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 RPL22 6146 hgsc.bcm.edu hg19 1 6246873 6246873 + Nonsense_Mutation SNP A A T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . RPL22 NM_000983 exon4 c.T246A p.Y82X TTTCAAATACCTG . 81.0 17.0 69.0 0.0 . 24 . . . none . . PASS Atlas-SNP ARID1A 8289 hgsc.bcm.edu hg19 1 27094329 27094329 + Missense_Mutation SNP G G A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ARID1A NM_006015 exon11 c.G3037A p.E1013K TTGTATGAGCTGG . 142.0 32.0 159.0 0.0 . 842 . . . none . . PASS Atlas-SNP ADAR 103 hgsc.bcm.edu hg19 1 154574720 154574720 + Missense_Mutation SNP A A T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ADAR NM_015840 exon2 c.T398A p.L133Q ATACTCAGTTCCT . 102.0 25.0 150.0 0.0 . 113 . . . none . . PASS Atlas-SNP FCRL4 83417 hgsc.bcm.edu hg19 1 157559028 157559028 + Silent SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . FCRL4 NM_031282 exon3 c.A273G p.P91P ACTTCGTGGGGAG . 165.0 32.0 154.0 0.0 . 95 . . . none . . PASS Atlas-SNP MPZL1 9019 hgsc.bcm.edu hg19 1 167745333 167745333 + Missense_Mutation SNP A A C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . MPZL1 NM_003953 exon5 c.A638C p.K213T CAGTTAAGCAGGC . 93.0 12.0 99.0 0.0 . 25 . . . none . . PASS Atlas-SNP CACYBP 27101 hgsc.bcm.edu hg19 1 174979129 174979129 + Missense_Mutation SNP G G T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db CACYBP,NS,carcinoma,0,1 CACYBP NM_014412 exon6 c.G601T p.D201Y TATGAAGATGGAG . 68.0 17.0 60.0 0.0 . 23 . . . none . . PASS Atlas-SNP NAV1 89796 hgsc.bcm.edu hg19 1 201762968 201762968 + Missense_Mutation SNP C C G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . NAV1 NM_020443 exon14 c.C3370G p.R1124G ACATCCCGCCTGC . 99.0 5.0 88.0 0.0 . 143 . . . none . . PASS Atlas-SNP XDH 7498 hgsc.bcm.edu hg19 2 31595113 31595113 + Silent SNP G G T rs201668777 by1000genomes;alternate_allele TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . XDH NM_000379 exon17 c.C1837A p.R613R GGGCCCGGGTGCT . 252.0 11.0 266.0 0.0 . 191 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP ABCA12 26154 hgsc.bcm.edu hg19 2 215865500 215865500 + Missense_Mutation SNP T T G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ABCA12 NM_173076 exon22 c.A3108C p.Q1036H TCCAGTTTGCAAT . 183.0 41.0 166.0 0.0 . 368 . . . none . . PASS Atlas-SNP C2orf62 375307 hgsc.bcm.edu hg19 2 219222364 219222364 + Nonsense_Mutation SNP C C T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . C2orf62 NM_198559 exon3 c.C226T p.Q76X AAATACCAGGAAA . 93.0 16.0 103.0 0.0 . 28 . . . none . . PASS Atlas-SNP SLC25A38 54977 hgsc.bcm.edu hg19 3 39431018 39431018 + Silent SNP C C T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db SLC25A38,colon,carcinoma,0,1 SLC25A38 NM_017875 exon2 c.C102T p.G34G GTGTGGCTCCATC . 116.0 27.0 126.0 0.0 . 25 . . . none . . PASS Atlas-SNP TNFSF10 8743 hgsc.bcm.edu hg19 3 172232704 172232704 + Missense_Mutation SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . TNFSF10 NM_003810 exon2 c.A217G p.M73V TGTTCATACTCTC . 176.0 41.0 130.0 0.0 . 30 . . . none . . PASS Atlas-SNP ACOX3 8310 hgsc.bcm.edu hg19 4 8372681 8372681 + Missense_Mutation SNP G G A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ACOX3 NM_003501 exon17 c.C1937T p.P646L TCAGGAGGAGCGA . 59.0 12.0 68.0 0.0 . 70 . . . none . . PASS Atlas-SNP CENPC1 1060 hgsc.bcm.edu hg19 4 68385012 68385012 + Missense_Mutation SNP C C G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . CENPC1 NM_001812 exon6 c.G540C p.K180N CTCTCTCTTTTGG . 