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 TESK2 10420 hgsc.bcm.edu hg19 1 45811638 45811638 + Missense_Mutation SNP A A C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . TESK2 NM_007170 exon10 c.T908G p.V303G ATCTCCACAAAAG . 65.0 15.0 73.0 0.0 . 60 . . . none . . PASS Atlas-SNP AMPD2 271 hgsc.bcm.edu hg19 1 110168296 110168296 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd AMPD2_ENST00000393689,NS,carcinoma,0,1 AMPD2 NM_004037 exon3 c.C397T p.R133C TTCACCCGCTCAC . 118.0 7.0 151.0 0.0 . 75 . . . none . . PASS Atlas-SNP ITGA10 8515 hgsc.bcm.edu hg19 1 145536864 145536864 + Missense_Mutation SNP T T G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ITGA10 NM_003637 exon18 c.T2244G p.D748E ATCAGATTACCTC . 86.0 24.0 78.0 0.0 . 131 . . . none . . PASS Atlas-SNP TOR1AIP2 163590 hgsc.bcm.edu hg19 1 179834169 179834169 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . TOR1AIP2 NM_022347 exon3 c.A143G p.Y48C GGACAATAATCAG . 356.0 108.0 391.0 0.0 . 38 . . . none . . PASS Atlas-SNP MR1 3140 hgsc.bcm.edu hg19 1 181021439 181021439 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MR1 NM_001531 exon5 c.C673T p.H225Y AAAGCTCATGGCT . 87.0 23.0 114.0 0.0 . 46 . . . none . . PASS Atlas-SNP PRKD3 23683 hgsc.bcm.edu hg19 2 37501808 37501808 + Silent SNP A A T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PRKD3 NM_005813 exon10 c.T1407A p.S469S TGGTGAAGATATG . 93.0 26.0 101.0 0.0 . 170 . . . none . . PASS Atlas-SNP ADD2 119 hgsc.bcm.edu hg19 2 70931469 70931469 + Silent SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ADD2 NM_001185055 exon3 c.C354T p.F118F TGTCGGGAAGACT . 50.0 12.0 55.0 0.0 . 261 . . . none . . PASS Atlas-SNP CNNM4 26504 hgsc.bcm.edu hg19 2 97428100 97428100 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . CNNM4 NM_020184 exon1 c.A1364G p.D455G TCCATGACACCAA . 161.0 48.0 188.0 0.0 . 48 . . . none . . PASS Atlas-SNP MRPS9 64965 hgsc.bcm.edu hg19 2 105654555 105654555 + Missense_Mutation SNP C C T rs149402894 bycluster TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MRPS9 NM_182640 exon1 c.C5T p.A2V ACATGGCGGCGCC . 105.0 30.0 122.0 0.0 . 32 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP SAP130 79595 hgsc.bcm.edu hg19 2 128774008 128774008 + Silent SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SAP130 NM_001145928 exon4 c.C540A p.I180I TTGAGGGATGCTA . 132.0 32.0 146.0 0.0 . 169 . . . none . . PASS Atlas-SNP MST1 4485 hgsc.bcm.edu hg19 3 49723551 49723551 + Missense_Mutation SNP A A G rs199957562 TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd MST1,cerebellum,glioma,0,4 MST1 NM_020998 exon9 c.T1091C p.M364T GCGCGCATGCCGG . 67.0 4.0 91.0 0.0 . 84 . . . weak . . PASS Atlas-SNP SKIL 6498 hgsc.bcm.edu hg19 3 170079027 170079027 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SKIL NM_001248008 exon1 c.T908C p.F303S AGACGTTTGTGAT . 113.0 35.0 105.0 0.0 . 67 . . . none . . PASS Atlas-SNP FAM131A 131408 hgsc.bcm.edu hg19 3 184062561 184062561 + Missense_Mutation SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . FAM131A NM_144635 exon6 c.C904G p.Q302E GAGGCCCAGGACT . 74.0 19.0 71.0 0.0 . 37 . . . none . . PASS Atlas-SNP HGFAC 3083 hgsc.bcm.edu hg19 4 3446365 3446365 + Missense_Mutation SNP C C A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . HGFAC NM_001528 exon7 c.C746A p.P249H GCAGCCCTTGCCT . 61.0 11.0 85.0 0.0 . 