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 ARHGEF19 128272 hgsc.bcm.edu hg19 1 16532449 16532449 + Silent SNP C C T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ARHGEF19 NM_153213 exon8 c.G1428A p.Q476Q GCGCTCCTGGTAG . 98.0 23.0 80.0 0.0 . 49 . . . none . . PASS Atlas-SNP SFPQ 6421 hgsc.bcm.edu hg19 1 35657046 35657046 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . SFPQ NM_005066 exon2 c.C913T p.P305S CAGCAGGTAGATT . 134.0 31.0 126.0 0.0 . 51 . . . none . . PASS Atlas-SNP KIF14 9928 hgsc.bcm.edu hg19 1 200587031 200587031 + Missense_Mutation SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . KIF14 NM_014875 exon2 c.A821G p.E274G CTTTTTTCTAAGC . 96.0 32.0 79.0 0.0 . 156 . . . none . . PASS Atlas-SNP ADCY3 109 hgsc.bcm.edu hg19 2 25062898 25062898 + Missense_Mutation SNP T T A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ADCY3 NM_004036 exon6 c.A1199T p.Y400F CGCACATACCTGC . 85.0 23.0 66.0 0.0 . 114 . . . none . . PASS Atlas-SNP STON1-GTF2A1L 286749 hgsc.bcm.edu hg19 2 48896944 48896944 + Silent SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . STON1-GTF2A1L NM_001198593 exon9 c.T3174C p.D1058D CGGTGATACATCT . 199.0 36.0 203.0 0.0 . 180 . . . none . . PASS Atlas-SNP ALMS1 7840 hgsc.bcm.edu hg19 2 73613036 73613036 + Missense_Mutation SNP G G C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ALMS1 NM_015120 exon1 c.G40C p.E14Q CTGGAGGAGGAGG . 255.0 13.0 177.0 0.0 . 384 . . . none . . PASS Atlas-SNP CNTNAP5 129684 hgsc.bcm.edu hg19 2 125367417 125367417 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CNTNAP5 NM_130773 exon12 c.G1793A p.G598E ACCAGGGGAATAC . 71.0 17.0 68.0 0.0 . 405 . . . none . . PASS Atlas-SNP NGEF 25791 hgsc.bcm.edu hg19 2 233785268 233785268 + Missense_Mutation SNP T T A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . NGEF NM_019850 exon5 c.A554T p.K185I GTCGATTTATCTC . 56.0 9.0 55.0 0.0 . 198 . . . none . . PASS Atlas-SNP ZNF385D 79750 hgsc.bcm.edu hg19 3 21465455 21465455 + Silent SNP C C A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ZNF385D NM_024697 exon7 c.G954T p.G318G ACTCACCCCCAGT . 141.0 30.0 122.0 0.0 . 93 . . . none . . PASS Atlas-SNP ZNF197 10168 hgsc.bcm.edu hg19 3 44671000 44671000 + Silent SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ZNF197 NM_001024855 exon2 c.G354A p.E118E GGTAGAGGAGCTG . 255.0 55.0 181.0 0.0 . 81 . . . none . . PASS Atlas-SNP TWF2 11344 hgsc.bcm.edu hg19 3 52266117 52266117 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . TWF2 NM_007284 exon3 c.C125T p.S42L TCCTGCGAGGCAC . 96.0 6.0 85.0 0.0 . 33 . . . none . . PASS Atlas-SNP PRR23B 389151 hgsc.bcm.edu hg19 3 138739039 138739039 + Nonsense_Mutation SNP G G C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PRR23B NM_001013650 exon1 c.C465G p.Y155X CTCCTCGTAGGCC . 175.0 39.0 153.0 0.0 . 56 . . . none . . PASS Atlas-SNP FAM193A 8603 hgsc.bcm.edu hg19 4 2696771 2696771 + Missense_Mutation SNP A A G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . FAM193A NM_001256667 exon16 c.A2384G p.H795R CTGAGCACAGCTC . 