138.0 36.0 106.0 0.0 . 66 . . . none . . PASS Atlas-SNP GC 2638 hgsc.bcm.edu hg19 4 72629625 72629625 + Nonsense_Mutation SNP C C A rs371509305 alternate_allele TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . GC NM_001204307 exon6 c.G559T p.G187X CTTGTCCGTAATT . 134.0 6.0 131.0 0.0 . 132 . . . alt . . PASS Atlas-SNP RNF150 57484 hgsc.bcm.edu hg19 4 141832440 141832440 + Missense_Mutation SNP G G C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . RNF150 NM_020724 exon6 c.C1056G p.N352K GATCTGGTTGGTG . 111.0 14.0 105.0 0.0 . 94 . . . none . . PASS Atlas-SNP SCAND3 114821 hgsc.bcm.edu hg19 6 28554157 28554157 + Missense_Mutation SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db SCAND3,NS,carcinoma,0,1 SCAND3 NM_052923 exon1 c.G338T p.R113L TGCTCCCGCACCC . 236.0 11.0 267.0 0.0 . 156 . . . none . . PASS Atlas-SNP LMBRD1 55788 hgsc.bcm.edu hg19 6 70462182 70462182 + Missense_Mutation SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . LMBRD1 NM_018368 exon4 c.A374G p.E125G TCCTTTTCTTCAT . 77.0 16.0 71.0 0.0 . 61 . . . none . . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu hg19 6 152673335 152673335 + Missense_Mutation SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . SYNE1 NM_182961 exon70 c.A11407G p.T3803A GGACAGTGCTGGT . 261.0 44.0 217.0 0.0 . 3227 . . . none . . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu hg19 7 47898372 47898372 + Missense_Mutation SNP C C A rs146609164 byfrequency;alternate_allele TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . PKD1L1 NM_138295 exon27 c.G4261T p.G1421C TGAGACCGATGAG . 121.0 7.0 98.0 0.0 . 328 . . . alt C|1.000;T|0.000 . PASS Atlas-SNP TMEM248 55069 hgsc.bcm.edu hg19 7 66410208 66410208 + Silent SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . . NM_017994 exon3 c.T405C p.H135H CACCCATCTGTAC . 247.0 43.0 244.0 0.0 . . . . . none . . PASS Atlas-SNP ING3 54556 hgsc.bcm.edu hg19 7 120595620 120595620 + Missense_Mutation SNP A A G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ING3 NM_019071 exon4 c.A209G p.Y70C ACTACTATAAAGC . 36.0 5.0 30.0 0.0 . 36 . . . none . . PASS Atlas-SNP HIPK2 28996 hgsc.bcm.edu hg19 7 139416356 139416356 + Missense_Mutation SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . HIPK2 NM_022740 exon2 c.G478T p.G160W TGGCCCCGCTTGC . 194.0 8.0 192.0 0.0 . 192 . . . none . . PASS Atlas-SNP MCPH1 79648 hgsc.bcm.edu hg19 8 6302006 6302006 + Missense_Mutation SNP A A T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . MCPH1 NM_001172574 exon8 c.A763T p.I255F GGATCCATTAATG . 89.0 23.0 89.0 0.0 . 65 . . . none . . PASS Atlas-SNP IKBKB 3551 hgsc.bcm.edu hg19 8 42173753 42173753 + Missense_Mutation SNP T T A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . IKBKB NM_001556 exon10 c.T826A p.W276R GAGAAGTGGCTGC . 48.0 10.0 68.0 0.0 . 88 . . . none . . PASS Atlas-SNP CYP7A1 1581 hgsc.bcm.edu hg19 8 59409487 59409487 + Missense_Mutation SNP C C A rs201046553 by1000genomes;alternate_allele TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . CYP7A1 NM_000780 exon3 c.G584T p.R195L GTGTCCCGCCTTG . 176.0 9.0 163.0 0.0 . 76 . . . alt C|1.000;T|0.000 . PASS Atlas-SNP FBXL6 26233 hgsc.bcm.edu hg19 8 145579793 145579793 + Missense_Mutation SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . FBXL6 NM_012162 exon8 c.A1307G p.Q436R CACTTCTGGGTCA . 156.0 30.0 181.0 0.0 . 