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 TTotCov TVarCov NTotCov NVarCov TVarRat NVarRat dbSNP_AF dbSNP_PopFreq dbSNP_Strength COSMIC_Codon COSMIC_Gene COSMIC_Gene_Freq COSMIC_Site_Freq Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target Confidence Algorithm HLA-A 3105 hgsc.bcm.edu 37 6 29910559 29910565 + Frame_Shift_Del DEL CACATCC CACATCC - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 CACATCC CACATCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 52.0 14.0 83.0 0.0 0.269 . . . none HLA-A,NS,lymphoid_neoplasm,0,1 HLA-A 89 1 NM_002116 exon2 c.98_104del p.33_35del . . PASS Pindel,Atlas-Indel PSMG2 56984 hgsc.bcm.edu 37 18 12720538 12720538 + Frame_Shift_Del DEL C C - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 144.0 17.0 201.0 0.0 0.118056 0 . . none . PSMG2 17 . NM_020232 exon5 c.436delT p.S146fs . . PASS Atlas-Indel UACA 55075 hgsc.bcm.edu 37 15 70959921 70959926 + In_Frame_Del DEL CTTTAA CTTTAA - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 CTTTAA CTTTAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 218.0 33.0 266.0 0.0 0.151 . . . none . UACA 235 . NM_018003 exon16 c.3098_3103del p.1033_1035del . . PASS Pindel,Atlas-Indel SALL1 6299 hgsc.bcm.edu 37 16 51175656 51175664 + In_Frame_Del DEL GCTGCTGCT GCTGCTGCT - rs113614842 byfrequency TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 GCTGCTGCT GCTGCTGCT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 125.0 25.0 137.0 0.0 0.2 0 -|0.500;GCC|0.250;GCT|0.250 0.500 strong . SALL1 301 . NM_002968 exon2 c.470_478del p.157_160del . . PASS Atlas-Indel MYL6 4637 hgsc.bcm.edu 37 12 56554083 56554083 + Frame_Shift_Del DEL A A - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 77.0 12.0 60.0 0.0 0.155844 0 . . none . MYL6 16 . NM_079423 exon5 c.405delC p.S135fs . . PASS Atlas-Indel THOC5 8563 hgsc.bcm.edu 37 22 29938874 29938876 + In_Frame_Del DEL CTT CTT - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 CTT CTT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 15.0 59.0 0.0 0.234375 0 . . none . THOC5 58 . NM_001002879 exon5 c.425_427del p.142_143del . . PASS Atlas-Indel KLRC4-KLRK1 0 hgsc.bcm.edu 37 12 10539559 10539559 + Frame_Shift_Del DEL A A - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 260.0 59.0 246.0 0.0 0.226923 0 . . none . . . . NM_001199805 exon8 c.92delC p.S31X . . PASS Atlas-Indel HLA-A 3105 hgsc.bcm.edu 37 6 29911113 29911115 + In_Frame_Del DEL CGG CGG - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 CGG CGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 24.0 171.0 0.0 0.358 . . . none . HLA-A 89 . NM_002116 exon3 c.411_413del p.137_138del . . PASS Pindel,Atlas-Indel CA3 761 hgsc.bcm.edu 37 8 86352126 86352127 + Frame_Shift_Ins INS - - A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 52.0 18.0 29.0 0.0 0.346 . . . none . CA3 47 . NM_005181 exon2 c.220_221insA p.Y74_D75delinsX . . PASS Pindel,Atlas-Indel HLA-B 3106 hgsc.bcm.edu 37 6 31324195 31324201 + Frame_Shift_Del DEL TACATGC TACATGC - rs151341217 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 TACATGC TACATGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 36.0 13.0 55.0 0.0 0.361 . . . alt . HLA-B 54 . NM_005514 exon3 c.363_369del p.121_123del . . PASS Pindel,Atlas-Indel PCED1A 64773 hgsc.bcm.edu 37 20 2816203 2816204 + Frame_Shift_Ins INS - - C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 94.0 22.0 120.0 0.0 0.234 . . . none . . . . NM_022760 exon8 c.1270_1271insG p.P424fs . . PASS Pindel,Atlas-Indel RLF 6018 hgsc.bcm.edu 37 1 40697260 40697262 + In_Frame_Del DEL GTC GTC - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 GTC GTC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 179.0 36.0 200.0 0.0 0.201 . . . none . RLF 152 . NM_012421 exon7 c.1018_1020del p.340_340del . . PASS Pindel,Atlas-Indel MYO1H 283446 hgsc.bcm.edu 37 12 109858795 109858795 + Frame_Shift_Del DEL A A - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 194.0 15.0 181.0 0.0 0.0773196 0 . . none . MYO1H 98 . NM_001101421 exon15 c.1558delG p.E520fs . . PASS Atlas-Indel SOCS1 8651 hgsc.bcm.edu 37 16 11349102 11349103 + Frame_Shift_Del DEL TC TC - novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 TC TC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 21.0 10.0 29.0 0.0 0.47619 0 . . none SOCS1,lymph_node,lymphoid_neoplasm,+1,1 SOCS1 84 1 NM_003745 exon2 c.234_235del p.78_79del . . PASS Atlas-Indel IGLL5 100423062 hgsc.bcm.edu 37 22 23230415 23230416 + In_Frame_Ins INS - - CAG novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 14.0 113.0 0.0 0.215 . . . none . IGLL5 26 . NM_001178126 exon1 c.182_183insCAG p.S61delinsSS . . PASS Pindel,Atlas-Indel ABCA2 20 hgsc.bcm.edu 37 9 139909868 139909869 + Frame_Shift_Ins INS - - G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 10.0 62.0 0.0 0.212766 0 . . none . ABCA2 113 . NM_212533 exon24 c.3785_3786insC p.Q1262fs . . PASS Atlas-Indel AP3M1 26985 hgsc.bcm.edu 37 10 75896531 75896531 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 141.0 48.0 159.0 0.0 0.340426 0 . . none . AP3M1 28 . NM_207012 exon4 c.A304G p.I102V CCTTAATTGCAGC . PASS Atlas-SNP PCDHA5 56143 hgsc.bcm.edu 37 5 140201800 140201800 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 149.0 38.0 137.0 0.0 0.255034 0 . . none . PCDHA5 361 . NM_018908 exon1 c.C440T p.P147L GAATGCCAGATTC . PASS Atlas-SNP OR5M1 390168 hgsc.bcm.edu 37 11 56380719 56380719 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 174.0 100.0 228.0 0.0 0.574713 0 . . none . OR5M1 92 . NM_001004740 exon1 c.C260T p.S87L TGTTCTGAGAGGA . PASS Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814311 45814311 + Nonsense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 97.0 27.0 102.0 0.0 0.278351 0 . . none . SLC30A4 25 . NM_013309 exon2 c.T242A p.L81X AAAGGTAAGTCTT . PASS Atlas-SNP NCAPG 64151 hgsc.bcm.edu 37 4 17843962 17843962 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 209.0 84.0 252.0 0.0 0.401914 0 . . none . NCAPG 76 . NM_022346 exon20 c.A2884C p.T962P GCTAGGACGAACA . PASS Atlas-SNP KCNH5 27133 hgsc.bcm.edu 37 14 63175121 63175121 + Missense_Mutation SNP C C T rs200737420 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 75.0 12.0 90.0 0.0 0.16 0 C|0.999;T|0.001 0.001 weak KCNH5,NS,malignant_melanoma,-1,5 KCNH5 320 5 NM_139318 exon11 c.G2072A p.R691Q TTCTGCCGGAGGC . PASS Atlas-SNP FKBP9 11328 hgsc.bcm.edu 37 7 33044805 33044805 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 94.0 21.0 141.0 0.0 0.223404 0 . . none FKBP9_ENST00000490776,NS,carcinoma,0,4 FKBP9 335 4 NM_007270 exon10 c.G1555A p.A519T ATTCACGCCCAGG . PASS Atlas-SNP MACC1 346389 hgsc.bcm.edu 37 7 20199461 20199461 + Missense_Mutation SNP G G A rs200826339 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 105.0 9.0 143.0 0.0 0.0857143 0 A|0.000;G|0.999;T|0.000 0.000 strong MACC1,bladder,carcinoma,+2,1 MACC1 99 1 NM_182762 exon5 c.C523T p.R175W CCTCCCGATCATT . PASS Atlas-SNP ZNF512B 57473 hgsc.bcm.edu 37 20 62597525 62597525 + Missense_Mutation SNP G G A rs371234637 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 133.0 25.0 182.0 0.0 0.18797 0 . . weak ZNF512B,NS,lymphoid_neoplasm,+1,1 ZNF512B 72 1 NM_020713 exon5 c.C1003T p.R335C TGGCACGAGGTGC . PASS Atlas-SNP BMP7 655 hgsc.bcm.edu 37 20 55748291 55748291 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 39.0 15.0 63.0 0.0 0.384615 0 . . none . BMP7 60 . NM_001719 exon6 c.A1111G p.M371V CGTTCATGTAGGA . PASS Atlas-SNP CTAGE5 4253 hgsc.bcm.edu 37 14 39819363 39819363 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 144.0 53.0 190.0 2.0 0.368056 0.0105263 . . none CTAGE5,colon,carcinoma,0,1 CTAGE5 75 1 NM_001247989 exon24 c.C2325A p.F775L ATTTTTCCCCCCA . scavenged Atlas-SNP MEPCE 56257 hgsc.bcm.edu 37 7 100028402 100028402 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 32.0 8.0 48.0 0.0 0.25 0 . . none . MEPCE 52 . NM_019606 exon1 c.C761T p.S254L TTGCTTCGCCACT . PASS Atlas-SNP PCDH15 65217 hgsc.bcm.edu 37 10 55782695 55782695 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 165.0 42.0 190.0 0.0 0.254545 0 . . none . PCDH15 1715 . NM_001142763 exon20 c.T2498C p.V833A TCTTCAACAAGGA . PASS Atlas-SNP PPP1CA 5499 hgsc.bcm.edu 37 11 67168324 67168324 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 82.0 17.0 87.0 0.0 0.207317 0 . . none . PPP1CA 83 . NM_001008709 exon3 c.G287C p.S96T TAGTTGCTCTCGG . PASS Atlas-SNP PSEN1 5663 hgsc.bcm.edu 37 14 73614730 73614730 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 82.0 32.0 97.0 0.0 0.390244 0 . . none PSEN1,NS,carcinoma,0,1 PSEN1 38 1 NM_000021 exon3 c.G3A p.M1I TCCAATGACAGAG . PASS Atlas-SNP BAI3 577 hgsc.bcm.edu 37 6 70070955 70070955 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 95.0 25.0 99.0 0.0 0.263158 0 . . none BAI3,right_upper_lobe,carcinoma,-2,1 BAI3 451 1 NM_001704 exon29 c.G3790A p.E1264K ATGAATGAGCTTA . PASS Atlas-SNP TRHDE 29953 hgsc.bcm.edu 37 12 73046814 73046814 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 134.0 60.0 158.0 0.0 0.447761 0 . . none . TRHDE 194 . NM_013381 exon17 c.G2727A p.L909L GTCACTGAATTCT . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348988 11348988 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 11.0 33.0 0.0 0.275 0 . . none SOCS1,NS,lymphoid_neoplasm,0,2 SOCS1 84 2 NM_003745 exon2 c.C348T p.S116S CTTCACGCTAAGG . PASS Atlas-SNP PTPN9 5780 hgsc.bcm.edu 37 15 75762326 75762326 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 100.0 25.0 102.0 0.0 0.25 0 . . none . PTPN9 53 . NM_002833 exon12 c.C1374A p.R458R CACCTGGCGTTTC . PASS Atlas-SNP CSNK2A1 1457 hgsc.bcm.edu 37 20 485848 485848 + Nonsense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 421.0 105.0 567.0 1.0 0.249406 0.00176367 . . none . CSNK2A1 36 . NM_001895 exon3 c.C127T p.R43X ATTTTCGAACCAG . PASS Atlas-SNP CNTLN 54875 hgsc.bcm.edu 37 9 17135148 17135148 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 163.0 33.0 129.0 0.0 0.202454 0 . . none . CNTLN 128 . NM_017738 exon1 c.G85A p.A29T CGGGGAGCTGAAG . PASS Atlas-SNP ST6GAL2 84620 hgsc.bcm.edu 37 2 107460134 107460134 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 185.0 69.0 204.0 0.0 0.372973 0 . . none . ST6GAL2 159 . NM_032528 exon2 c.C300A p.A100A GGACTGGGCCCAT . PASS Atlas-SNP ZNF616 90317 hgsc.bcm.edu 37 19 52618943 52618943 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 38.0 124.0 0.0 0.296875 0 . . none . ZNF616 109 . NM_178523 exon4 c.C1474T p.P492S TGTAAGGTTTCTC . PASS Atlas-SNP ATP10B 23120 hgsc.bcm.edu 37 5 160071166 160071166 + Missense_Mutation SNP C C T rs369830205 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 77.0 33.0 62.0 0.0 0.428571 0 . . alt . ATP10B 201 . NM_025153 exon9 c.G847A p.V283I TGCCAACAGCCAT . PASS Atlas-SNP ZNF257 113835 hgsc.bcm.edu 37 19 22271296 22271296 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 197.0 52.0 219.0 0.0 0.263959 0 . . none . ZNF257 156 . NM_033468 exon4 c.G744A p.K248K ACATAAGGTAATT . PASS Atlas-SNP CISH 1154 hgsc.bcm.edu 37 3 50645816 50645816 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 35.0 12.0 66.0 0.0 0.342857 0 . . none . CISH 27 . NM_013324 exon3 c.C280A p.L94I CCCGAAGGTAGGA . PASS Atlas-SNP RPUSD3 285367 hgsc.bcm.edu 37 3 9885228 9885228 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 117.0 30.0 137.0 0.0 0.25641 0 . . none . RPUSD3 19 . NM_001142547 exon2 c.C183A p.P61P CGCGAAGGGCTGG . PASS Atlas-SNP SMC1B 27127 hgsc.bcm.edu 37 22 45789587 45789587 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 270.0 76.0 315.0 0.0 0.281481 0 . . none . SMC1B 215 . NM_148674 exon9 c.C1472T p.T491I TCATGGGTATCAA . PASS Atlas-SNP UNC5C 8633 hgsc.bcm.edu 37 4 96222814 96222814 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 50.0 20.0 93.0 0.0 0.4 0 . . none . UNC5C 141 . NM_003728 exon3 c.G433A p.V145M AGGCCACACACTG . PASS Atlas-SNP ACTB 60 hgsc.bcm.edu 37 7 5568300 5568300 + Silent SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 69.0 18.0 101.0 0.0 0.26087 0 . . none . ACTB 45 . NM_001101 exon4 c.T414A p.A138A TAGCACAGCCTGG . PASS Atlas-SNP FBLN1 2192 hgsc.bcm.edu 37 22 45958992 45958992 + Missense_Mutation SNP G G A rs11551 bycluster;byhapmap TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 81.0 26.0 92.0 0.0 0.320988 0 G|1.000 . weak . FBLN1 143 . NM_001996 exon15 c.G1898A p.R633Q CCACCCGGAAGGT . PASS Atlas-SNP HIST1H1B 3009 hgsc.bcm.edu 37 6 27835055 27835055 + Silent SNP G G A rs116008322 bycluster;byfrequency;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 149.0 15.0 176.0 0.0 0.100671 0 G|0.982;A|0.018 0.018 strong . HIST1H1B 54 . NM_005322 exon1 c.C253T p.L85L GGCCCAGCTTAAT . PASS Atlas-SNP IQGAP1 8826 hgsc.bcm.edu 37 15 90976986 90976986 + Silent SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 175.0 49.0 196.0 0.0 0.28 0 . . none . IQGAP1 140 . NM_003870 exon5 c.A426G p.R142R TGATCGAAAGAAC . PASS Atlas-SNP UNC13C 440279 hgsc.bcm.edu 37 15 54860103 54860103 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 175.0 48.0 284.0 0.0 0.274286 0 . . none . UNC13C 674 . NM_001080534 exon28 c.G6064A p.D2022N ACTACTGATGCCT . PASS Atlas-SNP CPEB4 80315 hgsc.bcm.edu 37 5 173317293 173317293 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 189.0 40.0 165.0 0.0 0.21164 0 . . none . CPEB4 54 . NM_030627 exon1 c.A557C p.D186A ATGAAGATGCAAG . PASS Atlas-SNP DOCK6 57572 hgsc.bcm.edu 37 19 11325005 11325005 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 60.0 19.0 74.0 0.0 0.316667 0 . . none . DOCK6 104 . NM_020812 exon34 c.G4284A p.Q1428Q GGCACTCTGGGCA . PASS Atlas-SNP SGIP1 84251 hgsc.bcm.edu 37 1 67133214 67133214 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 90.0 20.0 110.0 0.0 0.222222 0 . . none . SGIP1 272 . NM_032291 exon9 c.G473C p.R158T CACAGAGGCGCAG . PASS Atlas-SNP ZDHHC17 23390 hgsc.bcm.edu 37 12 77243231 77243231 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 328.0 38.0 342.0 0.0 0.115854 0 . . none . ZDHHC17 45 . NM_015336 exon16 c.T1741G p.S581A ACAACGTCTATTG . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu 37 1 235966354 235966354 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 92.0 35.0 96.0 0.0 0.380435 0 . . none . LYST 370 . NM_000081 exon8 c.C3566G p.S1189C TCTGCAGATTGAT . PASS Atlas-SNP PRRC2B 84726 hgsc.bcm.edu 37 9 134319653 134319653 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 52.0 18.0 53.0 0.0 0.346154 0 . . none . PRRC2B 266 . NM_013318 exon5 c.C551T p.A184V ACAAGGCTGGCAA . PASS Atlas-SNP VN1R1 57191 hgsc.bcm.edu 37 19 57967400 57967400 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 171.0 43.0 214.0 0.0 0.251462 0 . . none . VN1R1 48 . NM_020633 exon1 c.C455A p.P152H ATACTGGGGTTGA . PASS Atlas-SNP VCPIP1 80124 hgsc.bcm.edu 37 8 67577327 67577327 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 180.0 76.0 168.0 0.0 0.422222 0 . . none . VCPIP1 110 . NM_025054 exon1 c.T1867A p.Y623N CATCGTAAACATT . PASS Atlas-SNP DMD 1756 hgsc.bcm.edu 37 X 33146262 33146262 + Splice_Site SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 99.0 63.0 87.0 0.0 0.636364 0 . . none . DMD 2127 . NM_004009 exon2 c.19+2T>C . TTACTCACCAGAT . PASS Atlas-SNP INO80D 54891 hgsc.bcm.edu 37 2 206921607 206921607 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 184.0 60.0 172.0 0.0 0.326087 0 . . none . INO80D 134 . NM_017759 exon4 c.G279T p.K93N ATCATTCTTTTTC . PASS Atlas-SNP BRCA2 675 hgsc.bcm.edu 37 13 32906689 32906689 + Silent SNP G G A rs276174805 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 89.0 14.0 110.0 0.0 0.157303 0 . . alt . BRCA2 812 . NM_000059 exon10 c.G1074A p.V358V TGAAGTGGAACCA . PASS Atlas-SNP AHNAK 79026 hgsc.bcm.edu 37 11 62284325 62284325 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 138.0 78.0 140.0 0.0 0.565217 0 . . none . AHNAK 532 . NM_001620 exon5 c.T17564A p.L5855Q GAGGCCAGGGACA . PASS Atlas-SNP ASPM 259266 hgsc.bcm.edu 37 1 197093397 197093397 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 579.0 154.0 765.0 0.0 0.265976 0 . . none . ASPM 444 . NM_001206846 exon13 c.G3233A p.S1078N TTTATACTCTTTG . PASS Atlas-SNP LMAN2 10960 hgsc.bcm.edu 37 5 176778602 176778602 + Missense_Mutation SNP C C T rs143985896 bycluster;byfrequency;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 79.0 13.0 86.0 0.0 0.164557 0 C|0.999;T|0.001 0.001 strong . LMAN2 35 . NM_006816 exon1 c.G47A p.C16Y CCCAGGCACCGCC . PASS Atlas-SNP COL23A1 91522 hgsc.bcm.edu 37 5 177695744 177695744 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 54.0 8.0 58.0 0.0 0.148148 0 . . none . COL23A1 47 . NM_173465 exon7 c.C482T p.P161L CCTTTCGGGCCTG . PASS Atlas-SNP ACTB 60 hgsc.bcm.edu 37 7 5568897 5568897 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 72.0 16.0 86.0 0.0 0.222222 0 . . none . ACTB 45 . NM_001101 exon3 c.G258C p.W86C GTGGTGCCAGATT . PASS Atlas-SNP PRDM8 56978 hgsc.bcm.edu 37 4 81123614 81123614 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 43.0 25.0 73.0 0.0 0.581395 0 . . none . PRDM8 44 . NM_001099403 exon4 c.G998A p.R333Q GGGGCCGGGGCCG . PASS Atlas-SNP CSNK2A1 1457 hgsc.bcm.edu 37 20 472918 472918 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 59.0 13.0 94.0 0.0 0.220339 0 . . none . CSNK2A1 36 . NM_001895 exon8 c.G601A p.E201K GTAGCTCAGGACC . PASS Atlas-SNP NAA38 51691 hgsc.bcm.edu 37 7 117832025 117832025 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 119.0 31.0 141.0 1.0 0.260504 0.0070922 . . none NAA38,NS,carcinoma,+1,1 NAA38 16 1 NM_016200 exon4 c.G260A p.R87Q ATATTCGAGCAGA . scavenged Atlas-SNP DDX47 51202 hgsc.bcm.edu 37 12 12966365 12966365 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 12.0 53.0 0.0 0.255319 0 . . none . DDX47 37 . NM_201224 exon1 c.G64C p.E22Q GAGGAGGAAACTA . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2161349 2161349 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 46.0 17.0 54.0 0.0 0.369565 0 . . none . PKD1 184 . NM_000296 exon15 c.C3819T p.T1273T ACCCACGGTCACT . PASS Atlas-SNP CSMD1 64478 hgsc.bcm.edu 37 8 2966134 2966134 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 45.0 20.0 78.0 0.0 0.444444 0 . . none . CSMD1 1469 . NM_033225 exon44 c.A6745G p.N2249D GGAAATTGAGGAC . PASS Atlas-SNP PLXNA2 5362 hgsc.bcm.edu 37 1 208216538 208216538 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 70.0 10.0 87.0 0.0 0.142857 0 . . none . PLXNA2 178 . NM_025179 exon21 c.G3885A p.E1295E CTGGAGCTCAGCA . PASS Atlas-SNP LOX 4015 hgsc.bcm.edu 37 5 121412595 121412595 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 44.0 5.0 24.0 0.0 0.113636 0 . . none LOX,NS,carcinoma,+1,1 LOX 29 1 NM_002317 exon2 c.C733G p.L245V TGGCCAGACAGTT . PASS Atlas-SNP PLCE1 51196 hgsc.bcm.edu 37 10 96018781 96018781 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 126.0 39.0 154.0 0.0 0.309524 0 . . none PLCE1_ENST00000371375,NS,carcinoma,-1,3 PLCE1 543 3 NM_016341 exon13 c.C3688T p.R1230C AGGAGCCGCAAGG . PASS Atlas-SNP BPIFB4 149954 hgsc.bcm.edu 37 20 31671452 31671452 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 100.0 27.0 138.0 2.0 0.27 0.0144928 . . none C20orf186,NS,carcinoma,+1,1 . . 1 NM_182519 exon3 c.G449A p.R150Q ACCGGCGAGAGCT . scavenged Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814252 45814252 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 143.0 30.0 148.0 0.0 0.20979 0 . . none SLC30A4,bladder,carcinoma,+2,1 SLC30A4 25 1 NM_013309 exon2 c.C301A p.Q101K CTCTCTGTTTGCT . PASS Atlas-SNP XPO6 23214 hgsc.bcm.edu 37 16 28187332 28187332 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 116.0 9.0 131.0 0.0 0.0775862 0 . . none . XPO6 177 . NM_015171 exon4 c.C292T p.H98Y TATGGTGAGCCAA . PASS Atlas-SNP FAM198B 51313 hgsc.bcm.edu 37 4 159092202 159092202 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 60.0 23.0 84.0 0.0 0.383333 0 . . none . FAM198B 134 . NM_016613 exon2 c.T326C p.I109T AGGGTAATGTACA . PASS Atlas-SNP PARD3 56288 hgsc.bcm.edu 37 10 34648142 34648142 + Missense_Mutation SNP G G C rs142553947 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 290.0 69.0 372.0 0.0 0.237931 0 G|1.000;C|0.000 0.000 weak . PARD3 131 . NM_001184792 exon14 c.C2000G p.S667C TCAGTAGACATAG . PASS Atlas-SNP LRRN3 54674 hgsc.bcm.edu 37 7 110764124 110764124 + Silent SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 54.0 13.0 56.0 0.0 0.240741 0 . . none LRRN3,caecum,carcinoma,+2,2 LRRN3 132 2 NM_018334 exon2 c.A1296G p.L432L TAATCTAAATGTA . PASS Atlas-SNP BACH2 60468 hgsc.bcm.edu 37 6 90718537 90718537 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 15.0 69.0 0.0 0.223881 0 . . none . BACH2 224 . NM_001170794 exon4 c.C27T p.S9S CATGGGGGAGTCA . PASS Atlas-SNP ZBTB16 7704 hgsc.bcm.edu 37 11 114027086 114027086 + Silent SNP C C T rs148436647 bycluster;byfrequency TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 69.0 13.0 71.0 0.0 0.188406 0 C|1.000;T|0.000 0.000 strong . ZBTB16 101 . NM_006006 exon3 c.C1296T p.Y432Y GACGTACGGGTGC . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348978 11348978 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 8.0 38.0 1.0 0.2 0.0263158 . . none SOCS1,NS,lymphoid_neoplasm,+2,1 SOCS1 84 1 NM_003745 exon2 c.G358A p.A120T CCGAGGCCATCTT . scavenged Atlas-SNP HIST1H2AD 3013 hgsc.bcm.edu 37 6 26199193 26199193 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 195.0 53.0 259.0 1.0 0.271795 0.003861 . . none HIST1H2AD,NS,lymphoid_neoplasm,0,1 HIST1H2AD 20 1 NM_021065 exon1 c.G279A p.E93E GTTTAGCTCCTCG . scavenged Atlas-SNP PHC1 1911 hgsc.bcm.edu 37 12 9089488 9089488 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 101.0 18.0 96.0 0.0 0.178218 0 . . none . PHC1 67 . NM_004426 exon12 c.A2405C p.Y802S GCGAGTACTGTGG . PASS Atlas-SNP TAPT1 202018 hgsc.bcm.edu 37 4 16168278 16168278 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 146.0 64.0 200.0 0.0 0.438356 0 . . none . TAPT1 31 . NM_153365 exon13 c.G1452A p.Q484Q TTTGTTCTGTGAT . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu 37 2 1652954 1652954 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 51.0 19.0 56.0 0.0 0.372549 0 . . none . PXDN 255 . NM_012293 exon17 c.C2598A p.D866E CCGGGAGTCATTG . PASS Atlas-SNP MAST4 375449 hgsc.bcm.edu 37 5 66462503 66462503 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 31.0 108.0 0.0 0.242188 0 . . none . MAST4 218 . NM_001164664 exon29 c.A7496T p.N2499I CCAGCAACAGGGA . PASS Atlas-SNP FGFR4 2264 hgsc.bcm.edu 37 5 176516652 176516652 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 159.0 76.0 139.0 0.0 0.477987 0 . . none . FGFR4 174 . NM_022963 exon1 c.C49T p.P17S CCTGGGCCTCCAG . PASS Atlas-SNP HCN1 348980 hgsc.bcm.edu 37 5 45262330 45262330 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 88.0 28.0 85.0 0.0 0.318182 0 . . none HCN1,NS,carcinoma,0,2 HCN1 298 2 NM_021072 exon8 c.C2366G p.S789W GGCTGCGAGGCGG . PASS Atlas-SNP TLR4 7099 hgsc.bcm.edu 37 9 120476234 120476234 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 86.0 20.0 99.0 0.0 0.232558 0 . . none . TLR4 220 . NM_138554 exon3 c.G1828T p.A610S GAATGTGCAACAC . PASS Atlas-SNP PIM2 11040 hgsc.bcm.edu 37 X 48775891 48775891 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 109.0 85.0 71.0 0.0 0.779817 0 . . none . PIM2 31 . NM_006875 exon2 c.G93C p.E31D TCGATACTCGGCC . PASS Atlas-SNP KIF2B 84643 hgsc.bcm.edu 37 17 51900705 51900705 + Missense_Mutation SNP C C T rs371085430 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 12.0 62.0 1.0 0.255319 0.016129 . . weak KIF2B,NS,carcinoma,-1,2 KIF2B 254 2 NM_032559 exon1 c.C311T p.S104L CCTCTTCGGCCAT . scavenged Atlas-SNP PTPRD 5789 hgsc.bcm.edu 37 9 8504278 8504278 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 192.0 12.0 177.0 0.0 0.0625 0 . . none . PTPRD 1348 . NM_130392 exon12 c.C1805T p.A602V GTTCTAGCTGATA . PASS Atlas-SNP IRF8 3394 hgsc.bcm.edu 37 16 85942775 85942775 + Silent SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 75.0 27.0 79.0 0.0 0.36 0 . . none . IRF8 65 . NM_002163 exon3 c.A354G p.Q118Q AGAGCAAAAATGT . PASS Atlas-SNP METTL21D 79609 hgsc.bcm.edu 37 14 50583173 50583173 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 14.0 59.0 0.0 0.35 0 . . none . METTL21D 11 . NM_024558 exon1 c.A98G p.Y33C GAGCTATACTGCT . PASS Atlas-SNP CDAN1 146059 hgsc.bcm.edu 37 15 43022925 43022925 + Missense_Mutation SNP C C T rs201057681 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 21.0 71.0 1.0 0.323077 0.0140845 C|1.000;T|0.000 0.000 strong CDAN1,bladder,carcinoma,0,1 CDAN1 70 1 NM_138477 exon14 c.G2045A p.R682Q AGCCCTCGCTGCA . scavenged Atlas-SNP PGK2 5232 hgsc.bcm.edu 37 6 49754100 49754100 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 186.0 56.0 206.0 0.0 0.301075 0 . . none . PGK2 87 . NM_138733 exon1 c.A801C p.K267N GATATCTTTAACG . PASS Atlas-SNP CALCA 796 hgsc.bcm.edu 37 11 14989251 14989251 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 52.0 10.0 69.0 0.0 0.192308 0 . . none . CALCA 30 . NM_001033953 exon4 c.T377G p.L126R GCTTGAAGGTCCC . PASS Atlas-SNP PTPN2 5771 hgsc.bcm.edu 37 18 12884137 12884137 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 15.0 97.0 0.0 0.1875 0 . . none . PTPN2 37 . NM_001207013 exon1 c.C4T p.P2S TGGTGGGCATGGC . PASS Atlas-SNP DTL 51514 hgsc.bcm.edu 37 1 212218054 212218054 + Silent SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 584.0 66.0 724.0 0.0 0.113014 0 . . none DTL,colon,carcinoma,+1,3 DTL 52 3 NM_016448 exon3 c.A231C p.R77R TGTTCGATTGTAT . PASS Atlas-SNP SPAG5 10615 hgsc.bcm.edu 37 17 26919738 26919738 + Missense_Mutation SNP G G A rs149403082 bycluster;byfrequency TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 103.0 37.0 161.0 0.0 0.359223 0 G|1.000;A|0.000 0.000 strong . SPAG5 92 . NM_006461 exon3 c.C524T p.A175V CAGGGTGCCACCT . PASS Atlas-SNP ITPKB 3707 hgsc.bcm.edu 37 1 226924300 226924300 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 11.0 65.0 0.0 0.234043 0 . . none . ITPKB 158 . NM_002221 exon2 c.G860A p.S287N AGGCAGCTCCGAG . PASS Atlas-SNP LRRTM1 347730 hgsc.bcm.edu 37 2 80529909 80529909 + Nonsense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 58.0 20.0 74.0 0.0 0.344828 0 . . none . LRRTM1 251 . NM_178839 exon2 c.G1036T p.E346X CGTACTCCGGGCT . PASS Atlas-SNP ABCA13 154664 hgsc.bcm.edu 37 7 48312478 48312478 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 148.0 43.0 186.0 0.0 0.290541 0 . . none . ABCA13 1192 . NM_152701 exon17 c.A3215T p.D1072V TAATTGATGAAGA . PASS Atlas-SNP DNAH2 146754 hgsc.bcm.edu 37 17 7662326 7662326 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 56.0 17.0 75.0 0.0 0.303571 0 . . none . DNAH2 498 . NM_020877 exon14 c.G2332A p.E778K GAATTTGAAGAGG . PASS Atlas-SNP CASD1 64921 hgsc.bcm.edu 37 7 94173774 94173774 + Nonsense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 313.0 81.0 384.0 0.0 0.258786 0 . . none . CASD1 70 . NM_022900 exon11 c.C1408T p.Q470X TTATTTCAGACAG . PASS Atlas-SNP AGFG1 3267 hgsc.bcm.edu 37 2 228401667 228401667 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 261.0 61.0 293.0 0.0 0.233716 0 . . none . AGFG1 80 . NM_001135187 exon11 c.T1408G p.S470A GTGGCATCTTCTA . PASS Atlas-SNP PLEKHA7 144100 hgsc.bcm.edu 37 11 17035910 17035910 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 29.0 15.0 52.0 0.0 0.517241 0 . . none . PLEKHA7 120 . NM_175058 exon1 c.G39A p.E13E CCAATGCTCAGGT . PASS Atlas-SNP EGR2 1959 hgsc.bcm.edu 37 10 64575715 64575715 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 63.0 18.0 73.0 2.0 0.285714 0.0273973 . . none EGR2,NS,carcinoma,-1,1 EGR2 77 1 NM_000399 exon1 c.C75T p.I25I CGGGTAGATGTTG . scavenged Atlas-SNP STXBP3 6814 hgsc.bcm.edu 37 1 109289364 109289364 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 93.0 29.0 138.0 0.0 0.311828 0 . . none . STXBP3 44 . NM_007269 exon1 c.C5T p.A2V AGATGGCGCCGCC . PASS Atlas-SNP MCM10 55388 hgsc.bcm.edu 37 10 13222489 13222489 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 106.0 15.0 138.0 0.0 0.141509 0 . . none . MCM10 76 . NM_182751 exon7 c.G815A p.R272Q CCGGCCGAAAACT . PASS Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814226 45814226 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 155.0 32.0 160.0 0.0 0.206452 0 . . none . SLC30A4 25 . NM_013309 exon2 c.G327C p.K109N TTTCACCTTTCTC . PASS Atlas-SNP HOXD1 3231 hgsc.bcm.edu 37 2 177053759 177053759 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 23.0 7.0 29.0 0.0 0.304348 0 . . none . HOXD1 33 . NM_024501 exon1 c.C230T p.P77L CGCCTCCGGCCGC . PASS Atlas-SNP XPO7 23039 hgsc.bcm.edu 37 8 21856273 21856273 + Nonsense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 74.0 24.0 115.0 0.0 0.324324 0 . . none XPO7,NS,carcinoma,0,1 XPO7 79 1 NM_015024 exon22 c.C2353T p.R785X TCCCAGCGACTCC . PASS Atlas-SNP ARHGAP11A 9824 hgsc.bcm.edu 37 15 32929606 32929606 + Missense_Mutation SNP G G A rs144493501 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 140.0 24.0 149.0 0.0 0.171429 0 G|1.000;A|0.000 0.000 strong . ARHGAP11A 84 . NM_014783 exon12 c.G2632A p.G878S TGTGACGGTGCTC . PASS Atlas-SNP REV3L 5980 hgsc.bcm.edu 37 6 111656671 111656671 + Splice_Site SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 84.0 20.0 88.0 0.0 0.238095 0 . . none . REV3L 386 . NM_002912 exon23 c.7680+1G>A . TTCCCACCTGTGA . PASS Atlas-SNP PNPLA5 150379 hgsc.bcm.edu 37 22 44287689 44287689 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 83.0 21.0 111.0 0.0 0.253012 0 . . none . PNPLA5 46 . NM_138814 exon1 c.C72T p.H24H GCCCACGTGGTGG . PASS Atlas-SNP ADAD2 161931 hgsc.bcm.edu 37 16 84228066 84228066 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 43.0 9.0 33.0 0.0 0.209302 0 . . none . ADAD2 46 . NM_139174 exon3 c.C653T p.S218L CCTTCTCGGTGAG . PASS Atlas-SNP POPDC3 64208 hgsc.bcm.edu 37 6 105607586 105607586 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 166.0 43.0 219.0 0.0 0.259036 0 . . none . POPDC3 47 . NM_022361 exon3 c.G594A p.Q198Q CCTTACCTGAAAA . PASS Atlas-SNP AFF2 2334 hgsc.bcm.edu 37 X 147743486 147743486 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 272.0 193.0 213.0 0.0 0.709559 0 . . none . AFF2 679 . NM_002025 exon3 c.G238A p.E80K TATGATGAAATGA . PASS Atlas-SNP OR6B3 150681 hgsc.bcm.edu 37 2 240984801 240984801 + Missense_Mutation SNP G G A rs371957226 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 178.0 53.0 181.0 0.0 0.297753 0 . . weak . OR6B3 37 . NM_173351 exon1 c.C689T p.S230L GTGGCCGAGGGGA . PASS Atlas-SNP LEMD3 23592 hgsc.bcm.edu 37 12 65564345 65564345 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 32.0 16.0 31.0 0.0 0.5 0 . . none . LEMD3 68 . NM_001167614 exon1 c.G969T p.A323A GGCGGCGGCTGCC . PASS Atlas-SNP TYRP1 7306 hgsc.bcm.edu 37 9 12702305 12702305 + Silent SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 199.0 36.0 184.0 0.0 0.180905 0 . . none . TYRP1 60 . NM_000550 exon5 c.T948A p.A316A TCCAGCTGGAAAT . PASS Atlas-SNP FRMPD4 9758 hgsc.bcm.edu 37 X 12728588 12728588 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 47.0 59.0 0.0 0.701493 0 . . none . FRMPD4 214 . NM_014728 exon14 c.T1541A p.L514Q ACCGGCTGCTTGT . PASS Atlas-SNP DCST1 149095 hgsc.bcm.edu 37 1 155013976 155013976 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 76.0 25.0 73.0 0.0 0.328947 0 . . none . DCST1 69 . NM_152494 exon7 c.C635G p.T212S AGGATACCATGGA . PASS Atlas-SNP WDR16 146845 hgsc.bcm.edu 37 17 9515643 9515643 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 61.0 19.0 66.0 0.0 0.311475 0 . . none . WDR16 67 . NM_145054 exon8 c.G872A p.G291D TACAAGGCGGCAT . PASS Atlas-SNP MTMR14 64419 hgsc.bcm.edu 37 3 9695364 9695364 + Silent SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 132.0 22.0 151.0 0.0 0.166667 0 . . none . MTMR14 43 . NM_022485 exon2 c.G219C p.V73V CAGCGTGATTCCA . PASS Atlas-SNP OR5M8 219484 hgsc.bcm.edu 37 11 56258097 56258097 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 82.0 39.0 110.0 0.0 0.47561 0 . . none . OR5M8 74 . NM_001005282 exon1 c.C750A p.F250L TGCATAGAATATA . PASS Atlas-SNP TTC21B 79809 hgsc.bcm.edu 37 2 166770146 166770146 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 295.0 54.0 381.0 0.0 0.183051 0 . . none . TTC21B 130 . NM_024753 exon16 c.G2149A p.E717K TTCTTTCAGCAAT . PASS Atlas-SNP SEC23B 10483 hgsc.bcm.edu 37 20 18492908 18492908 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 700.0 82.0 866.0 1.0 0.117143 0.00115473 . . none . SEC23B 70 . NM_032985 exon3 c.C261T p.F87F TAATTTCTGTTTT . PASS Atlas-SNP FBRSL1 57666 hgsc.bcm.edu 37 12 133151086 133151086 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 72.0 11.0 80.0 0.0 0.152778 0 . . none . FBRSL1 47 . NM_001142641 exon12 c.G1766A p.G589E AGCCGGGGAGGTG . PASS Atlas-SNP DTX3L 151636 hgsc.bcm.edu 37 3 122288257 122288257 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 158.0 46.0 211.0 0.0 0.291139 0 . . none . DTX3L 59 . NM_138287 exon3 c.T1321A p.F441I GATGCCTTTCAAC . PASS Atlas-SNP LRRC39 127495 hgsc.bcm.edu 37 1 100623819 100623819 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 179.0 44.0 231.0 0.0 0.24581 0 . . none LRRC39,caecum,carcinoma,+1,1 LRRC39 37 1 NM_144620 exon6 c.G481T p.V161F TGTTAACAGCCAG . PASS Atlas-SNP CTNND2 1501 hgsc.bcm.edu 37 5 11364898 11364898 + Missense_Mutation SNP C C T rs148824970 bycluster;byfrequency TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 77.0 26.0 98.0 0.0 0.337662 0 C|0.999;T|0.001 0.001 strong CTNND2,NS,carcinoma,0,1 CTNND2 289 1 NM_001332 exon8 c.G1282A p.V428I GATAGACGCGGTC . PASS Atlas-SNP ZNF234 10780 hgsc.bcm.edu 37 19 44661732 44661732 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 95.0 22.0 101.0 0.0 0.231579 0 . . none . ZNF234 132 . NM_006630 exon6 c.C1563T p.F521F GGTCTTCAGTCAG . PASS Atlas-SNP ZNF490 57474 hgsc.bcm.edu 37 19 12692409 12692409 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 288.0 74.0 340.0 0.0 0.256944 0 . . none ZNF490,NS,carcinoma,0,1 ZNF490 42 1 NM_020714 exon5 c.G480A p.V160V CCCACACACACTG . PASS Atlas-SNP TGFBR3 7049 hgsc.bcm.edu 37 1 92161330 92161330 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 124.0 32.0 172.0 0.0 0.258065 0 . . none . TGFBR3 103 . NM_003243 exon16 c.T2336A p.F779Y CCATGGAAAATTG . PASS Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814162 45814162 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 142.0 43.0 146.0 0.0 0.302817 0 . . none . SLC30A4 25 . NM_013309 exon2 c.G391C p.G131R ACTCACCTACAAG . PASS Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814493 45814493 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 50.0 20.0 59.0 0.0 0.4 0 . . none . SLC30A4 25 . NM_013309 exon2 c.G60A p.P20P AAACAGCGGCGCA . PASS Atlas-SNP IQGAP3 128239 hgsc.bcm.edu 37 1 156502774 156502774 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 88.0 25.0 94.0 0.0 0.284091 0 . . none . IQGAP3 146 . NM_178229 exon32 c.G4101A p.L1367L CCACCTCAGAAGC . PASS Atlas-SNP ACTG1 71 hgsc.bcm.edu 37 17 79479257 79479257 + Splice_Site SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 97.0 10.0 100.0 0.0 0.103093 0 . . none . ACTG1 55 . NM_001199954 exon3 c.123+1G>A . CACTCACCTGGTG . PASS Atlas-SNP SON 6651 hgsc.bcm.edu 37 21 34924682 34924682 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 129.0 46.0 145.0 0.0 0.356589 0 . . none . SON 343 . NM_032195 exon3 c.A3145C p.M1049L CGCTCTATGATGT . PASS Atlas-SNP OPRK1 4986 hgsc.bcm.edu 37 8 54147398 54147398 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 85.0 20.0 83.0 0.0 0.235294 0 . . none . OPRK1 90 . NM_000912 exon3 c.C531T p.I177I ATTGATGATCTTT . PASS Atlas-SNP SIAH2 6478 hgsc.bcm.edu 37 3 150480589 150480589 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 88.0 30.0 118.0 0.0 0.340909 0 . . none . SIAH2 33 . NM_005067 exon1 c.C48T p.S16S CTGCTTGCTGCAG . PASS Atlas-SNP MYBL1 4603 hgsc.bcm.edu 37 8 67479124 67479124 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 328.0 138.0 275.0 0.0 0.420732 0 . . none . MYBL1 73 . NM_001080416 exon13 c.G1832A p.S611N TTGCAGCTTTTGT . PASS Atlas-SNP FREM1 158326 hgsc.bcm.edu 37 9 14750210 14750210 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 277.0 17.0 225.0 0.0 0.0613718 0 . . none FREM1_ENST00000380894,NS,carcinoma,0,2 FREM1 261 2 NM_144966 exon31 c.C5472A p.V1824V TTCAAAGACCTCA . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348767 11348767 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 78.0 20.0 84.0 0.0 0.25641 0 . . none . SOCS1 84 . NM_003745 exon2 c.A569G p.N190S GCCAGGTTCTCGC . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1272843 1272843 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 33.0 16.0 38.0 0.0 0.484848 0 . . none . MUC5B 473 . NM_002458 exon31 c.C14733T p.S4911S CCCCAGCAGCCTG . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 124009153 124009153 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 33.0 154.0 0.0 0.257812 0 . . none . TACC2 271 . NM_206862 exon22 c.G8755A p.A2919T GTGGACGCCCTGG . PASS Atlas-SNP TSPAN31 6302 hgsc.bcm.edu 37 12 58139640 58139640 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 162.0 80.0 170.0 0.0 0.493827 0 . . none . TSPAN31 20 . NM_005981 exon2 c.T176C p.I59T TCCTTATTGCAGT . PASS Atlas-SNP CASKIN1 57524 hgsc.bcm.edu 37 16 2239543 2239543 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 16.0 54.0 0.0 0.340426 0 . . none . CASKIN1 130 . NM_020764 exon4 c.G267A p.A89A CCAGGCCGCATAG . PASS Atlas-SNP PRDM2 7799 hgsc.bcm.edu 37 1 14105995 14105995 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 74.0 12.0 95.0 0.0 0.162162 0 . . none . PRDM2 147 . NM_015866 exon8 c.T1705C p.Y569H AATTACTATATTG . PASS Atlas-SNP UPF1 5976 hgsc.bcm.edu 37 19 18965440 18965440 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 82.0 23.0 103.0 0.0 0.280488 0 . . none . UPF1 88 . NM_002911 exon9 c.G1187A p.R396Q AGCTGCGGAGCAG . PASS Atlas-SNP TMEM135 65084 hgsc.bcm.edu 37 11 86782566 86782566 + Nonsense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 227.0 107.0 229.0 0.0 0.471366 0 . . none . TMEM135 40 . NM_022918 exon3 c.A271T p.K91X TTCAGGAAGATAC . PASS Atlas-SNP NPEPPS 9520 hgsc.bcm.edu 37 17 45699275 45699275 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 62.0 14.0 59.0 0.0 0.225806 0 . . none . NPEPPS 59 . NM_006310 exon23 c.C2749G p.P917A TCACCACCCACAG . PASS Atlas-SNP FGFR2 2263 hgsc.bcm.edu 37 10 123325112 123325112 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 146.0 47.0 185.0 0.0 0.321918 0 . . none . FGFR2 758 . NM_022970 exon3 c.G216C p.W72C CTTAGTCCAACTG . PASS Atlas-SNP CSRP2BP 57325 hgsc.bcm.edu 37 20 18131484 18131484 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 186.0 54.0 213.0 0.0 0.290323 0 . . none . CSRP2BP 80 . NM_020536 exon3 c.A398T p.Y133F CAATGTACAACTT . PASS Atlas-SNP XIRP2 129446 hgsc.bcm.edu 37 2 168106466 168106466 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 352.0 114.0 340.0 2.0 0.323864 0.00588235 . . none XIRP2,NS,carcinoma,0,1 XIRP2 914 1 NM_152381 exon9 c.A8564G p.Q2855R TCAAGCAAAAGGT . scavenged Atlas-SNP PAPD4 167153 hgsc.bcm.edu 37 5 78915498 78915498 + Silent SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 413.0 169.0 354.0 0.0 0.409201 0 . . none . PAPD4 51 . NM_173797 exon3 c.C27A p.R9R GGGTCGCCCACCC . PASS Atlas-SNP SVIL 6840 hgsc.bcm.edu 37 10 29751241 29751241 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 109.0 29.0 100.0 0.0 0.266055 0 . . none . SVIL 226 . NM_021738 exon36 c.G6367C p.E2123Q TGTGCTCCCAGCT . PASS Atlas-SNP LEKR1 389170 hgsc.bcm.edu 37 3 156742690 156742690 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 283.0 40.0 274.0 0.0 0.141343 0 . . none . LEKR1 66 . NM_001004316 exon11 c.G1345A p.E449K AAGAAAGAACAAG . PASS Atlas-SNP RBMXL3 139804 hgsc.bcm.edu 37 X 114426499 114426499 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 33.0 22.0 35.0 0.0 0.666667 0 . . none . RBMXL3 83 . NM_001145346 exon1 c.G2495T p.G832V GCGGAGGCCACTC . PASS Atlas-SNP NCKAP1 10787 hgsc.bcm.edu 37 2 183822287 183822287 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 297.0 23.0 348.0 0.0 0.0774411 0 . . none . NCKAP1 105 . NM_205842 exon20 c.C1937T p.A646V TTCACTGCTTGAC . PASS Atlas-SNP TRIO 7204 hgsc.bcm.edu 37 5 14397228 14397228 + Missense_Mutation SNP G G A rs373502206 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 118.0 11.0 126.0 0.0 0.0932203 0 . . weak . TRIO 305 . NM_007118 exon29 c.G4388A p.R1463Q CGAAGCGAGCCAA . PASS Atlas-SNP C9orf41 138199 hgsc.bcm.edu 37 9 77632226 77632226 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 157.0 45.0 161.0 0.0 0.286624 0 . . none . C9orf41 57 . NM_152420 exon2 c.A369G p.L123L GGTCAGTAGTATT . PASS Atlas-SNP FAT4 79633 hgsc.bcm.edu 37 4 126240717 126240717 + Nonsense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 148.0 23.0 164.0 0.0 0.155405 0 . . none FAT4_ENST00000394329,colon,carcinoma,0,2 FAT4 1752 2 NM_024582 exon1 c.C3151T p.Q1051X GATGGTCAATTGT . PASS Atlas-SNP SH3RF2 153769 hgsc.bcm.edu 37 5 145428733 145428733 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 101.0 23.0 101.0 0.0 0.227723 0 . . none . SH3RF2 58 . NM_152550 exon7 c.G1247C p.G416A AGGACGGCTGGCT . PASS Atlas-SNP TBCC 6903 hgsc.bcm.edu 37 6 42713452 42713452 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 41.0 13.0 39.0 0.0 0.317073 0 . . none . TBCC 31 . NM_003192 exon1 c.G360A p.L120L CGCCTGCAGCCGC . PASS Atlas-SNP UBE2J1 51465 hgsc.bcm.edu 37 6 90062277 90062277 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 48.0 16.0 52.0 0.0 0.333333 0 . . none . UBE2J1 28 . NM_016021 exon1 c.C12T p.R4R GTTGTAGCGGGTC . PASS Atlas-SNP CD83 9308 hgsc.bcm.edu 37 6 14118269 14118269 + Missense_Mutation SNP G G C rs199841901 by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 25.0 7.0 36.0 0.0 0.28 0 G|1.000;C|0.000 0.000 strong CD83,NS,lymphoid_neoplasm,0,1 CD83 23 1 NM_004233 exon2 c.G126C p.Q42H TCCGCAGGTTCCC . PASS Atlas-SNP ZFHX4 79776 hgsc.bcm.edu 37 8 77616687 77616687 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 99.0 42.0 106.0 0.0 0.424242 0 . . none ZFHX4,colon,carcinoma,-1,1 ZFHX4 878 1 NM_024721 exon2 c.A364T p.S122C GAGGACAGTGACG . PASS Atlas-SNP FASN 2194 hgsc.bcm.edu 37 17 80046669 80046669 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 51.0 19.0 76.0 0.0 0.372549 0 . . none . FASN 154 . NM_004104 exon15 c.C2388A p.F796L GGCCAGGAAGAAC . PASS Atlas-SNP CCNH 902 hgsc.bcm.edu 37 5 86708576 86708576 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 26.0 46.0 0.0 0.40625 0 . . none . CCNH 40 . NM_001239 exon1 c.C36T p.T12T GGAGAAGGTCCAG . PASS Atlas-SNP SHANK1 50944 hgsc.bcm.edu 37 19 51169477 51169477 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 49.0 14.0 66.0 1.0 0.285714 0.0151515 . . none SHANK1,caecum,carcinoma,0,1 SHANK1 210 1 NM_016148 exon22 c.G5740A p.E1914K TCCTCTCGGGGAC . scavenged Atlas-SNP VPS35 55737 hgsc.bcm.edu 37 16 46706252 46706252 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 165.0 15.0 169.0 0.0 0.0909091 0 . . none VPS35,NS,carcinoma,-2,1 VPS35 49 1 NM_018206 exon11 c.G1293A p.E431E TCTGGACTCGTAG . PASS Atlas-SNP GALNT11 63917 hgsc.bcm.edu 37 7 151818708 151818708 + Silent SNP C C T rs368113531 bycluster TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 165.0 49.0 216.0 0.0 0.29697 0 . . weak GALNT11,NS,carcinoma,0,1 GALNT11 59 1 NM_022087 exon12 c.C1773T p.V591V CTCTGTCGCCATG . PASS Atlas-SNP ST7L 54879 hgsc.bcm.edu 37 1 113126634 113126634 + Missense_Mutation SNP C C A rs200595897 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 164.0 46.0 174.0 0.0 0.280488 0 C|0.999;T|0.001 . alt . ST7L 31 . NM_138729 exon7 c.G816T p.Q272H GCACTGCTGTGAC . PASS Atlas-SNP PCBD2 84105 hgsc.bcm.edu 37 5 134296332 134296332 + Silent SNP G G A rs144454290 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 219.0 10.0 182.0 0.0 0.0456621 0 G|1.000;A|0.000 0.000 strong . PCBD2 3 . NM_032151 exon4 c.G354A p.K118K TGTGAAGCTGGCC . PASS Atlas-SNP NUP188 23511 hgsc.bcm.edu 37 9 131768932 131768932 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 51.0 14.0 59.0 0.0 0.27451 0 . . none . NUP188 140 . NM_015354 exon44 c.C5225T p.A1742V TGCAGGCGTTTGT . PASS Atlas-SNP PRRC2A 7916 hgsc.bcm.edu 37 6 31602134 31602134 + Nonsense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 27.0 123.0 0.0 0.421875 0 . . none . PRRC2A 152 . NM_004638 exon19 c.T4841G p.L1614X ACCGTTTACATAC . PASS Atlas-SNP C12orf66 144577 hgsc.bcm.edu 37 12 64587914 64587914 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 110.0 14.0 118.0 0.0 0.127273 0 . . none . C12orf66 28 . NM_152440 exon3 c.T1046A p.V349E GACACTACAGCTG . PASS Atlas-SNP EP400 57634 hgsc.bcm.edu 37 12 132498342 132498342 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 84.0 35.0 118.0 0.0 0.416667 0 . . none . EP400 370 . NM_015409 exon19 c.G3807A p.L1269L TATTTTGAGGAGA . PASS Atlas-SNP CMYA5 202333 hgsc.bcm.edu 37 5 79028813 79028813 + Nonsense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 141.0 20.0 119.0 0.0 0.141844 0 . . none CMYA5_ENST00000446378,colon,carcinoma,-1,2 CMYA5 643 2 NM_153610 exon2 c.G4225T p.E1409X GCAGATGAACATT . PASS Atlas-SNP KLHL1 57626 hgsc.bcm.edu 37 13 70681527 70681527 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 90.0 14.0 151.0 0.0 0.155556 0 . . none . KLHL1 164 . NM_020866 exon1 c.G305C p.R102T TGCAGCCTCGTGG . PASS Atlas-SNP PTGS2 5743 hgsc.bcm.edu 37 1 186648465 186648465 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 152.0 26.0 182.0 0.0 0.171053 0 . . none . PTGS2 144 . NM_000963 exon2 c.A158T p.N53I GAGCAGTTTTCTC . PASS Atlas-SNP STX16 8675 hgsc.bcm.edu 37 20 57227077 57227077 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 42.0 10.0 68.0 0.0 0.238095 0 . . none . STX16 36 . NM_001134772 exon1 c.T15C p.R5R CAGGCGTTTAACC . PASS Atlas-SNP DYRK1B 9149 hgsc.bcm.edu 37 19 40317311 40317311 + Splice_Site SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 74.0 20.0 76.0 0.0 0.27027 0 . . none . DYRK1B 114 . NM_006483 exon10 c.1291+1G>A . CACCCACCAGAAC . PASS Atlas-SNP BCL11B 64919 hgsc.bcm.edu 37 14 99641876 99641876 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 19.0 62.0 0.0 0.475 0 . . none BCL11B,NS,carcinoma,+1,1 BCL11B 108 1 NM_138576 exon4 c.G1297A p.G433S TCTTGCCGCAGAA . PASS Atlas-SNP MME 4311 hgsc.bcm.edu 37 3 154860063 154860063 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 133.0 39.0 179.0 0.0 0.293233 0 . . none . MME 133 . NM_007287 exon12 c.G1132A p.D378N ATAATGGATCTTG . PASS Atlas-SNP LY9 4063 hgsc.bcm.edu 37 1 160783595 160783595 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 58.0 11.0 59.0 0.0 0.189655 0 . . none . LY9 115 . NM_001261457 exon3 c.C624T p.T208T TCTTACCGTCTCC . PASS Atlas-SNP ZNF615 284370 hgsc.bcm.edu 37 19 52497677 52497677 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 252.0 66.0 257.0 0.0 0.261905 0 . . none . ZNF615 111 . NM_001199324 exon7 c.C685G p.Q229E TAAACTGAGACAA . PASS Atlas-SNP HOOK1 51361 hgsc.bcm.edu 37 1 60325900 60325900 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 169.0 42.0 258.0 0.0 0.248521 0 . . none . HOOK1 54 . NM_015888 exon15 c.C1432T p.R478C ATGCTTCGCTTAC . PASS Atlas-SNP ITGA10 8515 hgsc.bcm.edu 37 1 145537774 145537774 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 18.0 81.0 0.0 0.225 0 . . none . ITGA10 131 . NM_003637 exon21 c.C2612T p.S871F CCCCTTCTGCTCA . PASS Atlas-SNP TIGD1 200765 hgsc.bcm.edu 37 2 233413881 233413881 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 59.0 12.0 54.0 0.0 0.20339 0 . . none . TIGD1 17 . NM_145702 exon1 c.A712T p.I238F GGTAAATAAGCAT . PASS Atlas-SNP ACADSB 36 hgsc.bcm.edu 37 10 124810591 124810591 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 75.0 27.0 98.0 0.0 0.36 0 . . none . ACADSB 45 . NM_001609 exon9 c.G1017A p.V339V TCACGTGGCCACC . PASS Atlas-SNP MUC15 143662 hgsc.bcm.edu 37 11 26584710 26584710 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 91.0 53.0 132.0 0.0 0.582418 0 . . none MUC15,NS,carcinoma,0,1 MUC15 88 1 NM_001135091 exon4 c.C878T p.T293M GAATCCGTTTTCC . PASS Atlas-SNP PPP1R27 116729 hgsc.bcm.edu 37 17 79791648 79791648 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 54.0 17.0 60.0 0.0 0.314815 0 . . none . . . . NM_001007533 exon3 c.A422G p.Y141C TCCTTGTAGTCCG . PASS Atlas-SNP NCR1 9437 hgsc.bcm.edu 37 19 55423582 55423582 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 84.0 34.0 96.0 0.0 0.404762 0 . . none . NCR1 60 . NM_004829 exon6 c.G729A p.Q243Q ACTCCAGAAAGGT . PASS Atlas-SNP CYP27C1 339761 hgsc.bcm.edu 37 2 127957076 127957076 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 92.0 30.0 66.0 0.0 0.326087 0 . . none . CYP27C1 52 . NM_001001665 exon4 c.A428T p.Y143F ATTTGGTACTGTA . PASS Atlas-SNP TNFAIP3 7128 hgsc.bcm.edu 37 6 138202395 138202395 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 116.0 37.0 146.0 0.0 0.318966 0 . . none . TNFAIP3 340 . NM_001270507 exon9 c.G2312A p.G771D ATTTTGGCAATGC . PASS Atlas-SNP VCPIP1 80124 hgsc.bcm.edu 37 8 67577531 67577531 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 158.0 76.0 152.0 0.0 0.481013 0 . . none . VCPIP1 110 . NM_025054 exon1 c.A1663G p.I555V ACACAATAGACCC . PASS Atlas-SNP PALB2 79728 hgsc.bcm.edu 37 16 23614908 23614908 + Missense_Mutation SNP C C T rs180177137 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 94.0 18.0 112.0 0.0 0.191489 0 . . alt . PALB2 108 . NM_024675 exon13 c.G3433A p.G1145S ACTGACCGAGAAG . PASS Atlas-SNP FAM50A 9130 hgsc.bcm.edu 37 X 153674051 153674051 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 95.0 67.0 84.0 0.0 0.705263 0 . . none . FAM50A 32 . NM_004699 exon2 c.A182G p.K61R AGCTCAAGTCCAG . PASS Atlas-SNP PLEKHS1 79949 hgsc.bcm.edu 37 10 115531832 115531832 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 99.0 29.0 136.0 0.0 0.292929 0 . . none C10orf81_ENST00000369312,colon,carcinoma,0,2 PLEKHS1 19 2 NM_024889 exon8 c.G656A p.R219Q CTCCTCGAAGTGT . PASS Atlas-SNP ERBB4 2066 hgsc.bcm.edu 37 2 213403208 213403208 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 100.0 47.0 86.0 0.0 0.47 0 . . none ERBB4,NS,carcinoma,0,1 ERBB4 480 1 NM_001042599 exon1 c.C47T p.A16V CCCGCCGCCACGA . PASS Atlas-SNP ATP12A 479 hgsc.bcm.edu 37 13 25285537 25285537 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 111.0 21.0 169.0 0.0 0.189189 0 . . none . ATP12A 172 . NM_001185085 exon22 c.C3099T p.L1033L CAGGCTCTACCCT . PASS Atlas-SNP ZNF572 137209 hgsc.bcm.edu 37 8 125989683 125989683 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 115.0 56.0 77.0 0.0 0.486957 0 . . none ZNF572,parotid,carcinoma,+2,1 ZNF572 82 1 NM_152412 exon3 c.G1173A p.K391K TGGGAAGAGTTTT . PASS Atlas-SNP SLC16A13 201232 hgsc.bcm.edu 37 17 6941796 6941796 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 97.0 41.0 156.0 0.0 0.42268 0 . . none . SLC16A13 28 . NM_201566 exon3 c.C669T p.L223L TGCCCTCACCCTG . PASS Atlas-SNP STAT6 6778 hgsc.bcm.edu 37 12 57492825 57492825 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 71.0 18.0 97.0 0.0 0.253521 0 . . none . STAT6 69 . NM_001178079 exon17 c.C1928T p.P643L GTAGCTGGGACAT . PASS Atlas-SNP FAM227A 646851 hgsc.bcm.edu 37 22 38995862 38995862 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 124.0 20.0 146.0 0.0 0.16129 0 . . none . . . . NM_001013647 exon14 c.C1286T p.P429L ATCAGAGGGCTCT . PASS Atlas-SNP DOCK10 55619 hgsc.bcm.edu 37 2 225637895 225637895 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 94.0 10.0 95.0 0.0 0.106383 0 . . none . DOCK10 308 . NM_014689 exon53 c.G6183A p.L2061L TCCTTGCAGTTTG . PASS Atlas-SNP AGPAT2 10555 hgsc.bcm.edu 37 9 139568309 139568309 + Silent SNP G G A rs200288462 bycluster TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 71.0 25.0 68.0 0.0 0.352113 0 G|0.997;A|0.003 0.003 weak . AGPAT2 17 . NM_006412 exon6 c.C732T p.L244L GTCCACGAGCGCA . PASS Atlas-SNP PHF19 26147 hgsc.bcm.edu 37 9 123632173 123632173 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 57.0 9.0 69.0 0.0 0.157895 0 . . none . PHF19 47 . NM_015651 exon5 c.C415T p.L139L TGAGCAGGGGCTG . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348920 11348920 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 20.0 57.0 0.0 0.3125 0 . . none . SOCS1 84 . NM_003745 exon2 c.G416A p.G139D CGGCTGCCATCCA . PASS Atlas-SNP LINGO3 645191 hgsc.bcm.edu 37 19 2290848 2290848 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 39.0 155.0 0.0 0.304688 0 . . none . LINGO3 19 . NM_001101391 exon2 c.G928A p.E310K GCGGCTCCACCAC . PASS Atlas-SNP HIST1H2BJ 8970 hgsc.bcm.edu 37 6 27100437 27100437 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 129.0 13.0 182.0 0.0 0.100775 0 . . none . HIST1H2BJ 21 . NM_021058 exon1 c.G93A p.K31K GCTGCGCTTGCGC . PASS Atlas-SNP CNRIP1 25927 hgsc.bcm.edu 37 2 68521067 68521067 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 131.0 34.0 159.0 0.0 0.259542 0 . . none . CNRIP1 45 . NM_015463 exon3 c.C422T p.S141F ATGACAGAGAAGG . PASS Atlas-SNP INPPL1 3636 hgsc.bcm.edu 37 11 71949157 71949157 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 95.0 51.0 121.0 1.0 0.536842 0.00826446 . . none INPPL1,bladder,carcinoma,0,1 INPPL1 120 1 NM_001567 exon27 c.C3624T p.I1208I GGCCATCGGCTTG . scavenged Atlas-SNP BCL2A1 597 hgsc.bcm.edu 37 15 80263370 80263370 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 212.0 35.0 222.0 0.0 0.165094 0 . . none . BCL2A1 28 . NM_001114735 exon1 c.G92A p.S31N GTTTTGCTTGGAC . PASS Atlas-SNP KCNAB3 9196 hgsc.bcm.edu 37 17 7832622 7832622 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 68.0 28.0 59.0 0.0 0.411765 0 . . none . KCNAB3 30 . NM_004732 exon1 c.G132A p.P44P ACCCCCCGGAGGA . PASS Atlas-SNP TAC3 6866 hgsc.bcm.edu 37 12 57407443 57407443 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 38.0 19.0 38.0 0.0 0.5 0 . . none . TAC3 11 . NM_013251 exon3 c.C127T p.L43F GGTAGAGATCTGG . PASS Atlas-SNP FAM104A 84923 hgsc.bcm.edu 37 17 71228291 71228291 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 93.0 29.0 98.0 0.0 0.311828 0 . . none . FAM104A 15 . NM_032837 exon1 c.C155T p.S52F CGAAGAGAGGGAA . PASS Atlas-SNP PARD3B 117583 hgsc.bcm.edu 37 2 206041194 206041194 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 302.0 61.0 360.0 0.0 0.201987 0 . . none . PARD3B 314 . NM_205863 exon13 c.C1817T p.S606F CATTTTCCAAGCC . PASS Atlas-SNP ZNF208 7757 hgsc.bcm.edu 37 19 22155873 22155873 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 120.0 29.0 152.0 0.0 0.241667 0 . . none . ZNF208 817 . NM_007153 exon4 c.C1963A p.H655N CCTTATGTGTAGT . PASS Atlas-SNP TMEM30A 55754 hgsc.bcm.edu 37 6 75969173 75969173 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 262.0 59.0 348.0 0.0 0.225191 0 . . none . TMEM30A 40 . NM_018247 exon5 c.C575G p.S192C GGATAAGAATCAT . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187542336 187542336 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 108.0 18.0 127.0 0.0 0.166667 0 . . none . FAT1 500 . NM_005245 exon10 c.G5404C p.D1802H TTGAGTCTTTATC . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu 37 2 1653227 1653227 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 101.0 25.0 119.0 0.0 0.247525 0 . . none . PXDN 255 . NM_012293 exon17 c.C2325T p.F775F GGTGTTGAAGCCA . PASS Atlas-SNP MCF2L 23263 hgsc.bcm.edu 37 13 113724398 113724398 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 31.0 12.0 54.0 0.0 0.387097 0 . . none . MCF2L 182 . NM_001112732 exon9 c.G907A p.E303K GAAACCGAGGCTG . PASS Atlas-SNP ACTB 60 hgsc.bcm.edu 37 7 5569251 5569251 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 56.0 7.0 64.0 0.0 0.125 0 . . none . ACTB 45 . NM_001101 exon2 c.G38C p.G13A CCGGAGCCGTTGT . PASS Atlas-SNP ERBB2IP 55914 hgsc.bcm.edu 37 5 65374285 65374285 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 376.0 162.0 341.0 1.0 0.430851 0.00293255 . . none . ERBB2IP 120 . NM_001253699 exon26 c.G4187A p.G1396E AACATGGACAAGC . PASS Atlas-SNP CHD2 1106 hgsc.bcm.edu 37 15 93552523 93552523 + Nonsense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 47.0 17.0 55.0 0.0 0.361702 0 . . none . CHD2 280 . NM_001271 exon35 c.C4562G p.S1521X CCTACTCAGATCA . PASS Atlas-SNP OR2M2 391194 hgsc.bcm.edu 37 1 248343746 248343746 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 258.0 71.0 376.0 0.0 0.275194 0 . . none . OR2M2 149 . NM_001004688 exon1 c.T459C p.S153S GGGCTCTACAGAT . PASS Atlas-SNP PRDM16 63976 hgsc.bcm.edu 37 1 3321441 3321441 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 44.0 11.0 39.0 0.0 0.25 0 . . none . PRDM16 147 . NM_022114 exon7 c.C1023G p.N341K TGAAAACTGCGTG . PASS Atlas-SNP SYNPO2 171024 hgsc.bcm.edu 37 4 119978995 119978995 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 119.0 14.0 148.0 0.0 0.117647 0 . . none . SYNPO2 353 . NM_133477 exon5 c.C3692T p.A1231V ATTCTGCAATCAT . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70961044 70961044 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 358.0 100.0 460.0 0.0 0.27933 0 . . none . UACA 235 . NM_018003 exon16 c.C1979T p.S660L CTAAGTGATTTTT . PASS Atlas-SNP GPM6A 2823 hgsc.bcm.edu 37 4 176923581 176923581 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 104.0 15.0 134.0 0.0 0.144231 0 . . none . GPM6A 70 . NM_001261447 exon1 c.C161T p.A54V AGCCTCGCCCCTC . PASS Atlas-SNP MITF 4286 hgsc.bcm.edu 37 3 69915452 69915452 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 90.0 9.0 128.0 0.0 0.1 0 . . none . MITF 156 . NM_198177 exon1 c.T11C p.L4P AGGCGCTTAGAGT . PASS Atlas-SNP CCDC39 339829 hgsc.bcm.edu 37 3 180334082 180334082 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 118.0 31.0 208.0 0.0 0.262712 0 . . none . CCDC39 242 . NM_181426 exon19 c.T2656C p.S886P ATAGTGAAGTATG . PASS Atlas-SNP CNTN5 53942 hgsc.bcm.edu 37 11 100211841 100211841 + Silent SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 130.0 12.0 151.0 0.0 0.0923077 0 . . none . CNTN5 324 . NM_001243270 exon22 c.T2934A p.P978P AGCACCTAGCAAC . PASS Atlas-SNP LRRN3 54674 hgsc.bcm.edu 37 7 110763595 110763595 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 148.0 38.0 207.0 0.0 0.256757 0 . . none . LRRN3 132 . NM_018334 exon2 c.T767C p.L256P TTGCTCTTCAAAA . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110535472 110535472 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 17.0 78.0 0.0 0.2125 0 . . none . PKHD1L1 522 . NM_177531 exon76 c.T12341C p.V4114A ACTGTGTATCAGT . PASS Atlas-SNP FAM35A 54537 hgsc.bcm.edu 37 10 88939926 88939926 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 406.0 112.0 454.0 2.0 0.275862 0.00440529 . . none FAM35A,NS,carcinoma,+1,1 FAM35A 48 1 NM_019054 exon7 c.T2058G p.S686R GAAGAGTATTTTT . scavenged Atlas-SNP HHIPL2 79802 hgsc.bcm.edu 37 1 222721252 222721252 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 69.0 22.0 90.0 0.0 0.318841 0 . . none . HHIPL2 122 . NM_024746 exon1 c.C135T p.C45C ATCCAGGCACTGG . PASS Atlas-SNP IL12RB1 3594 hgsc.bcm.edu 37 19 18174694 18174694 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 43.0 12.0 43.0 0.0 0.27907 0 . . none . IL12RB1 92 . NM_005535 exon13 c.T1610A p.F537Y ATGCTGAAGCGCT . PASS Atlas-SNP KCNE1L 23630 hgsc.bcm.edu 37 X 108867913 108867913 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 50.0 36.0 38.0 0.0 0.72 0 . . none . KCNE1L 8 . NM_012282 exon1 c.G337A p.A113T CCTCGGCGTCGGC . PASS Atlas-SNP FRMPD1 22844 hgsc.bcm.edu 37 9 37745741 37745741 + Missense_Mutation SNP G G C rs62640014 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 91.0 18.0 69.0 0.0 0.197802 0 G|0.998;T|0.002 . alt FRMPD1,colon,carcinoma,-1,3 FRMPD1 237 3 NM_014907 exon16 c.G3712C p.D1238H GGGCAAGATATAG . PASS Atlas-SNP DYNC1H1 1778 hgsc.bcm.edu 37 14 102452967 102452967 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 120.0 38.0 148.0 0.0 0.316667 0 . . none . DYNC1H1 395 . NM_001376 exon8 c.C2405T p.S802F CCATTTCCCTTTT . PASS Atlas-SNP DBI 1622 hgsc.bcm.edu 37 2 120124666 120124666 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 102.0 43.0 123.0 0.0 0.421569 0 . . none . DBI 10 . NM_001178043 exon1 c.G39T p.K13N TGCGAAGGTGCAG . PASS Atlas-SNP PAK4 10298 hgsc.bcm.edu 37 19 39660292 39660292 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 18.0 88.0 0.0 0.246575 0 . . none . PAK4 40 . NM_001014832 exon2 c.G99A p.T33T GTTCACGGGGCTG . PASS Atlas-SNP ENOX1 55068 hgsc.bcm.edu 37 13 43918835 43918835 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 42.0 210.0 0.0 0.328125 0 . . none ENOX1_ENST00000261488,NS,malignant_melanoma,0,2 ENOX1 158 2 NM_017993 exon9 c.G875A p.R292Q TCCCCTCGTTCAA . PASS Atlas-SNP MYO9A 4649 hgsc.bcm.edu 37 15 72338093 72338093 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 62.0 25.0 109.0 0.0 0.403226 0 . . none . MYO9A 203 . NM_006901 exon2 c.T812G p.I271S AGAATAATCTGTT . PASS Atlas-SNP HLA-A 