76.0 15.0 78.0 0.0 . 103 . . . none . . PASS Atlas-SNP FAM47E 100129583 hgsc.bcm.edu hg19 4 77204610 77204610 + Missense_Mutation SNP A A G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . FAM47E NM_001136570 exon8 c.A1181G p.X394W AAGCATAGAAGAA . 98.0 25.0 76.0 0.0 . 20 . . . none . . PASS Atlas-SNP PAPSS1 9061 hgsc.bcm.edu hg19 4 108615096 108615096 + Missense_Mutation SNP A A C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PAPSS1 NM_005443 exon3 c.T242G p.I81S CATGGAATACCAT . 64.0 13.0 55.0 0.0 . 57 . . . none . . PASS Atlas-SNP KIAA1109 84162 hgsc.bcm.edu hg19 4 123207818 123207818 + Missense_Mutation SNP A A G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . KIAA1109 NM_015312 exon51 c.A9160G p.M3054V GTTACCATGTCAG . 256.0 58.0 233.0 0.0 . 424 . . . none . . PASS Atlas-SNP FAT4 79633 hgsc.bcm.edu hg19 4 126411503 126411503 + Missense_Mutation SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . FAT4 NM_024582 exon17 c.T13526C p.V4509A CCATCGTGGGCAG . 75.0 19.0 54.0 0.0 . 1752 . . . none . . PASS Atlas-SNP TDO2 6999 hgsc.bcm.edu hg19 4 156831319 156831319 + Missense_Mutation SNP C C G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . TDO2 NM_005651 exon6 c.C574G p.L192V GAACTGCTACTTA . 114.0 23.0 127.0 0.0 . 51 . . . none . . PASS Atlas-SNP PRKAA1 5562 hgsc.bcm.edu hg19 5 40764924 40764924 + Missense_Mutation SNP C C A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 PRKAA1,NS,carcinoma,0,2 PRKAA1 NM_206907 exon8 c.G1283T p.S428I CTTTGACTTCTAA . 124.0 28.0 116.0 0.0 . 27 . . . none . . PASS Atlas-SNP TTC37 9652 hgsc.bcm.edu hg19 5 94814018 94814018 + Silent SNP T T A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . TTC37 NM_014639 exon40 c.A4341T p.A1447A AAGTAGTGCTAGT . 146.0 32.0 156.0 0.0 . 128 . . . none . . PASS Atlas-SNP SPATA9 83890 hgsc.bcm.edu hg19 5 94994606 94994606 + Silent SNP A A T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . SPATA9 NM_031952 exon5 c.T486A p.V162V AGCATTAACACAG . 108.0 21.0 78.0 0.0 . 17 . . . none . . PASS Atlas-SNP GABRG2 2566 hgsc.bcm.edu hg19 5 161495091 161495091 + Missense_Mutation SNP T T A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . GABRG2 NM_198904 exon1 c.T86A p.L29H TTCTGCTCCTGCT . 95.0 29.0 74.0 0.0 . 142 . . . none . . PASS Atlas-SNP RCAN2 10231 hgsc.bcm.edu hg19 6 46424516 46424516 + Missense_Mutation SNP C C A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . RCAN2 NM_001251973 exon2 c.G198T p.Q66H CACTGACTGGTGA . 92.0 15.0 119.0 0.0 . 39 . . . none . . PASS Atlas-SNP PHIP 55023 hgsc.bcm.edu hg19 6 79655729 79655729 + Missense_Mutation SNP G G C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PHIP NM_017934 exon38 c.C4619G p.P1540R TTCCCTGGTATTG . 97.0 21.0 82.0 0.0 . 177 . . . none . . PASS Atlas-SNP PRDM13 59336 hgsc.bcm.edu hg19 6 100062606 100062606 + Missense_Mutation SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PRDM13 NM_021620 exon4 c.G2095T p.V699F CCCGAGGTTGGGG . 141.0 33.0 173.0 0.0 . 