69 . . . none . . PASS Atlas-SNP LRRC66 339977 hgsc.bcm.edu hg19 4 52861855 52861855 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . LRRC66 NM_001024611 exon4 c.G1333A p.V445I GAAATACTTGGCG . 55.0 15.0 64.0 0.0 . 128 . . . none . . PASS Atlas-SNP WDFY3 23001 hgsc.bcm.edu hg19 4 85642588 85642588 + Missense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd WDFY3,NS,carcinoma,0,1 WDFY3 NM_014991 exon47 c.C7579A p.L2527M GGCGCAGTAAGGT . 32.0 7.0 47.0 0.0 . 314 . . . none . . PASS Atlas-SNP SLC38A9 153129 hgsc.bcm.edu hg19 5 54965109 54965109 + Missense_Mutation SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SLC38A9 NM_173514 exon7 c.G473C p.G158A AAAAGGCCCATCA . 113.0 32.0 131.0 0.0 . 50 . . . none . . PASS Atlas-SNP RASA1 5921 hgsc.bcm.edu hg19 5 86665669 86665669 + Silent SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . RASA1 NM_002890 exon12 c.A1650G p.E550E TAGTGAAGAACAT . 472.0 155.0 462.0 0.0 . 213 . . . none . . PASS Atlas-SNP SEMA6A 57556 hgsc.bcm.edu hg19 5 115782689 115782689 + Missense_Mutation SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SEMA6A NM_020796 exon19 c.G2713C p.E905Q GCATTTCCAGCCG . 72.0 26.0 72.0 0.0 . 93 . . . none . . PASS Atlas-SNP DMXL1 1657 hgsc.bcm.edu hg19 5 118480323 118480323 + Silent SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . DMXL1 NM_005509 exon15 c.A2559G p.L853L CATTTTATCTAAT . 328.0 108.0 283.0 0.0 . 268 . . . none . . PASS Atlas-SNP PDE6A 5145 hgsc.bcm.edu hg19 5 149279060 149279060 + Missense_Mutation SNP T T G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PDE6A NM_000440 exon9 c.A1141C p.M381L TAATCATCCATCC . 116.0 40.0 85.0 0.0 . 98 . . . none . . PASS Atlas-SNP RREB1 6239 hgsc.bcm.edu hg19 6 7189549 7189549 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . RREB1 NM_001003700 exon6 c.T419C p.M140T GGAACATGCACAG . 58.0 17.0 48.0 0.0 . 242 . . . none . . PASS Atlas-SNP ZBTB22 9278 hgsc.bcm.edu hg19 6 33283498 33283498 + Nonsense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ZBTB22 NM_001145338 exon2 c.C1196A p.S399X CCCCCTGAGTCAT . 66.0 22.0 64.0 0.0 . 48 . . . none . . PASS Atlas-SNP KIFC1 3833 hgsc.bcm.edu hg19 6 33371727 33371727 + Missense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KIFC1 NM_002263 exon6 c.G577T p.A193S CATTTAGCCAAGG . 107.0 5.0 147.0 0.0 . 47 . . . none . . PASS Atlas-SNP UTRN 7402 hgsc.bcm.edu hg19 6 144843189 144843189 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . UTRN NM_007124 exon39 c.A5615G p.Y1872C CAGATTATCTGGT . 77.0 23.0 99.0 0.0 . 327 . . . none . . PASS Atlas-SNP BRAT1 221927 hgsc.bcm.edu hg19 7 2581812 2581812 + Silent SNP G G C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . BRAT1 NM_152743 exon7 c.C957G p.V319V GAGAAGGACCTGG . 268.0 132.0 223.0 0.0 . 57 . . . none . . PASS Atlas-SNP YAE1D1 57002 hgsc.bcm.edu hg19 7 39610143 39610143 + Silent SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . YAE1D1 NM_020192 exon2 c.T168C p.V56V AGCAGTTACTCTT . 140.0 64.0 146.0 0.0 . 2 . . . none . . PASS Atlas-SNP MBLAC1 255374 hgsc.bcm.edu hg19 7 99725518 99725518 + Missense_Mutation SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MBLAC1 NM_203397 exon2 c.C500G p.P167R CCACGCCGGGCCA . 89.0 44.0 97.0 0.0 . 13 . . . none . . PASS Atlas-SNP REPIN1 29803 hgsc.bcm.edu hg19 7 150068585 150068585 + Silent SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . REPIN1 NM_001099695 exon3 c.G426A p.L142L GCCCTTGCCCTGC . 60.0 33.0 54.0 0.0 . 