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 COL11A1 1301 broad.mit.edu 36 1 103242778 103242778 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103242778 103242778 COL11A1 1 C C T 24 TDRD5 163589 broad.mit.edu 36 1 177875804 177875804 + Silent SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 177875804 177875804 TDRD5 1 C C T 30 TPR 7175 broad.mit.edu 36 1 184579221 184579221 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 184579221 184579221 TPR 1 G G A 40 HNRNPU 3192 broad.mit.edu 36 1 243093737 243093737 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 243093737 243093737 HNRNPU 1 G G A 42 ITIH5 80760 broad.mit.edu 36 10 7648321 7648321 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7648321 7648321 ITIH5 10 C C G 32 PCDH15 65217 broad.mit.edu 36 10 55252095 55252095 + Silent SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55252095 55252095 PCDH15 10 G G A 39 RHOG 391 broad.mit.edu 36 11 3805821 3805821 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3805821 3805821 RHOG 11 C C A 27 CREB3L1 90993 broad.mit.edu 36 11 46291044 46291044 + Silent SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 46291044 46291044 CREB3L1 11 C C T 17 C12orf40 283461 broad.mit.edu 36 12 38362935 38362935 + Silent SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 38362935 38362935 C12orf40 12 G G A 41 BAG5 9529 broad.mit.edu 36 14 103096557 103096557 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103096557 103096557 BAG5 14 C C G 25 LCAT 3931 broad.mit.edu 36 16 66531739 66531739 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66531739 66531739 LCAT 16 T T C 59 WDR59 79726 broad.mit.edu 36 16 73477795 73477795 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73477795 73477795 WDR59 16 G G A 38 ZFPM1 161882 broad.mit.edu 36 16 87128759 87128759 + Silent SNP G G C novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 87128759 87128759 ZFPM1 16 G G C 38 TP53 7157 broad.mit.edu 36 17 7517610 7517610 + Nonsense_Mutation SNP T T A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 7517610 7517610 TP53 17 T T A 62 ALKBH5 54890 broad.mit.edu 36 17 18028803 18028803 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18028803 18028803 ALKBH5 17 A A G 5 CARD14 79092 broad.mit.edu 36 17 75783598 75783598 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75783598 75783598 CARD14 17 C C T 31 CD22 933 broad.mit.edu 36 19 40520658 40520658 + Silent SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40520658 40520658 CD22 19 G G A 38 ZNF227 7770 broad.mit.edu 36 19 49431597 49431597 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49431597 49431597 ZNF227 19 A A G 11 SIGLEC11 114132 broad.mit.edu 36 19 55154478 55154478 + Silent SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55154478 55154478 SIGLEC11 19 C C T 23 DUXA 503835 broad.mit.edu 36 19 62358493 62358493 + Silent SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62358493 62358493 DUXA 19 C C T 19 CNTNAP5 129684 broad.mit.edu 36 2 125238037 125238037 + Silent SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 125238037 125238037 CNTNAP5 2 C C T 19 SCN7A 6332 broad.mit.edu 36 2 166970365 166970365 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 166970365 166970365 SCN7A 2 C C T 30 HAT1 8520 broad.mit.edu 36 2 172487265 172487265 + Splice_Site_SNP SNP T T G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 172487265 172487265 HAT1 2 T T G 57 ADAM23 8745 broad.mit.edu 36 2 207132936 207132936 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 207132936 207132936 ADAM23 2 C C T 25 STX16 8675 broad.mit.edu 36 20 56684661 56684661 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 56684661 56684661 STX16 20 C C T 29 POFUT2 23275 broad.mit.edu 36 21 45530176 45530176 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45530176 45530176 POFUT2 21 G G T 40 PPM1F 9647 broad.mit.edu 36 22 20615650 20615650 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20615650 20615650 PPM1F 22 C C A 26 NEFH 4744 broad.mit.edu 36 22 28209555 28209555 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28209555 28209555 NEFH 22 T T A 54 ACAD9 28976 broad.mit.edu 36 3 130111556 130111556 + Silent SNP C C G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 130111556 130111556 ACAD9 3 C C G 21 PCDH18 54510 broad.mit.edu 36 4 138671431 138671431 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138671431 138671431 PCDH18 4 G G T 42 C7 730 broad.mit.edu 36 5 41017274 41017274 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 41017274 41017274 C7 5 C C T 23 CCL28 56477 broad.mit.edu 36 5 43417739 43417739 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43417739 43417739 CCL28 5 C C T 23 PPP2CA 5515 broad.mit.edu 36 5 133569679 133569679 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 133569679 133569679 PPP2CA 5 G G A 37 SAP30L 79685 broad.mit.edu 36 5 153813248 153813248 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 153813248 153813248 SAP30L 5 G G T 34 FIG4 9896 broad.mit.edu 36 6 110224724 110224724 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110224724 110224724 FIG4 6 G G T 44 KIAA1539 80256 broad.mit.edu 36 9 35096541 35096541 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35096541 35096541 KIAA1539 9 G G C 36 ASTN2 23245 broad.mit.edu 36 9 119016679 119016679 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 119016679 119016679 ASTN2 9 C C T 23 ZNF41 7592 broad.mit.edu 36 X 47193127 47193127 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47193127 47193127 ZNF41 23 C C A 17 PJA1 64219 broad.mit.edu 36 X 68297918 68297918 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 68297918 68297918 PJA1 23 C C A 26 TEX13A 56157 broad.mit.edu 36 X 104350948 104350948 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 104350948 104350948 TEX13A 23 C C G 32 NEK8 284086 broad.mit.edu 36 17 24088800 24088837 + Splice_Site_Del DEL GGCCCCCATCTGTCCTGCAGGGCAGAGAAGTCCGTGGC - GGCCCCCATCTGTCCTGCAGGGCAGAGAAGTCCGTGGC novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 24088800 24088837 NEK8 17 GGCCCCCATCTGTCCTGCAGGGCAGAGAAGTCCGTGGC - GGCCCCCATCTGTCCTGCAGGGCAGAGAAGTCCGTGGC 35 CTSL1 1514 broad.mit.edu 36 9 89533085 89533085 + Frame_Shift_Del DEL C - C novel Unknown TCGA-24-2271-01 TCGA-24-2271-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 89533085 89533085 CTSL1 9 C - C 32