65 . . . none . . PASS Atlas-SNP EIF3B 8662 hgsc.bcm.edu hg19 7 2415106 2415106 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . EIF3B NM_001037283 exon14 c.G1972A p.E658K GACGTCGAATGGG . 125.0 35.0 107.0 0.0 . 54 . . . none . . PASS Atlas-SNP DYNC1I1 1780 hgsc.bcm.edu hg19 7 95439731 95439731 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 DYNC1I1,NS,carcinoma,0,1 DYNC1I1 NM_004411 exon3 c.G136A p.V46I GAACCCGTTCAGG . 112.0 37.0 105.0 0.0 . 111 . . . none . . PASS Atlas-SNP NOBOX 135935 hgsc.bcm.edu hg19 7 144096177 144096177 + Silent SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . NOBOX NM_001080413 exon8 c.C1335T p.P445P AGGTGGGGGGCTG . 99.0 23.0 75.0 0.0 . 130 . . . none . . PASS Atlas-SNP TCEB1 6921 hgsc.bcm.edu hg19 8 74858968 74858968 + Missense_Mutation SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 TCEB1,NS,carcinoma,0,5 TCEB1 NM_005648 exon4 c.A236G p.Y79C ACCTTGTACGTAA . 193.0 58.0 223.0 2.0 . 16 . . . none . . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu hg19 8 110439255 110439255 + Missense_Mutation SNP C C T rs35375999 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PKHD1L1 NM_177531 exon25 c.C2870T p.A957V CAGCTGCAGATCT . 71.0 9.0 83.0 0.0 . 522 . . . alt C|0.985;A|0.015 . PASS Atlas-SNP AKR1C1 1645 hgsc.bcm.edu hg19 10 5008141 5008141 + Missense_Mutation SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . AKR1C1 NM_001353 exon2 c.G120T p.L40F CAAATTGGCAATT . 184.0 20.0 155.0 0.0 . 39 . . . none . . PASS Atlas-SNP UPF2 26019 hgsc.bcm.edu hg19 10 11985132 11985132 + Silent SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . UPF2 NM_080599 exon17 c.A3210G p.E1070E CTCCTCTTCTTCT . 75.0 19.0 43.0 0.0 . 111 . . . none . . PASS Atlas-SNP SLC16A9 220963 hgsc.bcm.edu hg19 10 61413535 61413535 + Missense_Mutation SNP A A G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . SLC16A9 NM_194298 exon5 c.T1249C p.Y417H TCACATATGGAAA . 109.0 22.0 90.0 0.0 . 58 . . . none . . PASS Atlas-SNP WDR11 55717 hgsc.bcm.edu hg19 10 122650370 122650370 + Missense_Mutation SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . WDR11 NM_018117 exon19 c.G2486T p.C829F CTGCGTGCTTTAG . 127.0 26.0 108.0 0.0 . 95 . . . none . . PASS Atlas-SNP OR51E2 81285 hgsc.bcm.edu hg19 11 4703537 4703537 + Silent SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . OR51E2 NM_030774 exon2 c.C405A p.L135L ATTGTTGAGCACT . 95.0 25.0 77.0 0.0 . 77 . . . none . . PASS Atlas-SNP CKAP5 9793 hgsc.bcm.edu hg19 11 46799725 46799725 + Silent SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CKAP5 NM_001008938 exon22 c.C2712A p.A904A CTTCAAGGCAGTT . 92.0 20.0 105.0 0.0 . 134 . . . none . . PASS Atlas-SNP RPS6KB2 6199 hgsc.bcm.edu hg19 11 67201948 67201948 + Missense_Mutation SNP C C G rs369245928 alternate_allele TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . RPS6KB2 NM_003952 exon13 c.C1148G p.A383G ACCAGGCCTTCCT . 47.0 4.0 42.0 0.0 . 