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 Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq TVarRat NVarRat dbSNP_Strength dbSNP_AF dbSNP_PopFreq Confidence Algorithm PRDM16 63976 hgsc.bcm.edu hg19 1 3342300 3342300 + Missense_Mutation SNP A A G novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . PRDM16 NM_022114 exon13 c.A3095G p.H1032R ACGAGCACGAGAA . 123.0 24.0 137.0 0.0 . 147 . . . none . . PASS Atlas-SNP TAS1R1 80835 hgsc.bcm.edu hg19 1 6639491 6639491 + Silent SNP C C T novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . TAS1R1 NM_138697 exon6 c.C2373T p.A791A TGCGGCCAACATG . 114.0 46.0 105.0 0.0 . 76 . . . none . . PASS Atlas-SNP COL8A2 1296 hgsc.bcm.edu hg19 1 36564488 36564488 + Missense_Mutation SNP T T C novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . COL8A2 NM_005202 exon2 c.A794G p.E265G CCTGGCTCCCCCC . 65.0 4.0 61.0 0.0 . 41 . . . none . . PASS Atlas-SNP MCOLN2 255231 hgsc.bcm.edu hg19 1 85431299 85431299 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . MCOLN2 NM_153259 exon2 c.G170T p.R57L CTGGCTCGGTATT . 109.0 5.0 111.0 0.0 . 60 . . . none . . PASS Atlas-SNP PAPPA2 60676 hgsc.bcm.edu hg19 1 176809321 176809321 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . PAPPA2 NM_020318 exon22 c.G5215A p.D1739N CAAGCAGATGGTT . 310.0 90.0 277.0 0.0 . 665 . . . none . . PASS Atlas-SNP GREB1 9687 hgsc.bcm.edu hg19 2 11716612 11716612 + Missense_Mutation SNP T T A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . GREB1 NM_148903 exon5 c.T588A p.N196K CCGTAATGCACAA . 192.0 8.0 168.0 0.0 . 308 . . . none . . PASS Atlas-SNP GRM2 2912 hgsc.bcm.edu hg19 3 51750001 51750001 + Missense_Mutation SNP C C T novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . GRM2 NM_000839 exon4 c.C2212T p.L738F GTGCTCCTCATCG . 104.0 31.0 133.0 0.0 . 91 . . . none . . PASS Atlas-SNP KIAA2018 205717 hgsc.bcm.edu hg19 3 113376859 113376859 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . KIAA2018 NM_001009899 exon7 c.G3670T p.A1224S AAGATGCATTTGA . 101.0 29.0 97.0 0.0 . 180 . . . none . . PASS Atlas-SNP ADAD1 132612 hgsc.bcm.edu hg19 4 123305047 123305047 + Missense_Mutation SNP C C G novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . ADAD1 NM_139243 exon5 c.C455G p.S152C CTAGATCCAATGC . 115.0 29.0 99.0 0.0 . 94 . . . none . . PASS Atlas-SNP FNDC9 408263 hgsc.bcm.edu hg19 5 156769880 156769880 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . FNDC9 NM_001001343 exon2 c.G665T p.C222F TCCCCACAATGAG . 94.0 4.0 98.0 0.0 . 22 . . . none . . PASS Atlas-SNP SLC35D3 340146 hgsc.bcm.edu hg19 6 137245376 137245376 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . SLC35D3 NM_001008783 exon2 c.G793A p.A265T AGCATCGCCACCA . 76.0 12.0 72.0 0.0 . 33 . . . none . . PASS Atlas-SNP IFNGR1 3459 hgsc.bcm.edu hg19 6 137519461 137519461 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . IFNGR1 NM_000416 exon7 c.G1177T p.A393S TTAAAGCGATGCT . 103.0 5.0 125.0 0.0 . 46 . . . none . . PASS Atlas-SNP LAMB1 3912 hgsc.bcm.edu hg19 7 107572810 107572810 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 LAMB1,NS,carcinoma,0,1 LAMB1 NM_002291 exon28 c.C4201T p.P1401S CTGGGGGTGTTCC . 152.0 45.0 132.0 1.0 . 185 . . . none . . PASS Atlas-SNP PTPRZ1 5803 hgsc.bcm.edu hg19 7 121653581 121653581 + Missense_Mutation SNP G G T novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . PTPRZ1 NM_002851 exon12 c.G4481T p.S1494I CAGACAGTCAAAC . 91.0 29.0 78.0 0.0 . 605 . . . none . . PASS Atlas-SNP SCARA5 286133 hgsc.bcm.edu hg19 8 27737097 27737097 + Missense_Mutation SNP C C T novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 SCARA5,NS,carcinoma,0,1 SCARA5 NM_173833 exon8 c.G1340A p.R447Q CCGAATCGAGCTG . 