26 . . . none . . PASS Atlas-SNP KIN 22944 hgsc.bcm.edu hg19 10 7825098 7825098 + Missense_Mutation SNP C C G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . KIN NM_012311 exon2 c.G155C p.R52T AGTTGTCTCTGAT . 61.0 8.0 49.0 0.0 . 39 . . . none . . PASS Atlas-SNP PLCE1 51196 hgsc.bcm.edu hg19 10 95849076 95849076 + Silent SNP A A G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . PLCE1 NM_001165979 exon1 c.A225G p.V75V TGAGGTACCCAAT . 169.0 66.0 198.0 0.0 . 543 . . . none . . PASS Atlas-SNP BEST1 7439 hgsc.bcm.edu hg19 11 61730354 61730354 + Silent SNP C C T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . BEST1 NM_004183 exon10 c.C1728T p.A576A TTGGGCCTTGGAA . 91.0 13.0 103.0 0.0 . 85 . . . none . . PASS Atlas-SNP PARP11 57097 hgsc.bcm.edu hg19 12 3921402 3921402 + Missense_Mutation SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db PARP11,NS,malignant_melanoma,0,1 PARP11 NM_020367 exon8 c.G904T p.G302W AGCTCCCGTCTTT . 151.0 9.0 118.0 2.0 . 39 . . . none . . PASS Atlas-SNP ABCC9 10060 hgsc.bcm.edu hg19 12 21962862 21962862 + Silent SNP G G A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ABCC9 NM_005691 exon35 c.C4239T p.C1413C ATCTGTGCATTTG . 127.0 24.0 94.0 0.0 . 411 . . . none . . PASS Atlas-SNP C2CD5 9847 hgsc.bcm.edu hg19 12 22666235 22666235 + Missense_Mutation SNP T T C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . . NM_014802 exon9 c.A1031G p.E344G CTCTGTTCCAACG . 187.0 31.0 163.0 0.0 . . . . . none . . PASS Atlas-SNP CAPRIN2 65981 hgsc.bcm.edu hg19 12 30886574 30886574 + Missense_Mutation SNP A A G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . CAPRIN2 NM_023925 exon5 c.T881C p.V294A GTTCCTACCACTG . 219.0 13.0 200.0 0.0 . 109 . . . none . . PASS Atlas-SNP ARID2 196528 hgsc.bcm.edu hg19 12 46246367 46246367 + Silent SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ARID2 NM_152641 exon15 c.C4461A p.P1487P AGTTCCCGACTCA . 172.0 8.0 171.0 0.0 . 311 . . . none . . PASS Atlas-SNP KRT85 3891 hgsc.bcm.edu hg19 12 52761009 52761009 + Missense_Mutation SNP A A G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . KRT85 NM_002283 exon1 c.T181C p.S61P CGCAGGAGCCCAG . 58.0 11.0 79.0 0.0 . 78 . . . none . . PASS Atlas-SNP SYCP3 50511 hgsc.bcm.edu hg19 12 102127436 102127436 + Missense_Mutation SNP C C G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . SYCP3 NM_001177949 exon6 c.G370C p.E124Q AATATTCTTGGTT . 89.0 12.0 73.0 0.0 . 19 . . . none . . PASS Atlas-SNP USPL1 10208 hgsc.bcm.edu hg19 13 31233386 31233386 + Missense_Mutation SNP A A C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . USPL1 NM_005800 exon9 c.A3172C p.K1058Q CCGATGAAGACTG . 110.0 20.0 92.0 0.0 . 82 . . . none . . PASS Atlas-SNP ITM2B 9445 hgsc.bcm.edu hg19 13 48833064 48833064 + Silent SNP A A G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ITM2B NM_021999 exon5 c.A696G p.Q232Q ACTGCAACGCAGA . 83.0 13.0 54.0 0.0 . 24 . . . none . . PASS Atlas-SNP BTBD7 55727 hgsc.bcm.edu hg19 14 93708871 93708871 + Silent SNP G G T rs145129249 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . BTBD7 NM_001002860 exon11 c.C3147A p.T1049T TGGACCGGTACTA . 176.0 8.0 251.0 0.0 . 112 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP EDC4 23644 hgsc.bcm.edu hg19 16 67910484 67910484 + Silent SNP G G A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . EDC4 NM_014329 exon3 c.G333A p.K111K AAGCAAGGCCCGG . 78.0 15.0 71.0 0.0 . 101 . . . none . . PASS Atlas-SNP GAN 8139 hgsc.bcm.edu hg19 16 81388211 81388211 + Silent SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . GAN NM_022041 exon3 c.C484A p.R162R CATTTCCGAGACG . 