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 PEAR1 375033 broad.mit.edu 36 1 155141269 155141269 + Splice_Site_SNP SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 155141269 155141269 PEAR1 1 G G A 40 CHML 1122 broad.mit.edu 36 1 239864885 239864885 + Silent SNP C C A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 239864885 239864885 CHML 1 C C A 22 KIAA1462 57608 broad.mit.edu 36 10 30376650 30376650 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30376650 30376650 KIAA1462 10 G G A 38 CTR9 9646 broad.mit.edu 36 11 10756974 10756974 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10756974 10756974 CTR9 11 C C T 26 GRIA4 2893 broad.mit.edu 36 11 105274336 105274336 + Silent SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 105274336 105274336 GRIA4 11 G G A 36 ROBO3 64221 broad.mit.edu 36 11 124251398 124251399 + Missense_Mutation DNP GA GA AG novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 124251398 124251399 ROBO3 11 GA GA AG 41 ANPEP 290 broad.mit.edu 36 15 88150536 88150536 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 88150536 88150536 ANPEP 15 G G A 43 OR3A2 4995 broad.mit.edu 36 17 3128274 3128274 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 3128274 3128274 OR3A2 17 G G A 40 MYH4 4622 broad.mit.edu 36 17 10292436 10292436 + Splice_Site_SNP SNP A A T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 10292436 10292436 MYH4 17 A A T 14 KRT12 3859 broad.mit.edu 36 17 36276897 36276897 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36276897 36276897 KRT12 17 G G C 37 TICAM1 148022 broad.mit.edu 36 19 4768712 4768712 + Silent SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 4768712 4768712 TICAM1 19 C C T 26 CYP4F3 4051 broad.mit.edu 36 19 15617582 15617582 + Silent SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 15617582 15617582 CYP4F3 19 C C T 31 CD207 50489 broad.mit.edu 36 2 70916385 70916385 + Silent SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 70916385 70916385 CD207 2 C C T 27 NRP2 8828 broad.mit.edu 36 2 206300889 206300889 + Silent SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 206300889 206300889 NRP2 2 G G A 39 SIGLEC1 6614 broad.mit.edu 36 20 3622892 3622892 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 3622892 3622892 SIGLEC1 20 C C T 26 PLCB1 23236 broad.mit.edu 36 20 8717132 8717132 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 8717132 8717132 PLCB1 20 C C A 29 STK4 6789 broad.mit.edu 36 20 43137155 43137155 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 43137155 43137155 STK4 20 G G A 39 PTPRG 5793 broad.mit.edu 36 3 62164618 62164618 + Silent SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 62164618 62164618 PTPRG 3 C C T 27 CCRN4L 25819 broad.mit.edu 36 4 140183830 140183830 + Silent SNP A A C novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 140183830 140183830 CCRN4L 4 A A C 7 FBXW7 55294 broad.mit.edu 36 4 153463655 153463655 + Nonsense_Mutation SNP A A T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 153463655 153463655 FBXW7 4 A A T 5 ODZ3 55714 broad.mit.edu 36 4 183951076 183951076 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 183951076 183951076 ODZ3 4 G G A 40 ISL1 3670 broad.mit.edu 36 5 50721518 50721518 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50721518 50721518 ISL1 5 A A G 5 PITX1 5307 broad.mit.edu 36 5 134392496 134392496 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 134392496 134392496 PITX1 5 C C T 19 PCDHA9 9752 broad.mit.edu 36 5 140209219 140209219 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140209219 140209219 PCDHA9 5 C C T 22 GRIA1 2890 broad.mit.edu 36 5 153170810 153170810 + Silent SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 153170810 153170810 GRIA1 5 C C T 19 LANCL2 55915 broad.mit.edu 36 7 55435292 55435292 + Splice_Site_SNP SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Splice_Site_SNP SNP 55435292 55435292 LANCL2 7 G G A 44 BRAF 673 broad.mit.edu 36 7 140099662 140099662 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 140099662 140099662 BRAF 7 T T C 50 SLC24A2 25769 broad.mit.edu 36 9 19506389 19506389 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19506389 19506389 SLC24A2 9 G G A 43 COL15A1 1306 broad.mit.edu 36 9 100803013 100803013 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100803013 100803013 COL15A1 9 G G A 39 EPB41L4B 54566 broad.mit.edu 36 9 111019214 111019214 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 111019214 111019214 EPB41L4B 9 G G A 37 KCND1 3750 broad.mit.edu 36 X 48704872 48704872 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48704872 48704872 KCND1 23 C C T 23 BEX1 55859 broad.mit.edu 36 X 102204510 102204510 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102204510 102204510 BEX1 23 G G C 47 NBPF14 25832 broad.mit.edu 36 1 146482253 146482257 + Frame_Shift_Del DEL CATGT - CATGT novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 146482253 146482257 NBPF14 1 CATGT - CATGT 21 GRIA2 2891 broad.mit.edu 36 4 158477126 158477132 + Frame_Shift_Del DEL CCTTTAG - CCTTTAG novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 - CCTTTAG CCTTTAG CCTTTAG Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Del DEL 158477126 158477132 GRIA2 4 CCTTTAG - CCTTTAG 30 PRKDC 5591 broad.mit.edu 36 8 48930434 48930434 + Frame_Shift_Del DEL T - T novel Unknown TCGA-24-1565-01 TCGA-24-1565-10 - T T T Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Del DEL 48930434 48930434 PRKDC 8 T - T 60