74 . . . none . . PASS Atlas-SNP INTS9 55756 hgsc.bcm.edu hg19 8 28669861 28669861 + Missense_Mutation SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . INTS9 NM_018250 exon8 c.C727T p.L243F TGGTAAGCAAGGA . 100.0 32.0 108.0 0.0 . 43 . . . none . . PASS Atlas-SNP VCPIP1 80124 hgsc.bcm.edu hg19 8 67546979 67546979 + Silent SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . VCPIP1 NM_025054 exon3 c.A3426G p.E1142E CACAACTTCTGTT . 111.0 36.0 82.0 0.0 . 110 . . . none . . PASS Atlas-SNP ZFAND5 7763 hgsc.bcm.edu hg19 9 74975669 74975669 + Missense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ZFAND5 NM_001102421 exon2 c.C26A p.P9Q GGCCCCGGGGTCT . 65.0 14.0 95.0 0.0 . 14 . . . none . . PASS Atlas-SNP PCSK5 5125 hgsc.bcm.edu hg19 9 78936460 78936460 + Missense_Mutation SNP A A C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PCSK5 NM_001190482 exon30 c.A3926C p.Q1309P TGTGCCAGGAAAA . 79.0 33.0 63.0 0.0 . 329 . . . none . . PASS Atlas-SNP SVIL 6840 hgsc.bcm.edu hg19 10 29760115 29760115 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd .,1 SVIL NM_021738 exon31 c.A5587G p.M1863V CCACCATCCCCCC . 150.0 42.0 198.0 2.0 . 226 . . . none . . PASS Atlas-SNP ABCC2 1244 hgsc.bcm.edu hg19 10 101595920 101595920 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ABCC2 NM_000392 exon25 c.T3487C p.F1163L TCTCACTTCAGCG . 179.0 58.0 198.0 0.0 . 160 . . . none . . PASS Atlas-SNP POLL 27343 hgsc.bcm.edu hg19 10 103343263 103343263 + Splice_Site SNP A A C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . POLL NM_001174085 exon7 c.789+2T>G . GGTGTGACCTGTT . 50.0 12.0 54.0 0.0 . 43 . . . none . . PASS Atlas-SNP PPP6R3 55291 hgsc.bcm.edu hg19 11 68305152 68305152 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PPP6R3 NM_001164162 exon3 c.T20C p.L7P TTGATCTTCACTC . 236.0 60.0 207.0 0.0 . 159 . . . none . . PASS Atlas-SNP DDX25 29118 hgsc.bcm.edu hg19 11 125787115 125787115 + Missense_Mutation SNP T T A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . DDX25 NM_013264 exon9 c.T1007A p.I336N GCAGCATCACCAT . 58.0 14.0 46.0 0.0 . 65 . . . none . . PASS Atlas-SNP SLC6A13 6540 hgsc.bcm.edu hg19 12 369149 369149 + Missense_Mutation SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SLC6A13 NM_016615 exon2 c.A70G p.K24E CCTCCTTCTTTTC . 153.0 79.0 94.0 0.0 . 62 . . . none . . PASS Atlas-SNP LTBR 4055 hgsc.bcm.edu hg19 12 6494235 6494235 + Missense_Mutation SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . LTBR NM_002342 exon3 c.G241A p.A81T GTTTGTGCCACAT . 80.0 18.0 64.0 0.0 . 30 . . . none . . PASS Atlas-SNP PEX5 5830 hgsc.bcm.edu hg19 12 7351609 7351609 + Missense_Mutation SNP C C A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PEX5 NM_001131023 exon6 c.C496A p.P166T GCAGACCCCTTGT . 83.0 38.0 62.0 0.0 . 63 . . . none . . PASS Atlas-SNP SUOX 6821 hgsc.bcm.edu hg19 12 56397604 56397604 + Missense_Mutation SNP A A T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SUOX NM_000456 exon6 c.A431T p.N144I TTCACAACCAGTC . 180.0 74.0 161.0 0.0 . 33 . . . none . . PASS Atlas-SNP RAB21 23011 hgsc.bcm.edu hg19 12 72167772 72167772 + Silent SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . RAB21 NM_014999 exon4 c.T361C p.L121L AAAATGTTGGGAA . 147.0 75.0 132.0 0.0 . 17 . . . none . . PASS Atlas-SNP NAP1L1 4673 hgsc.bcm.edu hg19 12 76462722 76462722 + Nonsense_Mutation SNP C C A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . NAP1L1 NM_004537 exon3 c.G70T p.E24X CCTCTTCTTCTAC . 