 36 5 82870305 82870305 + Silent SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 82870305 82870305 VCAN 5 A A G 7 PCDHGB4 8641 broad.mit.edu 36 5 140749606 140749606 + Silent SNP G G A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 140749606 140749606 PCDHGB4 5 G G A 40 AFAP1L1 134265 broad.mit.edu 36 5 148676037 148676037 + Silent SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 148676037 148676037 AFAP1L1 5 C C A 23 PPARGC1B 133522 broad.mit.edu 36 5 149180263 149180263 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149180263 149180263 PPARGC1B 5 C C A 20 TIGD6 81789 broad.mit.edu 36 5 149355814 149355814 + Silent SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 149355814 149355814 TIGD6 5 A A G 7 OR10C1 442194 broad.mit.edu 36 6 29516691 29516691 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29516691 29516691 OR10C1 6 C C T 19 PSORS1C2 170680 broad.mit.edu 36 6 31213944 31213944 + Silent SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31213944 31213944 PSORS1C2 6 G G C 43 CUL9 23113 broad.mit.edu 36 6 43282202 43282202 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43282202 43282202 CUL9 6 C C T 23 DOPEY1 23033 broad.mit.edu 36 6 83902315 83902315 + Silent SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 83902315 83902315 DOPEY1 6 T T C 51 PLEKHG1 57480 broad.mit.edu 36 6 151194350 151194350 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 151194350 151194350 PLEKHG1 6 C C A 30 SKAP2 8935 broad.mit.edu 36 7 26676276 26676276 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26676276 26676276 SKAP2 7 T T C 61 TYW1 55253 broad.mit.edu 36 7 66169767 66169767 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66169767 66169767 TYW1 7 C C G 31 RSBN1L 222194 broad.mit.edu 36 7 77245929 77245929 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77245929 77245929 RSBN1L 7 T T A 60 ANKRD7 56311 broad.mit.edu 36 7 117667234 117667234 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117667234 117667234 ANKRD7 7 A A C 9 C7orf45 136263 broad.mit.edu 36 7 129643285 129643285 + Silent SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 129643285 129643285 C7orf45 7 A A G 3 CHPF2 54480 broad.mit.edu 36 7 150565781 150565781 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150565781 150565781 CHPF2 7 G G C 34 GSR 2936 broad.mit.edu 36 8 30670114 30670114 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30670114 30670114 GSR 8 C C G 18 WHSC1L1 54904 broad.mit.edu 36 8 38314066 38314066 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38314066 38314066 WHSC1L1 8 C C G 21 PXDNL 137902 broad.mit.edu 36 8 52414735 52414735 + Splice_Site_SNP SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 52414735 52414735 PXDNL 8 A A G 2 CSMD3 114788 broad.mit.edu 36 8 113638303 113638303 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113638303 113638303 CSMD3 8 T T A 55 FREM1 158326 broad.mit.edu 36 9 14841551 14841551 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14841551 14841551 FREM1 9 G G C 41 PMPCA 23203 broad.mit.edu 36 9 138428909 138428909 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138428909 138428909 PMPCA 9 C C T 22 LONRF3 79836 broad.mit.edu 36 X 117993496 117993496 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117993496 117993496 LONRF3 23 G G C 37 SLITRK4 139065 broad.mit.edu 36 X 142544276 142544276 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 142544276 142544276 SLITRK4 23 A A G 16 MAGEA11 4110 broad.mit.edu 36 X 148576687 148576687 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 148576687 148576687 MAGEA11 23 C C T 28 MAMLD1 10046 broad.mit.edu 36 X 149389665 149389665 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149389665 149389665 MAMLD1 23 C C G 20 MSH2 4436 broad.mit.edu 36 2 47558954 47558954 + Frame_Shift_Del DEL G - G novel Unknown TCGA-24-2288-01 TCGA-24-2288-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 47558954 47558954 MSH2 2 G - G 47