92 . . . alt . . PASS Atlas-SNP CARD17 440068 hgsc.bcm.edu hg19 11 104971430 104971430 + Missense_Mutation SNP T T A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CARD17 NM_001007232 exon2 c.A84T p.E28D CAATAATTCACCC . 125.0 36.0 95.0 0.0 . 15 . . . none . . PASS Atlas-SNP ARF3 377 hgsc.bcm.edu hg19 12 49332835 49332835 + Silent SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ARF3 NM_001659 exon5 c.C441T p.S147S ACGAAGGGAATGC . 116.0 28.0 98.0 0.0 . 11 . . . none . . PASS Atlas-SNP VTI1B 10490 hgsc.bcm.edu hg19 14 68126460 68126460 + Missense_Mutation SNP C C A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . VTI1B NM_006370 exon3 c.G354T p.E118D CTCATTCTCTACA . 51.0 19.0 36.0 0.0 . 15 . . . none . . PASS Atlas-SNP ECI1 1632 hgsc.bcm.edu hg19 16 2301546 2301546 + Silent SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ECI1 NM_001178029 exon1 c.C22A p.R8R GGACTCGCACAGA . 108.0 22.0 97.0 0.0 . 20 . . . none . . PASS Atlas-SNP PPL 5493 hgsc.bcm.edu hg19 16 4935927 4935927 + Missense_Mutation SNP T T G novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PPL NM_002705 exon22 c.A2729C p.E910A TCGTTCTCCAGCT . 38.0 9.0 28.0 0.0 . 168 . . . none . . PASS Atlas-SNP CACNG3 10368 hgsc.bcm.edu hg19 16 24372986 24372986 + Silent SNP C C T rs148951012 TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CACNG3 NM_006539 exon4 c.C750T p.I250I CCCCATCAGCAAA . 121.0 23.0 125.0 0.0 . 112 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu hg19 16 88501018 88501018 + Silent SNP A A T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . ZNF469 NM_001127464 exon2 c.A7056T p.P2352P GGACCCAGGGACC . 186.0 47.0 143.0 0.0 . 121 . . . none . . PASS Atlas-SNP HES7 84667 hgsc.bcm.edu hg19 17 8024974 8024974 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . . NM_001165967 exon4 c.C608T p.P203L GGCGGCGGCAGCA . 386.0 89.0 361.0 0.0 . . . . . none . . PASS Atlas-SNP MYH3 4621 hgsc.bcm.edu hg19 17 10538254 10538254 + Missense_Mutation SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . MYH3 NM_002470 exon31 c.A4259G p.Q1420R AGCCTCTGCTTGG . 105.0 34.0 97.0 0.0 . 227 . . . none . . PASS Atlas-SNP RAI1 10743 hgsc.bcm.edu hg19 17 17701402 17701402 + Nonsense_Mutation SNP A A T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . RAI1 NM_030665 exon3 c.A5140T p.K1714X CTCCCCAAAAAGA . 165.0 36.0 146.0 0.0 . 121 . . . none . . PASS Atlas-SNP CDK5RAP3 80279 hgsc.bcm.edu hg19 17 46048728 46048728 + Missense_Mutation SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CDK5RAP3 NM_176096 exon2 c.G7T p.D3Y CGCCAGGACCATC . 141.0 39.0 114.0 0.0 . 38 . . . none . . PASS Atlas-SNP CD7 924 hgsc.bcm.edu hg19 17 80274160 80274160 + Missense_Mutation SNP C C T rs200504177 TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . CD7 NM_006137 exon3 c.G523A p.A175T AGGCTGCTGGCGG . 83.0 25.0 42.0 0.0 . 25 . . . weak . . PASS Atlas-SNP CD7 924 hgsc.bcm.edu hg19 17 80274162 80274162 + Missense_Mutation SNP G G T rs201027731 TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 .,1 CD7 NM_006137 exon3 c.C521A p.P174Q GCTGCTGGCGGGT . 