93.0 42.0 80.0 0.0 . 33 . . . none . . PASS Atlas-SNP MED13L 23389 hgsc.bcm.edu hg19 12 116453057 116453057 + Silent SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MED13L NM_015335 exon8 c.T1032C p.S344S GGCAGCACTCTGC . 153.0 68.0 106.0 0.0 . 193 . . . none . . PASS Atlas-SNP PXN 5829 hgsc.bcm.edu hg19 12 120660781 120660781 + Silent SNP T T G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PXN NM_001080855 exon4 c.A378C p.S126S CTCAGCTGATTTC . 163.0 43.0 125.0 0.0 . 69 . . . none . . PASS Atlas-SNP LTK 4058 hgsc.bcm.edu hg19 15 41804906 41804906 + Silent SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd LTK_ENST00000263800,NS,carcinoma,0,2 LTK NM_001135685 exon3 c.C358T p.L120L CTTACAGATACTG . 44.0 14.0 62.0 0.0 . 117 . . . none . . PASS Atlas-SNP ZNF598 90850 hgsc.bcm.edu hg19 16 2053710 2053710 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ZNF598 NM_178167 exon4 c.T242C p.L81P GCAGGAAGCTTCT . 90.0 28.0 119.0 0.0 . 55 . . . none . . PASS Atlas-SNP NAGPA 51172 hgsc.bcm.edu hg19 16 5075564 5075564 + Missense_Mutation SNP T T A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . NAGPA NM_016256 exon10 c.A1463T p.Y488F GGGTGGTATGCAT . 122.0 56.0 99.0 0.0 . 30 . . . none . . PASS Atlas-SNP ATP2A1 487 hgsc.bcm.edu hg19 16 28914368 28914368 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ATP2A1 NM_004320 exon20 c.C2762T p.S921F ACCAGTCCCTGCT . 59.0 17.0 35.0 0.0 . 116 . . . none . . PASS Atlas-SNP OR1E2 8388 hgsc.bcm.edu hg19 17 3336754 3336754 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . OR1E2 NM_003554 exon1 c.T382C p.F128L TGGGGAAGCAGAT . 195.0 86.0 149.0 0.0 . 25 . . . none . . PASS Atlas-SNP CTNS 1497 hgsc.bcm.edu hg19 17 3563642 3563642 + Silent SNP G G A rs371189196 TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd CTNS,NS,carcinoma,+1,1 CTNS NM_001031681 exon12 c.G1083A p.P361P GAGACCGGGGTAT . 90.0 51.0 90.0 0.0 . 42 . . . weak . . PASS Atlas-SNP KCTD11 147040 hgsc.bcm.edu hg19 17 7256855 7256855 + Missense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KCTD11 NM_001002914 exon1 c.G594T p.E198D CCTGGAGGAGGTG . 43.0 10.0 38.0 0.0 . 17 . . . none . . PASS Atlas-SNP NF1 4763 hgsc.bcm.edu hg19 17 29687644 29687644 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . NF1 NM_001042492 exon57 c.A8300G p.Q2767R CACTGCAGAGCCA . 133.0 74.0 89.0 0.0 . 1586 . . . none . . PASS Atlas-SNP ABCA10 10349 hgsc.bcm.edu hg19 17 67146187 67146187 + Missense_Mutation SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ABCA10 NM_080282 exon38 c.C4415T p.A1472V TTATACGCCATTA . 163.0 34.0 127.0 0.0 . 209 . . . none . . PASS Atlas-SNP METTL23 124512 hgsc.bcm.edu hg19 17 74729620 74729620 + Missense_Mutation SNP A A C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . METTL23 NM_001206984 exon5 c.A425C p.E142A CACTTGAAGCTTT . 192.0 87.0 179.0 0.0 . 19 . . . none . . PASS Atlas-SNP ZNF750 79755 hgsc.bcm.edu hg19 17 80789569 80789569 + Silent SNP G G C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ZNF750 NM_024702 exon2 c.C762G p.T254T GTAGATGGTGGCC . 113.0 33.0 88.0 0.0 . 60 . . . none . . PASS Atlas-SNP MYOM1 8736 hgsc.bcm.edu hg19 18 3067525 3067525 + Missense_Mutation SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MYOM1 NM_003803 exon38 c.G4793C p.G1598A GGGTCTCCCCACA . 88.0 26.0 61.0 0.0 . 