3105 hgsc.bcm.edu 37 6 29911109 29911109 + Silent SNP G G A rs61760917 bycluster TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 32.0 165.0 0.0 0.477612 0 . . weak HLA-A,colon,carcinoma,+2,1 HLA-A 89 1 NM_001242758 exon3 c.G408A p.G136G CCGCGGGTACCGG . PASS Atlas-SNP PHOX2B 8929 hgsc.bcm.edu 37 4 41747879 41747879 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 37.0 17.0 48.0 0.0 0.459459 0 . . none . PHOX2B 53 . NM_003924 exon3 c.C890T p.S297L TGGAGCGAAGATA . PASS Atlas-SNP OR2AK2 391191 hgsc.bcm.edu 37 1 248129487 248129487 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 167.0 27.0 215.0 0.0 0.161677 0 . . none . OR2AK2 90 . NM_001004491 exon1 c.G854A p.R285Q CTTCACGGGATAA . PASS Atlas-SNP COL5A2 1290 hgsc.bcm.edu 37 2 189916123 189916123 + Missense_Mutation SNP G G A rs199530997 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 129.0 36.0 123.0 0.0 0.27907 0 G|0.999;A|0.001 0.001 strong . COL5A2 230 . NM_000393 exon42 c.C2854T p.R952C CCACACGCCCATG . PASS Atlas-SNP FBXL20 84961 hgsc.bcm.edu 37 17 37557627 37557627 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 107.0 33.0 180.0 0.0 0.308411 0 . . none . FBXL20 36 . NM_001184906 exon1 c.A29C p.K10T CTGCTCTTGGTCA . PASS Atlas-SNP ESPL1 9700 hgsc.bcm.edu 37 12 53683328 53683328 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 58.0 25.0 60.0 0.0 0.431034 0 . . none . ESPL1 158 . NM_012291 exon22 c.C5063T p.P1688L ACTTCCCCCAGCC . PASS Atlas-SNP IFI27L2 83982 hgsc.bcm.edu 37 14 94594298 94594298 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 110.0 17.0 152.0 0.0 0.154545 0 . . none IFI27L2,NS,carcinoma,-2,1 IFI27L2 14 1 NM_032036 exon4 c.C231T p.I77I CAGGAGGATGTTG . PASS Atlas-SNP CNTNAP3B 728577 hgsc.bcm.edu 37 9 43709680 43709680 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 723.0 137.0 609.0 0.0 0.189488 0 . . none . CNTNAP3B 37 . NM_001201380 exon2 c.T116G p.L39W CTGCCTTGCCTAG . PASS Atlas-SNP ITGA2 3673 hgsc.bcm.edu 37 5 52347391 52347391 + Splice_Site SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 154.0 18.0 165.0 0.0 0.116883 0 . . none . ITGA2 211 . NM_002203 exon7 c.779+2T>A . GCAAGGTAAGTTT . PASS Atlas-SNP CPEB4 80315 hgsc.bcm.edu 37 5 173317237 173317237 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 153.0 36.0 129.0 1.0 0.235294 0.00775194 . . none CPEB4,NS,carcinoma,+2,1 CPEB4 54 1 NM_030627 exon1 c.T501C p.G167G TACTGGTTTCAGT . scavenged Atlas-SNP ZBTB8OS 339487 hgsc.bcm.edu 37 1 33116071 33116071 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 123.0 46.0 121.0 0.0 0.373984 0 . . none . ZBTB8OS 9 . NM_178547 exon1 c.C96T p.I32I GGCCTTGATCGCC . PASS Atlas-SNP STAT6 6778 hgsc.bcm.edu 37 12 57496658 57496658 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 84.0 11.0 94.0 0.0 0.130952 0 . . none . STAT6 69 . NM_001178079 exon12 c.A1259G p.N420S GCATTGTTGTCTT . PASS Atlas-SNP ATPAF1 64756 hgsc.bcm.edu 37 1 47110904 47110904 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 54.0 19.0 64.0 0.0 0.351852 0 . . none . ATPAF1 19 . NM_022745 exon7 c.G682A p.E228K AACCTTCCCTTCT . PASS Atlas-SNP BRD4 23476 hgsc.bcm.edu 37 19 15366921 15366921 + Missense_Mutation SNP G G A rs201937726 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 541.0 133.0 648.0 0.0 0.245841 0 . . weak BRD4_ENST00000263377,NS,carcinoma,+2,2 BRD4 172 2 NM_058243 exon9 c.C1705T p.P569S TAGGAGGAGGTTC . PASS Atlas-SNP ACACB 32 hgsc.bcm.edu 37 12 109616950 109616950 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 72.0 9.0 57.0 0.0 0.125 0 . . none . ACACB 330 . NM_001093 exon9 c.C1495T p.R499C CACGCCCGTCACC . PASS Atlas-SNP LRP1B 53353 hgsc.bcm.edu 37 2 141660530 141660530 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 158.0 43.0 172.0 0.0 0.272152 0 . . none LRP1B,NS,carcinoma,-1,1 LRP1B 1315 1 NM_018557 exon23 c.G3725T p.G1242V TTCCAACCTTCAT . PASS Atlas-SNP HCN2 610 hgsc.bcm.edu 37 19 608077 608077 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 49.0 16.0 63.0 0.0 0.326531 0 . . none HCN2,NS,carcinoma,+1,1 HCN2 36 1 NM_001194 exon4 c.C1332T p.T444T GCTGACCATGCTC . PASS Atlas-SNP CHST5 23563 hgsc.bcm.edu 37 16 75563924 75563924 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 78.0 32.0 83.0 0.0 0.410256 0 . . none . CHST5 47 . NM_024533 exon3 c.C359T p.S120F AAGATAGAGCGCA . PASS Atlas-SNP OGFR 11054 hgsc.bcm.edu 37 20 61443664 61443664 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 22.0 112.0 0.0 0.30137 0 . . none . OGFR 63 . NM_007346 exon7 c.G697A p.V233I CCGCTGGTCCGCT . PASS Atlas-SNP ZNF836 162962 hgsc.bcm.edu 37 19 52659320 52659320 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 164.0 55.0 215.0 0.0 0.335366 0 . . none . ZNF836 158 . NM_001102657 exon5 c.C1616T p.S539L AGGCATGAATTTT . PASS Atlas-SNP TMEM2 23670 hgsc.bcm.edu 37 9 74361164 74361164 + Missense_Mutation SNP C C T rs200303233 bycluster TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 207.0 16.0 136.0 0.0 0.0772947 0 C|0.999;T|0.001 0.001 weak . TMEM2 112 . NM_001135820 exon3 c.G425A p.R142H GTCAGACGGAGCA . PASS Atlas-SNP LRWD1 222229 hgsc.bcm.edu 37 7 102113388 102113388 + Silent SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 66.0 20.0 41.0 0.0 0.30303 0 . . none . LRWD1 41 . NM_152892 exon15 c.C1836A p.G612G CCTTGGCCAGGTG . PASS Atlas-SNP FGF16 8823 hgsc.bcm.edu 37 X 76709750 76709750 + Missense_Mutation SNP C C T rs376876932 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 130.0 81.0 95.0 0.0 0.623077 0 . . weak . FGF16 16 . NM_003868 exon1 c.C104T p.S35L ATGGGTCGGTAAG . PASS Atlas-SNP HIST1H1E 3008 hgsc.bcm.edu 37 6 26156900 26156900 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 91.0 22.0 144.0 0.0 0.241758 0 . . none HIST1H1E,NS,carcinoma,+2,1 HIST1H1E 69 1 NM_005321 exon1 c.G282A p.V94V CCTGGTGCAGACC . PASS Atlas-SNP NACA 4666 hgsc.bcm.edu 37 12 57118252 57118252 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 68.0 31.0 61.0 0.0 0.455882 0 . . none NACA_ENST00000454682,NS,carcinoma,-1,2 NACA 131 2 NM_001113202 exon2 c.G54A p.Q18Q CTGGGGCTGCGGC . PASS Atlas-SNP SLC22A9 114571 hgsc.bcm.edu 37 11 63137598 63137598 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 223.0 112.0 259.0 0.0 0.502242 0 . . none SLC22A9,NS,carcinoma,0,1 SLC22A9 77 1 NM_080866 exon1 c.C70A p.L24I GTTTTTCTCTCAA . PASS Atlas-SNP SPRY2 10253 hgsc.bcm.edu 37 13 80911241 80911241 + Silent SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 12.0 88.0 0.0 0.184615 0 . . none . SPRY2 28 . NM_005842 exon2 c.C600A p.I200I GTCGCAGATCCAG . PASS Atlas-SNP ZNF649 65251 hgsc.bcm.edu 37 19 52394595 52394595 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 273.0 76.0 316.0 0.0 0.278388 0 . . none . ZNF649 72 . NM_023074 exon5 c.G794C p.S265T CATTCACTGCACC . PASS Atlas-SNP CDK12 51755 hgsc.bcm.edu 37 17 37627743 37627743 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 166.0 60.0 212.0 0.0 0.361446 0 . . none . CDK12 161 . NM_016507 exon2 c.C1658T p.P553L TGCCACCTTTGCC . PASS Atlas-SNP SLC26A4 5172 hgsc.bcm.edu 37 7 107330631 107330631 + Silent SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 244.0 22.0 258.0 0.0 0.0901639 0 . . none . SLC26A4 117 . NM_000441 exon10 c.C1212A p.T404T GGCCACCACTGCT . PASS Atlas-SNP HSPG2 3339 hgsc.bcm.edu 37 1 22183832 22183832 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 60.0 18.0 86.0 0.0 0.3 0 . . none . HSPG2 311 . NM_005529 exon43 c.C5340T p.S1780S GCTCTGGCTCCGC . PASS Atlas-SNP FAM86A 196483 hgsc.bcm.edu 37 16 5141837 5141837 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 156.0 54.0 201.0 0.0 0.346154 0 . . none . FAM86A 32 . NM_201400 exon4 c.G300A p.L100L GGCCATCAGGGTC . PASS Atlas-SNP KRT23 25984 hgsc.bcm.edu 37 17 39092714 39092714 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 69.0 9.0 94.0 0.0 0.130435 0 . . none . KRT23 59 . NM_015515 exon2 c.A142G p.T48A GCGTGGTGAAGGA . PASS Atlas-SNP STAT1 6772 hgsc.bcm.edu 37 2 191873810 191873810 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 118.0 22.0 118.0 0.0 0.186441 0 . . none . STAT1 93 . NM_007315 exon4 c.C152T p.S51L GCAAATGAAACAT . PASS Atlas-SNP SCN9A 6335 hgsc.bcm.edu 37 2 167145040 167145040 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 199.0 44.0 242.0 0.0 0.221106 0 . . none SCN9A,colon,carcinoma,-2,1 SCN9A 296 1 NM_002977 exon10 c.A1221C p.E407D GTTCTGTTCTTCA . PASS Atlas-SNP PAPPA 5069 hgsc.bcm.edu 37 9 119097230 119097230 + Missense_Mutation SNP G G A rs138956040 bycluster TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 90.0 11.0 78.0 0.0 0.122222 0 G|1.000;A|0.000 0.000 weak . PAPPA 243 . NM_002581 exon13 c.G3488A p.R1163H CGGTACGTGTGAG . PASS Atlas-SNP HMHA1 23526 hgsc.bcm.edu 37 19 1081892 1081892 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 29.0 9.0 25.0 0.0 0.310345 0 . . none . HMHA1 78 . NM_001258328 exon19 c.G2497A p.E833K GGCAAGGAGCTGG . PASS Atlas-SNP HDAC9 9734 hgsc.bcm.edu 37 7 18674253 18674253 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 116.0 33.0 172.0 0.0 0.284483 0 . . none . HDAC9 560 . NM_178425 exon7 c.C800T p.S267F CAGAATCCTCAGT . PASS Atlas-SNP OR4N4 283694 hgsc.bcm.edu 37 15 22382649 22382649 + Silent SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 409.0 59.0 447.0 0.0 0.144254 0 . . none . OR4N4 108 . NM_001005241 exon1 c.C177G p.L59L CCCCCTCTATTTA . PASS Atlas-SNP RHBDD3 25807 hgsc.bcm.edu 37 22 29660104 29660104 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 27.0 87.0 0.0 0.369863 0 . . none . RHBDD3 17 . NM_012265 exon4 c.G252A p.L84L CGTGCCCAGGTGG . PASS Atlas-SNP CNTNAP5 129684 hgsc.bcm.edu 37 2 125530582 125530582 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 230.0 49.0 250.0 0.0 0.213043 0 . . none . CNTNAP5 405 . NM_130773 exon17 c.C2737A p.Q913K AACAGCCAGTTGT . PASS Atlas-SNP CSNK1G3 1456 hgsc.bcm.edu 37 5 122881389 122881389 + Nonsense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 184.0 30.0 159.0 0.0 0.163043 0 . . none CSNK1G3,bladder,carcinoma,0,1 CSNK1G3 42 1 NM_001270572 exon1 c.C32G p.S11X ACAAATCAGATGA . PASS Atlas-SNP OR6S1 341799 hgsc.bcm.edu 37 14 21109391 21109391 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 53.0 15.0 67.0 0.0 0.283019 0 . . none . OR6S1 49 . NM_001001968 exon1 c.G460A p.G154R CGAGTCCCCCCAC . PASS Atlas-SNP WDR24 84219 hgsc.bcm.edu 37 16 735417 735417 + Nonsense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 48.0 9.0 69.0 0.0 0.1875 0 . . none . WDR24 111 . NM_032259 exon7 c.C1859G p.S620X GCGTGTGAGACAG . PASS Atlas-SNP PPP1R36 145376 hgsc.bcm.edu 37 14 65016722 65016722 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 51.0 8.0 52.0 0.0 0.156863 0 . . none C14orf50,NS,malignant_melanoma,0,1 . . 1 NM_172365 exon1 c.C7T p.R3W ATGTACCGGGTGC . PASS Atlas-SNP ZNF425 155054 hgsc.bcm.edu 37 7 148801312 148801312 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 22.0 48.0 0.0 0.338462 0 . . none . ZNF425 99 . NM_001001661 exon4 c.G1651A p.E551K GCTCCTCGCCACT . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348807 11348807 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 59.0 18.0 58.0 0.0 0.305085 0 . . none . SOCS1 84 . NM_003745 exon2 c.C529T p.L177L GGCACAGCTCCTG . PASS Atlas-SNP OXR1 55074 hgsc.bcm.edu 37 8 107695483 107695483 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 186.0 41.0 185.0 0.0 0.22043 0 . . none . OXR1 190 . NM_001198532 exon4 c.C363T p.N121N ACCTAACGAACTT . PASS Atlas-SNP STAC 6769 hgsc.bcm.edu 37 3 36422176 36422176 + Missense_Mutation SNP G G A rs143848363 bycluster;byfrequency;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 42.0 9.0 57.0 0.0 0.214286 0 G|0.999;A|0.001 0.001 strong . STAC 78 . NM_003149 exon1 c.G41A p.G14E TGGACGGGCTGCC . PASS Atlas-SNP FLT1 2321 hgsc.bcm.edu 37 13 28886173 28886173 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 15.0 96.0 0.0 0.230769 0 . . none . FLT1 393 . NM_002019 exon26 c.T3449G p.L1150R TCCACAAGTTCTG . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186077619 186077619 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 55.0 10.0 67.0 0.0 0.181818 0 . . none . HMCN1 797 . NM_031935 exon71 c.G10879A p.E3627K ACTGATGAGCCCC . PASS Atlas-SNP POLR2B 5431 hgsc.bcm.edu 37 4 57871515 57871515 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 326.0 155.0 474.0 0.0 0.47546 0 . . none POLR2B,NS,carcinoma,0,1 POLR2B 108 1 NM_000938 exon8 c.G1004T p.R335I AGAAAAGAATTAA . PASS Atlas-SNP HGS 9146 hgsc.bcm.edu 37 17 79663744 79663744 + Silent SNP G G A rs190451033 bycluster;by1000genomes TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 14.0 39.0 0.0 0.35 0 G|1.000;A|0.000 0.000 strong . HGS 54 . NM_004712 exon17 c.G1674A p.A558A GCGCGCGCAGATG . PASS Atlas-SNP FNDC7 163479 hgsc.bcm.edu 37 1 109265194 109265194 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 113.0 33.0 127.0 0.0 0.292035 0 . . none . FNDC7 113 . NM_001144937 exon5 c.C836T p.S279L CATCTTCAGCAAT . PASS Atlas-SNP CNTNAP4 85445 hgsc.bcm.edu 37 16 76389398 76389398 + Missense_Mutation SNP A A C rs139740249 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 83.0 24.0 98.0 0.0 0.289157 0 A|1.000;G|0.000 . alt . CNTNAP4 600 . NM_138994 exon3 c.A305C p.D102A AAGAGGACAGCAT . PASS Atlas-SNP HAO1 54363 hgsc.bcm.edu 37 20 7920952 7920952 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 87.0 14.0 109.0 0.0 0.16092 0 . . none . HAO1 71 . NM_017545 exon1 c.A118C p.N40H CAATATTATCAGC . PASS Atlas-SNP NTHL1 4913 hgsc.bcm.edu 37 16 2094643 2094643 + Silent SNP G G A rs140211154 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 39.0 14.0 29.0 0.0 0.358974 0 G|1.000;A|0.000 0.000 weak . NTHL1 24 . NM_002528 exon3 c.C537T p.V179V GAAACCGACGGGG . PASS Atlas-SNP OSTM1 28962 hgsc.bcm.edu 37 6 108370472 108370472 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 130.0 20.0 147.0 0.0 0.153846 0 . . none . OSTM1 22 . NM_014028 exon5 c.C934T p.R312C GTTTGCGTTTCTT . PASS Atlas-SNP GOPC 57120 hgsc.bcm.edu 37 6 117894665 117894665 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 164.0 50.0 209.0 0.0 0.304878 0 . . none . GOPC 29 . NM_020399 exon5 c.G781T p.D261Y TCAAGTCATTACG . PASS Atlas-SNP ACTB 60 hgsc.bcm.edu 37 7 5569295 5569295 + Splice_Site SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 49.0 11.0 63.0 0.0 0.22449 0 . . none . ACTB 45 . . . . . GGTGAGCTGCGAG . PASS Atlas-SNP OR13C9 286362 hgsc.bcm.edu 37 9 107380179 107380179 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 361.0 168.0 319.0 0.0 0.465374 0 . . none . OR13C9 42 . NM_001001956 exon1 c.C307T p.L103F AGCCAAGGAACAT . PASS Atlas-SNP SETD1A 9739 hgsc.bcm.edu 37 16 30976634 30976634 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 27.0 68.0 0.0 0.421875 0 . . none . SETD1A 143 . NM_014712 exon7 c.G1571C p.R524T GGGCCAGAGATAC . PASS Atlas-SNP STRIP2 57464 hgsc.bcm.edu 37 7 129104487 129104487 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 93.0 27.0 81.0 0.0 0.290323 0 . . none . . . . NM_020704 exon16 c.G1684A p.D562N GGCATCGATGTGA . PASS Atlas-SNP ATP6V0A1 535 hgsc.bcm.edu 37 17 40666448 40666448 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 11.0 170.0 0.0 0.1375 0 . . none . ATP6V0A1 67 . NM_001130020 exon20 c.C2393T p.S798L GCCTCTCGGCCTT . PASS Atlas-SNP FAM108B1 51104 hgsc.bcm.edu 37 9 74489813 74489813 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 222.0 45.0 175.0 0.0 0.202703 0 . . none . FAM108B1 24 . NM_016014 exon2 c.G184C p.E62Q CTTTTTCTCTAGA . PASS Atlas-SNP RAB22A 57403 hgsc.bcm.edu 37 20 56929269 56929269 + Silent SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 14.0 79.0 0.0 0.191781 0 . . none . RAB22A 15 . NM_020673 exon6 c.A435G p.V145V TTTTGTAGAGACC . PASS Atlas-SNP GH1 2688 hgsc.bcm.edu 37 17 61995272 61995272 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 75.0 20.0 76.0 0.0 0.266667 0 . . none . GH1 39 . NM_000515 exon4 c.C304T p.L102F TGCGGAGCAGCTC . PASS Atlas-SNP DVL1 1855 hgsc.bcm.edu 37 1 1273785 1273785 + Silent SNP G G A rs151161721 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 21.0 72.0 0.0 0.328125 0 G|1.000;A|0.000 0.000 weak . DVL1 36 . NM_004421 exon13 c.C1296T p.H432H CTCCACGTGTGTG . PASS Atlas-SNP BACH2 60468 hgsc.bcm.edu 37 6 90660815 90660815 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 77.0 21.0 65.0 0.0 0.272727 0 . . none . BACH2 224 . NM_001170794 exon5 c.C1010T p.S337L GAGGGCGAGGCCA . PASS Atlas-SNP RPS6KA5 9252 hgsc.bcm.edu 37 14 91367011 91367011 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 42.0 13.0 92.0 0.0 0.309524 0 . . none . RPS6KA5 135 . NM_182398 exon10 c.C1189T p.H397Y CCATGTGAAACTG . PASS Atlas-SNP CORO1A 11151 hgsc.bcm.edu 37 16 30199792 30199792 + Silent SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 32.0 90.0 0.0 0.4 0 . . none . CORO1A 36 . NM_007074 exon10 c.C1176G p.L392L CTCCCTCAAGGAT . PASS Atlas-SNP SEMA7A 8482 hgsc.bcm.edu 37 15 74708989 74708989 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 163.0 44.0 176.0 0.0 0.269939 0 . . none . SEMA7A 58 . NM_003612 exon7 c.T728A p.F243Y CGGAAGAAGTAGT . PASS Atlas-SNP LRP2 4036 hgsc.bcm.edu 37 2 170101220 170101220 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 137.0 44.0 136.0 0.0 0.321168 0 . . none . LRP2 751 . NM_004525 exon22 c.C3413T p.S1138F TCATCAGATCCAT . PASS Atlas-SNP PTPRO 5800 hgsc.bcm.edu 37 12 15677869 15677869 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 83.0 32.0 98.0 0.0 0.385542 0 . . none . PTPRO 148 . NM_002848 exon11 c.T2013C p.V671V GGTGGTTGCAGAA . PASS Atlas-SNP MAP7D2 256714 hgsc.bcm.edu 37 X 20074801 20074801 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 44.0 30.0 34.0 0.0 0.681818 0 . . none . MAP7D2 165 . NM_001168466 exon4 c.G481A p.D161N CACCATCATGTCC . PASS Atlas-SNP ADAMTS9 56999 hgsc.bcm.edu 37 3 64606792 64606792 + Silent SNP C C T rs373590492 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 68.0 10.0 133.0 0.0 0.147059 0 . . weak . ADAMTS9 206 . NM_182920 exon19 c.G2811A p.L937L CCACCTCAGGTCA . PASS Atlas-SNP PCDHA4 56144 hgsc.bcm.edu 37 5 140186916 140186916 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 117.0 41.0 104.0 0.0 0.350427 0 . . none . PCDHA4 419 . NM_031500 exon1 c.C144T p.I48I CCGCATCGCGCAG . PASS Atlas-SNP LRRC30 339291 hgsc.bcm.edu 37 18 7231257 7231257 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 39.0 10.0 51.0 0.0 0.25641 0 . . none . LRRC30 68 . NM_001105581 exon1 c.C121T p.R41W GACCCGCGGTCCC . PASS Atlas-SNP AGFG1 3267 hgsc.bcm.edu 37 2 228401669 228401669 + Silent SNP T T C rs144069697 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 257.0 60.0 286.0 0.0 0.233463 0 T|1.000;G|0.000 . alt . AGFG1 80 . NM_001135187 exon11 c.T1410C p.S470S GGCATCTTCTACA . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11608409 11608409 + Missense_Mutation SNP A A C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 172.0 45.0 246.0 0.0 0.261628 0 . . none . DNAH9 695 . NM_001372 exon26 c.A5459C p.H1820P TCAAACACTGCTT . PASS Atlas-SNP GGPS1 9453 hgsc.bcm.edu 37 1 235505867 235505867 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 106.0 34.0 121.0 0.0 0.320755 0 . . none . GGPS1 23 . NM_001037277 exon4 c.C683G p.T228S AAAGCACCCAGGT . PASS Atlas-SNP AIM1 202 hgsc.bcm.edu 37 6 106968516 106968516 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 81.0 17.0 84.0 0.0 0.209877 0 . . none . AIM1 161 . NM_001624 exon2 c.G2209A p.E737K ATTCACGAAGACC . PASS Atlas-SNP ATRIP 84126 hgsc.bcm.edu 37 3 48501189 48501189 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 24.0 69.0 0.0 0.358209 0 . . none ATRIP,upper_leg,malignant_melanoma,0,1 ATRIP 41 1 NM_130384 exon7 c.C929T p.S310F CAGGTTCCATTTT . PASS Atlas-SNP CCDC41 51134 hgsc.bcm.edu 37 12 94702622 94702622 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 370.0 49.0 349.0 0.0 0.132432 0 . . none CCDC41,NS,carcinoma,0,1 CCDC41 59 1 NM_016122 exon17 c.A2073G p.K691K TAGTTGTTTTCTT . PASS Atlas-SNP C6orf62 81688 hgsc.bcm.edu 37 6 24718818 24718818 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 165.0 17.0 169.0 0.0 0.10303 0 . . none . C6orf62 18 . NM_030939 exon1 c.G79A p.A27T GGTCAGCTAGAGA . PASS Atlas-SNP CCDC129 223075 hgsc.bcm.edu 37 7 31614238 31614238 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 120.0 38.0 131.0 0.0 0.316667 0 . . none . CCDC129 127 . NM_001257968 exon7 c.C558T p.I186I AGACATCTGCATG . PASS Atlas-SNP ZNF454 285676 hgsc.bcm.edu 37 5 178373943 178373943 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 136.0 58.0 144.0 0.0 0.426471 0 . . none . ZNF454 99 . NM_001178089 exon4 c.G206A p.R69K AAAAAAGGGAAGT . PASS Atlas-SNP ARID5B 84159 hgsc.bcm.edu 37 10 63662068 63662068 + Nonsense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 117.0 18.0 123.0 0.0 0.153846 0 . . none . ARID5B 125 . NM_032199 exon2 c.C172T p.Q58X GAGCTCCAGCTGT . PASS Atlas-SNP KCNJ8 3764 hgsc.bcm.edu 37 12 21926491 21926491 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 15.0 72.0 0.0 0.205479 0 . . none . KCNJ8 59 . NM_004982 exon2 c.G60C p.E20D CAGGTTCTCTGCG . PASS Atlas-SNP SLC30A4 7782 hgsc.bcm.edu 37 15 45814228 45814228 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 153.0 32.0 163.0 0.0 0.20915 0 . . none . SLC30A4 25 . NM_013309 exon2 c.A325G p.K109E TCACCTTTCTCTG . PASS Atlas-SNP C9orf24 84688 hgsc.bcm.edu 37 9 34379662 34379662 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 30.0 96.0 0.0 0.234375 0 . . none . C9orf24 15 . NM_001252195 exon4 c.A371T p.Y124F TATGGGTAGTATG . PASS Atlas-SNP MESDC2 23184 hgsc.bcm.edu 37 15 81271791 81271791 + Silent SNP G G A rs372944817 TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 42.0 12.0 63.0 0.0 0.285714 0 . . weak . MESDC2 23 . NM_015154 exon3 c.C474T p.I158I CATGAAGATAGCA . PASS Atlas-SNP HPSE2 60495 hgsc.bcm.edu 37 10 100249925 100249925 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 85.0 26.0 98.0 0.0 0.305882 0 . . none . HPSE2 203 . NM_001166246 exon10 c.G1349A p.R450H ATCAGGCGCTTGT . PASS Atlas-SNP TGIF2 60436 hgsc.bcm.edu 37 20 35219312 35219312 + Splice_Site SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 84.0 19.0 100.0 0.0 0.22619 0 . . none . TGIF2 26 . NM_001199513 exon3 c.193-1G>T . ATTCCAGATATGT . PASS Atlas-SNP BRD2 6046 hgsc.bcm.edu 37 6 32948431 32948431 + Nonsense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 56.0 17.0 80.0 0.0 0.303571 0 . . none . BRD2 70 . NM_001199455 exon13 c.C2447G p.S816X CCAGCTCAGATTC . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144942991 144942991 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 37.0 20.0 29.0 0.0 0.540541 0 . . none . EPPK1 199 . NM_031308 exon1 c.C4431T p.Y1477Y GCCAACGTATTCG . PASS Atlas-SNP RIN2 54453 hgsc.bcm.edu 37 20 19977369 19977369 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 118.0 34.0 155.0 0.0 0.288136 0 . . none . RIN2 126 . NM_001242581 exon11 c.G2394T p.K798N GATAAAGAATTTC . PASS Atlas-SNP C19orf26 255057 hgsc.bcm.edu 37 19 1235089 1235089 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 91.0 21.0 94.0 0.0 0.230769 0 . . none . C19orf26 31 . NM_152769 exon5 c.C366A p.F122L GGACAGGAAGCGT . PASS Atlas-SNP SLC37A3 84255 hgsc.bcm.edu 37 7 140045717 140045717 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 106.0 29.0 90.0 0.0 0.273585 0 . . none . SLC37A3 80 . NM_207113 exon11 c.C1078T p.L360F GGGCAAGAACCGG . PASS Atlas-SNP ZNF708 7562 hgsc.bcm.edu 37 19 21477477 21477477 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 182.0 42.0 215.0 0.0 0.230769 0 . . none . ZNF708 66 . NM_021269 exon4 c.A291C p.Q97H TATCACTTGTTGG . PASS Atlas-SNP ASH2L 9070 hgsc.bcm.edu 37 8 37963905 37963905 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 130.0 16.0 213.0 0.0 0.123077 0 . . none . ASH2L 62 . NM_004674 exon2 c.C198G p.N66K GGCAAACTTGGTC . PASS Atlas-SNP TRANK1 9881 hgsc.bcm.edu 37 3 36896835 36896835 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 111.0 43.0 164.0 0.0 0.387387 0 . . none . TRANK1 398 . NM_014831 exon12 c.A4246T p.M1416L GGAACATAGAGTT . PASS Atlas-SNP ZNF234 10780 hgsc.bcm.edu 37 19 44661323 44661323 + Missense_Mutation SNP C C T rs191045580 bycluster;by1000genomes;alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 119.0 27.0 105.0 0.0 0.226891 0 C|0.999;A|0.001 . alt . ZNF234 132 . NM_006630 exon6 c.C1154T p.S385L ACAGTTCAAGTTT . PASS Atlas-SNP