81.0 9.0 46.0 0.0 . 25 . . . weak . . PASS Atlas-SNP CD7 924 hgsc.bcm.edu hg19 17 80274183 80274183 + Missense_Mutation SNP G G C rs199986856 by1000genomes;alternate_allele TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 CD7,rectum,carcinoma,0,2 CD7 NM_006137 exon3 c.C500G p.A167G GCAGAGGCTGTCT . 90.0 9.0 87.0 0.0 . 25 . . . alt G|0.999;A|0.001 . PASS Atlas-SNP MAP2K7 5609 hgsc.bcm.edu hg19 19 7975205 7975205 + Missense_Mutation SNP G G T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 MAP2K7,NS,carcinoma,0,1 MAP2K7 NM_145185 exon4 c.G394T p.G132C ACCTGCGGCCAGG . 153.0 40.0 134.0 0.0 . 66 . . . none . . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu hg19 19 9045908 9045908 + Missense_Mutation SNP G G C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . MUC16 NM_024690 exon5 c.C35723G p.T11908R TCAGTTGTTATAG . 121.0 31.0 90.0 0.0 . 4315 . . . none . . PASS Atlas-SNP PRKCG 5582 hgsc.bcm.edu hg19 19 54385763 54385763 + Silent SNP C C T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . PRKCG NM_002739 exon1 c.C15T p.G5G TCTGGGCCCCGGC . 124.0 27.0 109.0 0.0 . 246 . . . none . . PASS Atlas-SNP TMC2 117532 hgsc.bcm.edu hg19 20 2618194 2618194 + Missense_Mutation SNP A A C rs186977735 bycluster;by1000genomes;alternate_allele TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . TMC2 NM_080751 exon19 c.A2460C p.K820N ACCTAAAAGCAGC . 83.0 11.0 105.0 0.0 . 121 . . . alt A|1.000;G|0.000 . PASS Atlas-SNP SUPT20HL1 100130302 hgsc.bcm.edu hg19 X 24382426 24382426 + Missense_Mutation SNP G G C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . . NM_001136234 exon1 c.G1549C p.A517P GCTGCTGCTCCTG . 86.0 11.0 80.0 0.0 . . . . . none . . PASS Atlas-SNP COX2 5743 hgsc.bcm.edu hg19 MT 7814 7814 + Missense_Mutation SNP G G A novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . . ENST00000361739 exon1 c.G229A p.A77T CTCATCGCCCTCC . 21.0 4.0 20.0 0.0 . . . . . none . . PASS Atlas-SNP ND6 0 hgsc.bcm.edu hg19 MT 14261 14261 + Missense_Mutation SNP T T C novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . . ENST00000361681 exon1 c.A413G p.D138G ATAGGATCCTCCC . 32.0 15.0 22.0 0.0 . . . . . none . . PASS Atlas-SNP CD7 924 hgsc.bcm.edu hg19 17 80274159 80274160 + Frame_Shift_Ins INS - - T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 .,1 CD7 NM_006137 exon3 c.524_525insA p.A175fs . . 85.0 16.0 59.0 0.0 . 25 . 0.188235 0 none . . PASS Atlas-INDEL MARCH8 220972 hgsc.bcm.edu hg19 10 45953921 45953921 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . MARCH8 NM_001002266 exon7 c.643delA p.M215fs . . 85.0 19.0 95.0 0.0 . 29 . 0.223529 0 none . . PASS Atlas-Indel,Pindel BOD1L1 259282 hgsc.bcm.edu hg19 4 13605661 13605662 + Frame_Shift_Ins INS - - T novel TCGA-5P-A9JV-01A-12D-A42J-10 TCGA-5P-A9JV-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 16f56910-a925-41a1-8bbc-d8554292616a d2370805-678e-421c-83ac-49a5cec3cf51 . . NM_148894 exon10 c.2863_2864insA p.Q955fs . . 101.0 24.0 100.0 0.0 . . . 0.237624 0 none . . PASS Atlas-Indel,Pindel