192 . . . none . . PASS Atlas-SNP ASXL3 80816 hgsc.bcm.edu hg19 18 31325189 31325189 + Missense_Mutation SNP G G C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ASXL3 NM_030632 exon12 c.G5377C p.E1793Q GCACCAGAGAGAA . 99.0 34.0 85.0 0.0 . 405 . . . none . . PASS Atlas-SNP CTDP1 9150 hgsc.bcm.edu hg19 18 77440069 77440069 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . CTDP1 NM_004715 exon1 c.C122T p.A41V CGGGCGCGGCCGT . 26.0 12.0 35.0 0.0 . 67 . . . none . . PASS Atlas-SNP ABCA7 10347 hgsc.bcm.edu hg19 19 1051189 1051189 + Missense_Mutation SNP G G T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ABCA7 NM_019112 exon20 c.G2720T p.R907L ATGGGCGGCTGAA . 48.0 11.0 59.0 0.0 . 174 . . . none . . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu hg19 19 8130912 8130912 + Missense_Mutation SNP C C T rs139098536 TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd FBN3,NS,carcinoma,0,1 FBN3 NM_032447 exon63 c.G8321A p.R2774Q TCCAGCCGGTAGG . 104.0 38.0 123.0 1.0 . 300 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP CAPNS1 826 hgsc.bcm.edu hg19 19 36631958 36631958 + Silent SNP C C G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . CAPNS1 NM_001749 exon2 c.C45G p.G15G CGGCGGCGGGGGA . 65.0 4.0 84.0 0.0 . 19 . . . none . . PASS Atlas-SNP LILRB4 11006 hgsc.bcm.edu hg19 19 55175397 55175397 + Missense_Mutation SNP C C T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . LILRB4 NM_006847 exon3 c.C256T p.P86S TCCATCCCATCCA . 135.0 32.0 120.0 0.0 . 86 . . . none . . PASS Atlas-SNP ZSCAN22 342945 hgsc.bcm.edu hg19 19 58850450 58850450 + Missense_Mutation SNP G G A rs138721519 TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ZSCAN22 NM_181846 exon3 c.G1234A p.A412T TGTGACGCGTGTG . 80.0 6.0 79.0 0.0 . 47 . . . weak G|1.000;A|0.000 0.000 PASS Atlas-SNP SON 6651 hgsc.bcm.edu hg19 21 34926409 34926409 + Silent SNP T T C novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . SON NM_032195 exon3 c.T4872C p.N1624N AGTTAATAAATAT . 90.0 52.0 137.0 0.0 . 343 . . . none . . PASS Atlas-SNP RIPK4 54101 hgsc.bcm.edu hg19 21 43176834 43176834 + Missense_Mutation SNP C C A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . RIPK4 NM_020639 exon2 c.G325T p.A109S CCGAAGCCAGCAG . 66.0 29.0 106.0 0.0 . 151 . . . none . . PASS Atlas-SNP KRTAP12-1 353332 hgsc.bcm.edu hg19 21 46101934 46101934 + Nonsense_Mutation SNP G G T rs56135164 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KRTAP12-1 NM_181686 exon1 c.C105A p.C35X GGGCACGCACACG . 96.0 4.0 115.0 0.0 . 9 . . . alt G|0.954;A|0.046 . PASS Atlas-SNP L3MBTL2 83746 hgsc.bcm.edu hg19 22 41616759 41616759 + Missense_Mutation SNP A A G novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . L3MBTL2 NM_031488 exon7 c.A740G p.Y247C TTCGGTATGAAGG . 40.0 12.0 62.0 0.0 . 61 . . . none . . PASS Atlas-SNP PPP6R2 9701 hgsc.bcm.edu hg19 22 50860699 50860699 + Missense_Mutation SNP G G A novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PPP6R2 NM_001242899 exon9 c.G865A p.D289N TTGGTGGACTCCT . 71.0 15.0 76.0 0.0 . 71 . . . none . . PASS Atlas-SNP HAO2 51179 hgsc.bcm.edu hg19 1 119935262 119935263 + Frame_Shift_Del DEL GT GT - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 GT GT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . HAO2 NM_001005783 exon8 c.951_952del p.317_318del . . 111.0 28.0 107.0 0.0 . 62 . 0.252252 0 none . . PASS Atlas-Indel,Pindel KIAA0146 23514 hgsc.bcm.edu hg19 8 48352889 48352889 + Frame_Shift_Del DEL A A - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KIAA0146 NM_001080394 exon8 c.881delG p.R294fs . . 