192.0 8.0 165.0 0.0 . 59 . . . none . . PASS Atlas-SNP GLP2R 9340 hgsc.bcm.edu hg19 17 9764494 9764494 + Missense_Mutation SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . GLP2R NM_004246 exon8 c.C964A p.R322S TTCGCCCGTGCAC . 245.0 10.0 227.0 0.0 . 90 . . . none . . PASS Atlas-SNP BRCA1 672 hgsc.bcm.edu hg19 17 41244817 41244817 + Missense_Mutation SNP C C T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . BRCA1 NM_007300 exon10 c.G2731A p.G911R TCTTTCCTTGATT . 146.0 24.0 145.0 0.0 . 304 . . . none . . PASS Atlas-SNP ABCC3 8714 hgsc.bcm.edu hg19 17 48735832 48735832 + Missense_Mutation SNP C C A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db ABCC3_ENST00000427699,rectum,carcinoma,0,2 ABCC3 NM_003786 exon6 c.C649A p.R217S CTCTCCCGCCTGT . 282.0 13.0 223.0 2.0 . 138 . . . none . . PASS Atlas-SNP MSI2 124540 hgsc.bcm.edu hg19 17 55754379 55754379 + Missense_Mutation SNP G G A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . MSI2 NM_138962 exon13 c.G977A p.G326E CAAATGGATACCA . 252.0 80.0 173.0 0.0 . 52 . . . none . . PASS Atlas-SNP EXOC7 23265 hgsc.bcm.edu hg19 17 74081426 74081426 + Missense_Mutation SNP T T A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . EXOC7 NM_001145297 exon16 c.A1834T p.I612F GCTCAATGTGCTC . 40.0 14.0 30.0 0.0 . 47 . . . none . . PASS Atlas-SNP APCDD1 147495 hgsc.bcm.edu hg19 18 10487626 10487626 + Missense_Mutation SNP C C G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . APCDD1 NM_153000 exon5 c.C1136G p.A379G CCACAGCCTCACT . 95.0 15.0 135.0 0.0 . 57 . . . none . . PASS Atlas-SNP ST8SIA5 29906 hgsc.bcm.edu hg19 18 44284579 44284579 + Nonsense_Mutation SNP G G T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ST8SIA5 NM_013305 exon2 c.C180A p.C60X CTCCAGGCATCTT . 317.0 13.0 286.0 0.0 . 57 . . . none . . PASS Atlas-SNP VAV1 7409 hgsc.bcm.edu hg19 19 6833546 6833546 + Missense_Mutation SNP T T G novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . VAV1 NM_005428 exon17 c.T1618G p.F540V GGTACCTTCTATC . 203.0 25.0 167.0 0.0 . 140 . . . none . . PASS Atlas-SNP ZNF132 7691 hgsc.bcm.edu hg19 19 58945194 58945194 + Silent SNP T T A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . ZNF132 NM_003433 exon3 c.A1617T p.G539G CTTTTCTCCAGTG . 112.0 22.0 107.0 0.0 . 56 . . . none . . PASS Atlas-SNP SEC23B 10483 hgsc.bcm.edu hg19 20 18496315 18496315 + Missense_Mutation SNP A A T novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . SEC23B NM_032985 exon4 c.A301T p.I101L GGAGGCATATCTG . 102.0 14.0 103.0 0.0 . 70 . . . none . . PASS Atlas-SNP TRAF5 7188 hgsc.bcm.edu hg19 1 211545951 211545952 + Frame_Shift_Ins INS - - C novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . TRAF5 NM_145759 exon11 c.1581_1582insC p.H527fs . . 118.0 20.0 118.0 0.0 . 64 . 0.169492 0 none . . PASS Atlas-INDEL SP100 6672 hgsc.bcm.edu hg19 2 231338157 231338157 + Splice_Site DEL T T - novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . SP100 NM_003113 exon16 c.1546+1T>- . . . 135.0 23.0 126.0 0.0 . 167 . 0.17037 0 none . . PASS Atlas-INDEL TEKT1 83659 hgsc.bcm.edu hg19 17 6718552 6718553 + Frame_Shift_Ins INS - - A novel TCGA-G7-6796-01A-11D-1961-08 TCGA-G7-6796-10A-01D-1962-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d747a9f3-e148-4273-883e-8b64db6779a2 82db6745-95f5-4b86-acd4-8aeb5ec873db . TEKT1 NM_053285 exon5 c.559_560insT p.I187fs . . 263.0 37.0 209.0 0.0 . 49 . 0.140684 0 none . . PASS Atlas-INDEL