SI 6476 hgsc.bcm.edu 37 3 164733862 164733862 + Missense_Mutation SNP G G T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 95.0 26.0 152.0 0.0 0.273684 0 . . none SI,NS,carcinoma,0,1 SI 500 1 NM_001041 exon32 c.C3766A p.Q1256K TGTACTGAACATC . PASS Atlas-SNP PRR23A 729627 hgsc.bcm.edu 37 3 138724565 138724565 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 130.0 17.0 128.0 0.0 0.130769 0 . . none . PRR23A 35 . NM_001134659 exon1 c.C546T p.S182S TCTGGCGGAGGAG . PASS Atlas-SNP LRRTM1 347730 hgsc.bcm.edu 37 2 80529910 80529910 + Silent SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 60.0 21.0 75.0 0.0 0.35 0 . . none . LRRTM1 251 . NM_178839 exon2 c.G1035T p.P345P GTACTCCGGGCTG . PASS Atlas-SNP SHMT1 6470 hgsc.bcm.edu 37 17 18259246 18259246 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 70.0 10.0 91.0 0.0 0.142857 0 . . none . SHMT1 36 . NM_148918 exon2 c.C50T p.S17L TCATGTGAGGACC . PASS Atlas-SNP IRF8 3394 hgsc.bcm.edu 37 16 85942692 85942692 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 90.0 33.0 113.0 0.0 0.366667 0 . . none . IRF8 65 . NM_002163 exon3 c.G271A p.D91N AGCCCAGATTTTG . PASS Atlas-SNP C16orf58 64755 hgsc.bcm.edu 37 16 31502228 31502228 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 55.0 15.0 64.0 1.0 0.272727 0.015625 . . none C16orf58,NS,carcinoma,0,1 C16orf58 28 1 NM_022744 exon13 c.G1335T p.G445G CTTCTCGGTCTTC . scavenged Atlas-SNP HERC4 26091 hgsc.bcm.edu 37 10 69695935 69695935 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 188.0 49.0 267.0 0.0 0.260638 0 . . none . HERC4 78 . NM_022079 exon23 c.G2653C p.D885H CTGTGTCTGCACC . PASS Atlas-SNP SMARCA4 6597 hgsc.bcm.edu 37 19 11134230 11134230 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 50.0 10.0 45.0 0.0 0.2 0 . . none SMARCA4_ENST00000358026,caecum,carcinoma,-1,7 SMARCA4 502 7 NM_003072 exon20 c.C2896T p.R966W ATCATCCGGCGTC . PASS Atlas-SNP NCAM2 4685 hgsc.bcm.edu 37 21 22710786 22710786 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 156.0 39.0 163.0 0.0 0.25 0 . . none . NCAM2 220 . NM_004540 exon8 c.G976A p.G326R GCGGAAGGGGAGC . PASS Atlas-SNP TPO 7173 hgsc.bcm.edu 37 2 1440080 1440080 + Missense_Mutation SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 107.0 34.0 150.0 0.0 0.317757 0 . . none . TPO 224 . NM_175719 exon5 c.T406C p.Y136H CTCCCTTACATGC . PASS Atlas-SNP NFATC2 4773 hgsc.bcm.edu 37 20 50048903 50048903 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 65.0 22.0 112.0 0.0 0.338462 0 . . none NFATC2,NS,carcinoma,0,2 NFATC2 112 2 NM_012340 exon9 c.C2423T p.S808L ACAGGCGAGGCCT . PASS Atlas-SNP MIB2 142678 hgsc.bcm.edu 37 1 1565043 1565043 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 139.0 16.0 148.0 0.0 0.115108 0 . . none MIB2,NS,carcinoma,-1,1 MIB2 62 1 NM_080875 exon19 c.G2933A p.C978Y AGAAGTGCATCAG . PASS Atlas-SNP ASCC3 10973 hgsc.bcm.edu 37 6 101037846 101037846 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 171.0 31.0 255.0 0.0 0.181287 0 . . none . ASCC3 205 . NM_006828 exon35 c.C5393T p.S1798F CAGTAGGAAAGTT . PASS Atlas-SNP ALPPL2 251 hgsc.bcm.edu 37 2 233272600 233272600 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 87.0 24.0 85.0 0.0 0.275862 0 . . none . ALPPL2 36 . NM_031313 exon5 c.C521T p.S174L ATGCCTCGCCAGC . PASS Atlas-SNP TNFAIP3 7128 hgsc.bcm.edu 37 6 138200319 138200319 + Nonsense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 40.0 11.0 53.0 0.0 0.275 0 . . none . TNFAIP3 340 . NM_001270507 exon7 c.C1737A p.C579X TTCTTGCCACAGA . PASS Atlas-SNP CNOT2 4848 hgsc.bcm.edu 37 12 70724111 70724111 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 163.0 64.0 168.0 0.0 0.392638 0 . . none CNOT2,colon,carcinoma,-1,1 CNOT2 53 1 NM_001199302 exon7 c.A431G p.Q144R ACTCCCAGGTTGG . PASS Atlas-SNP FSIP2 401024 hgsc.bcm.edu 37 2 186671505 186671505 + Silent SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 201.0 57.0 249.0 0.0 0.283582 0 . . none FSIP2_ENST00000343098,NS,carcinoma,+2,2 FSIP2 251 2 NM_173651 exon17 c.C17739G p.L5913L CAAACTCTATGAC . PASS Atlas-SNP NCKAP1 10787 hgsc.bcm.edu 37 2 183866768 183866768 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 237.0 51.0 238.0 0.0 0.21519 0 . . none . NCKAP1 105 . NM_205842 exon7 c.C534T p.D178D TTCTCTGTCACTT . PASS Atlas-SNP TBC1D9 23158 hgsc.bcm.edu 37 4 141560570 141560570 + Missense_Mutation SNP T T G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 114.0 45.0 116.0 0.0 0.394737 0 . . none . TBC1D9 198 . NM_015130 exon14 c.A2350C p.I784L CCCGGATAGTTCC . PASS Atlas-SNP SOCS1 8651 hgsc.bcm.edu 37 16 11348889 11348889 + Missense_Mutation SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 67.0 20.0 62.0 0.0 0.298507 0 . . none . SOCS1 84 . NM_003745 exon2 c.G447C p.E149D CAGCAGCTCGAAG . PASS Atlas-SNP BRCA1 672 hgsc.bcm.edu 37 17 41245531 41245531 + Missense_Mutation SNP C C T rs80357391 alternate_allele TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 223.0 40.0 323.0 0.0 0.179372 0 . . alt BRCA1,NS,carcinoma,0,1 BRCA1 304 1 NM_007300 exon10 c.G2017A p.E673K CAGGTTCTTTACC . PASS Atlas-SNP PCDH15 65217 hgsc.bcm.edu 37 10 55943228 55943228 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 128.0 32.0 144.0 0.0 0.25 0 . . none . PCDH15 1715 . NM_001142763 exon14 c.G1581A p.M527I AGGTCTCATGTCT . PASS Atlas-SNP ATR 545 hgsc.bcm.edu 37 3 142286975 142286975 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 452.0 49.0 639.0 0.0 0.108407 0 . . none ATR,NS,carcinoma,-1,1 ATR 285 1 NM_001184 exon2 c.T81A p.N27K AACTGTATTATAT . PASS Atlas-SNP C1QTNF1 114897 hgsc.bcm.edu 37 17 77043849 77043849 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 60.0 24.0 80.0 0.0 0.4 0 . . none . C1QTNF1 62 . NM_030968 exon4 c.C525T p.Y175Y CCTCTACGACCAC . PASS Atlas-SNP NPR2 4882 hgsc.bcm.edu 37 9 35792654 35792654 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 134.0 36.0 86.0 0.0 0.268657 0 . . none . NPR2 162 . NM_003995 exon1 c.C249A p.S83R GCTGAGCGCTGTG . PASS Atlas-SNP ZKSCAN7 55888 hgsc.bcm.edu 37 3 44612048 44612048 + Silent SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 88.0 23.0 108.0 0.0 0.261364 0 . . none . . . . NM_018651 exon6 c.C1446G p.L482L CCGACTCACTGAC . PASS Atlas-SNP BCL9L 283149 hgsc.bcm.edu 37 11 118780644 118780644 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 63.0 29.0 46.0 0.0 0.460317 0 . . none . BCL9L 254 . NM_182557 exon1 c.G5A p.R2K AGGATCCTCATGG . PASS Atlas-SNP PDHA1 5160 hgsc.bcm.edu 37 X 19369482 19369482 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 273.0 181.0 245.0 0.0 0.663004 0 . . none . PDHA1 85 . NM_001173454 exon5 c.C489T p.F163F TACTTTCACCCGG . PASS Atlas-SNP HIST1H2AK 8330 hgsc.bcm.edu 37 6 27805994 27805994 + Nonsense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 120.0 38.0 114.0 0.0 0.316667 0 . . none HIST1H2AK,bladder,carcinoma,0,1 HIST1H2AK 28 1 NM_003510 exon1 c.G124T p.E42X CCCGCTCAGCGTA . PASS Atlas-SNP CHRM3 1131 hgsc.bcm.edu 37 1 240071401 240071401 + Missense_Mutation SNP C C A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 160.0 22.0 208.0 0.0 0.1375 0 . . none CHRM3,NS,malignant_melanoma,0,2 CHRM3 118 2 NM_000740 exon5 c.C650A p.P217H CTGTGCCTCCGGG . PASS Atlas-SNP NSDHL 50814 hgsc.bcm.edu 37 X 152034408 152034408 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 43.0 27.0 25.0 0.0 0.627907 0 . . none . NSDHL 33 . NM_015922 exon6 c.G589A p.A197T ACCACAGCCATCC . PASS Atlas-SNP CCDC88B 283234 hgsc.bcm.edu 37 11 64121559 64121559 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 73.0 38.0 79.0 0.0 0.520548 0 . . none . CCDC88B 89 . NM_032251 exon24 c.G4016A p.G1339E GCCTGGGGGCCGA . PASS Atlas-SNP PHLPP2 23035 hgsc.bcm.edu 37 16 71683436 71683436 + Nonsense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 64.0 15.0 72.0 0.0 0.234375 0 . . none . PHLPP2 96 . NM_015020 exon18 c.T3329A p.L1110X GGAAGCAAGGCAG . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187524408 187524408 + Missense_Mutation SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 151.0 66.0 176.0 0.0 0.437086 0 . . none . FAT1 500 . NM_005245 exon19 c.G11272A p.V3758M ACATCACACTTTC . PASS Atlas-SNP CSRP2BP 57325 hgsc.bcm.edu 37 20 18131517 18131517 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 186.0 55.0 209.0 0.0 0.295699 0 . . none . CSRP2BP 80 . NM_020536 exon3 c.G431C p.G144A GTCAAGGTTATTT . PASS Atlas-SNP EBNA1BP2 10969 hgsc.bcm.edu 37 1 43637173 43637173 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 125.0 37.0 145.0 0.0 0.296 0 . . none . EBNA1BP2 37 . NM_001159936 exon4 c.C465T p.D155D GAAGTCGTCTTCT . PASS Atlas-SNP TBC1D10C 374403 hgsc.bcm.edu 37 11 67176563 67176563 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 149.0 68.0 172.0 0.0 0.456376 0 . . none . TBC1D10C 42 . NM_198517 exon9 c.A952G p.I318V CGAGCCATCCCCC . PASS Atlas-SNP ZIM3 114026 hgsc.bcm.edu 37 19 57646662 57646662 + Missense_Mutation SNP G G C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 285.0 79.0 322.0 0.0 0.277193 0 . . none . ZIM3 107 . NM_052882 exon5 c.C1043G p.S348C ACATTGGATTTCT . PASS Atlas-SNP PLCL1 5334 hgsc.bcm.edu 37 2 198950643 198950643 + Missense_Mutation SNP A A T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 306.0 78.0 301.0 0.0 0.254902 0 . . none . PLCL1 358 . NM_006226 exon2 c.A2402T p.D801V TGGATGATGACTA . PASS Atlas-SNP CD79A 973 hgsc.bcm.edu 37 19 42381447 42381447 + Missense_Mutation SNP T T A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 87.0 19.0 93.0 0.0 0.218391 0 . . none . CD79A 25 . NM_021601 exon1 c.T73A p.Y25N GCTGTCTACCTGG . PASS Atlas-SNP ZNF189 7743 hgsc.bcm.edu 37 9 104170419 104170419 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 165.0 12.0 178.0 0.0 0.0727273 0 . . none . ZNF189 79 . NM_003452 exon3 c.G369A p.L123L ATCTTTGACCCAG . PASS Atlas-SNP SORCS1 114815 hgsc.bcm.edu 37 10 108389123 108389123 + Silent SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 63.0 18.0 63.0 0.0 0.285714 0 . . none . SORCS1 534 . NM_001206572 exon19 c.C2499T p.I833I CACTTGGATGAGT . PASS Atlas-SNP NEURL1B 54492 hgsc.bcm.edu 37 5 172113904 172113904 + Silent SNP C C T novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 80.0 29.0 75.0 0.0 0.3625 0 . . none . NEURL1B 22 . NM_001142651 exon5 c.C1644T p.D548D CAAGGACGTCATT . PASS Atlas-SNP OXCT1 5019 hgsc.bcm.edu 37 5 41870421 41870421 + Missense_Mutation SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 85.0 21.0 73.0 0.0 0.247059 0 . . none . OXCT1 54 . NM_000436 exon1 c.T40C p.C14R AGGCGCAGAGCCG . PASS Atlas-SNP CUBN 8029 hgsc.bcm.edu 37 10 16967409 16967409 + Silent SNP A A G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 193.0 26.0 245.0 1.0 0.134715 0.00408163 . . none CUBN,NS,carcinoma,0,1 CUBN 515 1 NM_001081 exon43 c.T6477C p.P2159P GATATCAGGACCA . scavenged Atlas-SNP SLC25A13 10165 hgsc.bcm.edu 37 7 95864216 95864216 + Nonsense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 52.0 15.0 55.0 0.0 0.288462 0 . . none . SLC25A13 131 . NM_001160210 exon4 c.C226T p.Q76X ATTCTTGAAAAGA . PASS Atlas-SNP CHST6 4166 hgsc.bcm.edu 37 16 75512714 75512714 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 72.0 25.0 85.0 0.0 0.347222 0 . . none . CHST6 57 . NM_021615 exon3 c.C1013T p.P338L GCAAAGGGCAGCG . PASS Atlas-SNP YLPM1 56252 hgsc.bcm.edu 37 14 75248627 75248627 + Silent SNP T T C novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 144.0 24.0 191.0 0.0 0.166667 0 . . none . YLPM1 298 . NM_019589 exon4 c.T1881C p.A627A TTCAGCTACACCT . PASS Atlas-SNP EIF3F 8665 hgsc.bcm.edu 37 11 8016899 8016899 + Silent SNP C C G novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 81.0 45.0 100.0 0.0 0.555556 0 . . none . EIF3F 23 . NM_003754 exon7 c.C981G p.L327L CATGCTCAACAGC . PASS Atlas-SNP DDX3X 1654 hgsc.bcm.edu 37 X 41206603 41206603 + Missense_Mutation SNP G G A novel TCGA-GS-A9TZ-01A-11D-A38X-10 TCGA-GS-A9TZ-10A-01D-A38X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 93217755-b79d-4e32-8e97-76bcd262bae8 96fefcbd-9bc5-4473-be47-0f4c19aa6e57 126.0 83.0 101.0 0.0 0.65873 0 . . none . DDX3X 138 . NM_001356 exon16 c.G1808A p.R603Q ACTACCGACAAAG . PASS Atlas-SNP