77.0 26.0 49.0 0.0 . 64 . 0.337662 0 none . . PASS Atlas-Indel,Pindel MICAL3 57553 hgsc.bcm.edu hg19 22 18383762 18383762 + Frame_Shift_Del DEL C C - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MICAL3 NM_001136004 exon6 c.694delT p.F232fs . . 73.0 18.0 72.0 0.0 . 53 . 0.246575 0 none . . PASS Atlas-Indel,Pindel ANKHD1 54882 hgsc.bcm.edu hg19 5 139919000 139919001 + Frame_Shift_Ins INS - - T novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ANKHD1 NM_017747 exon34 c.7626_7627insT p.N2542fs . . 95.0 23.0 99.0 0.0 . 233 . 0.242105 0 none . . PASS Atlas-Indel,Pindel EXT2 2132 hgsc.bcm.edu hg19 11 44129501 44129501 + Frame_Shift_Del DEL G G - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . EXT2 NM_000401 exon2 c.337delC p.R113fs . . 149.0 43.0 141.0 0.0 . 129 . 0.288591 0 none . . PASS Atlas-Indel,Pindel TSPAN3 10099 hgsc.bcm.edu hg19 15 77346604 77346612 + In_Frame_Del DEL ATCAACCTC ATCAACCTC - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 ATCAACCTC ATCAACCTC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . TSPAN3 NM_005724 exon4 c.341_349del p.114_117del . . 52.0 10.0 58.0 0.0 . 21 . 0.192308 0 none . . PASS Atlas-Indel,Pindel NALCN 259232 hgsc.bcm.edu hg19 13 102047671 102047671 + Frame_Shift_Del DEL A A - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . NALCN NM_052867 exon3 c.155delC p.S52fs . . 104.0 29.0 84.0 0.0 . 431 . 0.278846 0 none . . PASS Atlas-Indel,Pindel KNTC1 9735 hgsc.bcm.edu hg19 12 123075197 123075201 + Frame_Shift_Del DEL ACTGC ACTGC - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 ACTGC ACTGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KNTC1 NM_014708 exon41 c.4042_4046del p.1348_1349del . . 126.0 45.0 136.0 0.0 . 182 . 0.357143 0 none . . PASS Atlas-Indel,Pindel LRP2 4036 hgsc.bcm.edu hg19 2 170063527 170063532 + In_Frame_Del DEL TGACAA TGACAA - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 TGACAA TGACAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . LRP2 NM_004525 exon39 c.6699_6704del p.2233_2235del . . 146.0 34.0 121.0 0.0 . 751 . 0.232877 0 none . . PASS Atlas-Indel,Pindel MAGI1 9223 hgsc.bcm.edu hg19 3 65425621 65425622 + Frame_Shift_Del DEL CT CT - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 CT CT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . MAGI1 NM_001033057 exon9 c.1203_1204del p.401_402del . . 24.0 12.0 28.0 0.0 . 481 . 0.5 0 none . . PASS Atlas-INDEL ATP6V1C1 528 hgsc.bcm.edu hg19 8 104068108 104068109 + Frame_Shift_Del DEL CG CG - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 CG CG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . ATP6V1C1 NM_001695 exon8 c.584_585del p.195_195del . . 176.0 55.0 154.0 0.0 . 33 . 0.3125 0 none . . PASS Atlas-Indel,Pindel KIF24 347240 hgsc.bcm.edu hg19 9 34256932 34256932 + Frame_Shift_Del DEL G G - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . KIF24 NM_194313 exon11 c.2674delT p.W892fs . . 103.0 35.0 82.0 0.0 . 64 . 0.339806 0 none . . PASS Atlas-Indel,Pindel PAMR1 25891 hgsc.bcm.edu hg19 11 35456322 35456326 + Frame_Shift_Del DEL GGAGC GGAGC - novel TCGA-2Z-A9JT-01A-11D-A42J-10 TCGA-2Z-A9JT-10A-01D-A42M-10 GGAGC GGAGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a0ad5b36-8f0c-4c60-9ff2-0992e47d1368 bcef5136-1bb4-4cff-a8db-659687674ecd . PAMR1 NM_015430 exon11 c.1412_1416del p.471_472del . . 54.0 17.0 53.0 0.0 . 85 . 0.314815 0 none . . PASS Atlas-Indel,Pindel