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 SYNC 81493 broad.mit.edu 36 1 32933141 32933141 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32933141 32933141 SYNC 1 G G A 42 FOXJ3 22887 broad.mit.edu 36 1 42444044 42444044 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 42444044 42444044 FOXJ3 1 C C T 21 ZMYND12 84217 broad.mit.edu 36 1 42688283 42688283 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42688283 42688283 ZMYND12 1 T T G 51 C1orf50 79078 broad.mit.edu 36 1 43013004 43013004 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43013004 43013004 C1orf50 1 G G T 33 IPP 3652 broad.mit.edu 36 1 45952625 45952625 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45952625 45952625 IPP 1 T T C 52 MAST2 23139 broad.mit.edu 36 1 46062785 46062785 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46062785 46062785 MAST2 1 C C G 20 JAK1 3716 broad.mit.edu 36 1 65095951 65095951 + Silent SNP G G A rs55788790 Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 65095951 65095951 JAK1 1 G G A 39 PTGFR 5737 broad.mit.edu 36 1 78731774 78731774 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 78731774 78731774 PTGFR 1 C C T 27 SYPL2 284612 broad.mit.edu 36 1 109820954 109820954 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 109820954 109820954 SYPL2 1 C C T 27 PLEKHA6 22874 broad.mit.edu 36 1 202503260 202503260 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 202503260 202503260 PLEKHA6 1 G G C 37 PROX1 5629 broad.mit.edu 36 1 212238066 212238066 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 212238066 212238066 PROX1 1 C C G 19 USH2A 7399 broad.mit.edu 36 1 213998688 213998688 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 213998688 213998688 USH2A 1 C C G 30 ZNF238 10472 broad.mit.edu 36 1 242284894 242284894 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 242284894 242284894 ZNF238 1 A A T 11 LRRC18 474354 broad.mit.edu 36 10 49791871 49791871 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 49791871 49791871 LRRC18 10 C C T 26 ANK3 288 broad.mit.edu 36 10 61499391 61499391 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61499391 61499391 ANK3 10 A A T 5 PLA2G12B 84647 broad.mit.edu 36 10 74371087 74371087 + Silent SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 74371087 74371087 PLA2G12B 10 G G A 46 TSPAN14 81619 broad.mit.edu 36 10 82259120 82259120 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 82259120 82259120 TSPAN14 10 C C T 18 NOC3L 64318 broad.mit.edu 36 10 96089607 96089607 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96089607 96089607 NOC3L 10 C C T 27 PDLIM1 9124 broad.mit.edu 36 10 97013632 97013632 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 97013632 97013632 PDLIM1 10 C C A 22 LCOR 84458 broad.mit.edu 36 10 98704815 98704815 + Nonsense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 98704815 98704815 LCOR 10 A A T 5 ABCC8 6833 broad.mit.edu 36 11 17375098 17375098 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17375098 17375098 ABCC8 11 C C A 31 DLG2 1740 broad.mit.edu 36 11 83448129 83448129 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 83448129 83448129 DLG2 11 C C A 18 C11orf65 160140 broad.mit.edu 36 11 107783085 107783085 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107783085 107783085 C11orf65 11 G G C 46 FAM55D 54827 broad.mit.edu 36 11 113956229 113956229 + Missense_Mutation SNP T T A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113956229 113956229 FAM55D 11 T T A 58 DSCAML1 57453 broad.mit.edu 36 11 116834697 116834697 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116834697 116834697 DSCAML1 11 A A G 12 LRMP 4033 broad.mit.edu 36 12 25148247 25148247 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25148247 25148247 LRMP 12 G G A 35 RPAP3 79657 broad.mit.edu 36 12 46377703 46377703 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46377703 46377703 RPAP3 12 A A C 10 TFCP2 7024 broad.mit.edu 36 12 49798741 49798741 + Missense_Mutation SNP T T A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49798741 49798741 TFCP2 12 T T A 52 OR10A7 121364 broad.mit.edu 36 12 53901776 53901776 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53901776 53901776 OR10A7 12 G G T 38 RASAL1 8437 broad.mit.edu 36 12 112050340 112050340 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112050340 112050340 RASAL1 12 C C A 26 IQCD 115811 broad.mit.edu 36 12 112129957 112129957 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112129957 112129957 IQCD 12 G G C 41 FBXW8 26259 broad.mit.edu 36 12 115946377 115946377 + Silent SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 115946377 115946377 FBXW8 12 G G T 38 TEP1 7011 broad.mit.edu 36 14 19916456 19916456 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19916456 19916456 TEP1 14 C C G 32 ACIN1 22985 broad.mit.edu 36 14 22617242 22617242 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22617242 22617242 ACIN1 14 T T G 55 GZMH 2999 broad.mit.edu 36 14 24146728 24146728 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24146728 24146728 GZMH 14 G G T 35 EXOC5 10640 broad.mit.edu 36 14 56780668 56780668 + Silent SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 56780668 56780668 EXOC5 14 A A G 4 DIS3L 115752 broad.mit.edu 36 15 64412395 64412395 + Splice_Site_SNP SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 64412395 64412395 DIS3L 15 G G C 35 ADAMTS17 170691 broad.mit.edu 36 15 98620093 98620093 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 98620093 98620093 ADAMTS17 15 A A C 15 FAHD1 81889 broad.mit.edu 36 16 1817674 1817674 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1817674 1817674 FAHD1 16 T T G 54 SH2B1 25970 broad.mit.edu 36 16 28787832 28787832 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28787832 28787832 SH2B1 16 A A C 9 NFATC2IP 84901 broad.mit.edu 36 16 28875118 28875118 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28875118 28875118 NFATC2IP 16 A A G 4 TP53 7157 broad.mit.edu 36 17 7517846 7517846 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7517846 7517846 TP53 17 G G A 38 CDK12 51755 broad.mit.edu 36 17 34919519 34919519 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34919519 34919519 CDK12 17 G G T 39 EZH1 2145 broad.mit.edu 36 17 38123578 38123578 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38123578 38123578 EZH1 17 T T C 56 HEXIM1 10614 broad.mit.edu 36 17 40582389 40582389 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40582389 40582389 HEXIM1 17 A A T 5 STRADA 92335 broad.mit.edu 36 17 59138401 59138401 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59138401 59138401 STRADA 17 G G C 47 OSBPL1A 114876 broad.mit.edu 36 18 20000584 20000584 + Silent SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 20000584 20000584 OSBPL1A 18 G G A 46 GALNT1 2589 broad.mit.edu 36 18 31497589 31497589 + Splice_Site_SNP SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 31497589 31497589 GALNT1 18 G G C 36 CELF4 56853 broad.mit.edu 36 18 33107003 33107003 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33107003 33107003 CELF4 18 G G A 38 KIAA1683 80726 broad.mit.edu 36 19 18237230 18237230 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18237230 18237230 KIAA1683 19 G G A 42 ZNF208 7757 broad.mit.edu 36 19 21947837 21947837 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21947837 21947837 ZNF208 19 T T G 52 DPY19L3 147991 broad.mit.edu 36 19 37651543 37651543 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37651543 37651543 DPY19L3 19 C C G 28 ZNF671 79891 broad.mit.edu 36 19 62924791 62924791 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62924791 62924791 ZNF671 19 C C A 26 OTOF 9381 broad.mit.edu 36 2 26558931 26558931 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26558931 26558931 OTOF 2 G G A 42 EMILIN1 11117 broad.mit.edu 36 2 27158743 27158743 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27158743 27158743 EMILIN1 2 G G A 42 ERLEC1 27248 broad.mit.edu 36 2 53888966 53888966 + Silent SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 53888966 53888966 ERLEC1 2 G G A 33 ADD2 119 broad.mit.edu 36 2 70759469 70759469 + Nonsense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 70759469 70759469 ADD2 2 G G A 38 IL1F6 27179 broad.mit.edu 36 2 113480759 113480759 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113480759 113480759 IL1F6 2 G G A 39 TANC1 85461 broad.mit.edu 36 2 159794874 159794874 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 159794874 159794874 TANC1 2 G G C 36 LRP2 4036 broad.mit.edu 36 2 169778578 169778578 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 169778578 169778578 LRP2 2 G G T 47 TTN 7273 broad.mit.edu 36 2 179184780 179184780 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179184780 179184780 TTN 2 A A C 2 CCDC141 285025 broad.mit.edu 36 2 179409843 179409843 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179409843 179409843 CCDC141 2 G G A 42 ITGAV 3685 broad.mit.edu 36 2 187225058 187225058 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 187225058 187225058 ITGAV 2 C C A 30 UNC80 285175 broad.mit.edu 36 2 210362534 210362534 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 210362534 210362534 UNC80 2 G G A 39 PRKAG3 53632 broad.mit.edu 36 2 219400225 219400225 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 219400225 219400225 PRKAG3 2 G G C 35 TRIB3 57761 broad.mit.edu 36 20 316679 316679 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 316679 316679 TRIB3 20 C C G 30 SRC 6714 broad.mit.edu 36 20 35464339 35464339 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35464339 35464339 SRC 20 G G T 44 CTNNBL1 56259 broad.mit.edu 36 20 35922122 35922122 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35922122 35922122 CTNNBL1 20 G G A 37 PABPC1L 80336 broad.mit.edu 36 20 42983785 42983785 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42983785 42983785 PABPC1L 20 A A C 7 CECR1 51816 broad.mit.edu 36 22 16064504 16064504 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16064504 16064504 CECR1 22 C C A 20 LIMK2 3985 broad.mit.edu 36 22 29988653 29988653 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29988653 29988653 LIMK2 22 C C T 24 ENTHD1 150350 broad.mit.edu 36 22 38613688 38613688 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38613688 38613688 ENTHD1 22 C C T 24 SETD5 55209 broad.mit.edu 36 3 9492427 9492427 + Silent SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 9492427 9492427 SETD5 3 T T C 55 NEK10 152110 broad.mit.edu 36 3 27362694 27362694 + Missense_Mutation SNP G G C rs56125830 Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27362694 27362694 NEK10 3 G G C 37 CSRNP1 64651 broad.mit.edu 36 3 39163086 39163086 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39163086 39163086 CSRNP1 3 C C G 27 ATP6V1A 523 broad.mit.edu 36 3 114999971 114999971 + Silent SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 114999971 114999971 ATP6V1A 3 G G A 34 DNAJB11 51726 broad.mit.edu 36 3 187778186 187778186 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 187778186 187778186 DNAJB11 3 C C A 18 CNO 55330 broad.mit.edu 36 4 6769194 6769194 + Silent SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 6769194 6769194 CNO 4 G G C 38 KLF3 51274 broad.mit.edu 36 4 38367814 38367814 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38367814 38367814 KLF3 4 C C T 21 LIMCH1 22998 broad.mit.edu 36 4 41389128 41389128 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41389128 41389128 LIMCH1 4 A A C 9 CXCL9 4283 broad.mit.edu 36 4 77143841 77143841 + Missense_Mutation SNP T T A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77143841 77143841 CXCL9 4 T T A 60 LARP7 51574 broad.mit.edu 36 4 113790255 113790255 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113790255 113790255 LARP7 4 G G A 47 FSTL5 56884 broad.mit.edu 36 4 162728158 162728158 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 162728158 162728158 FSTL5 4 G G T 41 SPCS3 60559 broad.mit.edu 36 4 177480368 177480368 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 177480368 177480368 SPCS3 4 T T C 50 TRIO 7204 broad.mit.edu 36 5 14472940 14472940 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14472940 14472940 TRIO 5 C C G 17 FAM105B 90268 broad.mit.edu 36 5 14743252 14743252 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14743252 14743252 FAM105B 5 A A T 4 CMYA5 202333 broad.mit.edu 36 5 79065129 79065129 + Silent SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 79065129 79065129 CMYA5 5 A A T 7 GPRIN1 114787 broad.mit.edu 36 5 175959196 175959196 + Silent SNP G G T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 175959196 175959196 GPRIN1 5 G G T 35 FGFR4 2264 broad.mit.edu 36 5 176455898 176455898 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 176455898 176455898 FGFR4 5 G G A 38 HIST1H2AM 8336 broad.mit.edu 36 6 27968886 27968886 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27968886 27968886 HIST1H2AM 6 C C G 24 MDN1 23195 broad.mit.edu 36 6 90439774 90439774 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 90439774 90439774 MDN1 6 A A G 15 KLHL32 114792 broad.mit.edu 36 6 97668765 97668765 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 97668765 97668765 KLHL32 6 A A G 6 RFX6 222546 broad.mit.edu 36 6 117305175 117305175 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117305175 117305175 RFX6 6 A A T 7 LFNG 3955 broad.mit.edu 36 7 2533042 2533043 + Missense_Mutation DNP AC AC CA novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 2533042 2533043 LFNG 7 AC AC CA 6 FBXL18 80028 broad.mit.edu 36 7 5506682 5506682 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5506682 5506682 FBXL18 7 C C G 32 RELN 5649 broad.mit.edu 36 7 103021451 103021451 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103021451 103021451 RELN 7 C C T 28 AASS 10157 broad.mit.edu 36 7 121543936 121543936 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121543936 121543936 AASS 7 C C G 19 CPA1 1357 broad.mit.edu 36 7 129810805 129810805 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 129810805 129810805 CPA1 7 C C T 31 OR2F2 135948 broad.mit.edu 36 7 143263269 143263269 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 143263269 143263269 OR2F2 7 A A G 12 DNAJB6 10049 broad.mit.edu 36 7 156871083 156871083 + Silent SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 156871083 156871083 DNAJB6 7 G G A 46 GPR124 25960 broad.mit.edu 36 8 37809740 37809740 + Silent SNP C C T novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37809740 37809740 GPR124 8 C C T 24 EYA1 2138 broad.mit.edu 36 8 72396639 72396639 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72396639 72396639 EYA1 8 G G A 35 TRPM3 80036 broad.mit.edu 36 9 72357937 72357937 + Silent SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 72357937 72357937 TRPM3 9 C C A 21 CEP110 11064 broad.mit.edu 36 9 122917284 122917284 + Silent SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 122917284 122917284 CEP110 9 T T C 53 RALGPS1 9649 broad.mit.edu 36 9 128968291 128968291 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128968291 128968291 RALGPS1 9 G G C 36 QSOX2 169714 broad.mit.edu 36 9 138240870 138240870 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138240870 138240870 QSOX2 9 T T C 54 RPS6KA3 6197 broad.mit.edu 36 X 20104380 20104380 + Silent SNP T T C novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 20104380 20104380 RPS6KA3 23 T T C 62 MAGEA3 4102 broad.mit.edu 36 X 151686046 151686046 + Silent SNP C C A novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 151686046 151686046 MAGEA3 23 C C A 26 USP44 84101 broad.mit.edu 36 12 94436201 94436218 + In_Frame_Del DEL TGCATACTTCATCCATAG - TGCATACTTCATCCATAG novel Unknown TCGA-25-2392-01 TCGA-25-2392-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 94436201 94436218 USP44 12 TGCATACTTCATCCATAG - TGCATACTTCATCCATAG 63