187.0 49.0 171.0 0.0 . 53 . . . none . . PASS Atlas-SNP RAD21 5885 hgsc.bcm.edu hg19 8 117862960 117862960 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . RAD21 NM_006265 exon12 c.C1517T p.P506L TCTTCTGGGGGAA . 173.0 7.0 150.0 0.0 . 95 . . . none . . PASS Atlas-SNP CCIN 881 hgsc.bcm.edu hg19 9 36170395 36170395 + Missense_Mutation SNP C C T novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . CCIN NM_005893 exon1 c.C896T p.A299V TGTTTGCTTATAT . 135.0 8.0 169.0 0.0 . 56 . . . none . . PASS Atlas-SNP ANO5 203859 hgsc.bcm.edu hg19 11 22294380 22294380 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 .,1 ANO5 NM_213599 exon19 c.C2080A p.P694T TTGGCTCCTCTTC . 98.0 29.0 98.0 1.0 . 162 . . . none . . PASS Atlas-SNP RCOR2 283248 hgsc.bcm.edu hg19 11 63679913 63679913 + Missense_Mutation SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . RCOR2 NM_173587 exon11 c.G1121T p.R374L CGGCGCCGGTAGC . 180.0 55.0 188.0 0.0 . 43 . . . none . . PASS Atlas-SNP RBM4B 83759 hgsc.bcm.edu hg19 11 66444485 66444485 + Silent SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . RBM4B NM_031492 exon2 c.C66T p.F22F CTGCTCGAAGAGT . 235.0 52.0 259.0 0.0 . 27 . . . none . . PASS Atlas-SNP SLC36A4 120103 hgsc.bcm.edu hg19 11 92917687 92917687 + Splice_Site SNP C C A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . SLC36A4 NM_152313 exon4 c.180-1G>T . ACAAATCTGAAAA . 135.0 50.0 135.0 0.0 . 61 . . . none . . PASS Atlas-SNP ITGAL 3683 hgsc.bcm.edu hg19 16 30490672 30490672 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . ITGAL NM_002209 exon6 c.G466A p.D156N AACGTAGACCTGG . 101.0 43.0 104.0 0.0 . 149 . . . none . . PASS Atlas-SNP SHD 56961 hgsc.bcm.edu hg19 19 4290585 4290585 + Silent SNP C C T rs111268424 TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . SHD NM_020209 exon6 c.C978T p.A326A GGGTGCCGAGCAT . 107.0 42.0 105.0 0.0 . 33 . . . weak C|0.500;T|0.500 0.500 PASS Atlas-SNP TP53RK 112858 hgsc.bcm.edu hg19 20 45315804 45315804 + Missense_Mutation SNP T T C novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . TP53RK NM_033550 exon2 c.A350G p.E117G GAGCCTTCAATTT . 360.0 116.0 408.0 1.0 . 13 . . . none . . PASS Atlas-SNP KDELR3 11015 hgsc.bcm.edu hg19 22 38877225 38877225 + Nonsense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . KDELR3 NM_016657 exon4 c.G360A p.W120X CCTCTGGACTTTC . 282.0 79.0 285.0 0.0 . 39 . . . none . . PASS Atlas-SNP ND4L 0 hgsc.bcm.edu hg19 MT 10668 10668 + Missense_Mutation SNP G G A novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . . ENST00000361335 exon1 c.G199A p.A67T GTCTTTGCCGCCT . 9.0 6.0 1.0 0.0 . . . . . none . . PASS Atlas-SNP DNAJA2 10294 hgsc.bcm.edu hg19 16 47005807 47005807 + Splice_Site DEL C C - novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . DNAJA2 NM_005880 exon3 c.138+2G>- . . . 155.0 47.0 179.0 0.0 . 28 . 0.303226 0 none . . PASS Atlas-INDEL CADPS 8618 hgsc.bcm.edu hg19 3 62477094 62477096 + In_Frame_Del DEL AAC AAC - novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 AAC AAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . CADPS NM_183394 exon20 c.2975_2977del p.992_993del . . 191.0 53.0 203.0 0.0 . 387 . 0.277487 0 none . . PASS Atlas-INDEL ARHGAP35 2909 hgsc.bcm.edu hg19 19 47422875 47422875 + Frame_Shift_Del DEL C C - novel TCGA-A4-7915-01A-11D-2201-08 TCGA-A4-7915-10A-01D-2201-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 42528857-7966-471e-a0fe-27a109429871 e6538442-84f0-47d1-aee6-60a032d2d9d0 . . NM_004491 exon1 c.942delT p.T314fs . . 46.0 13.0 55.0 0.0 . . . 0.282609 0 none . . PASS Atlas-INDEL