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 GPR25 2848 hgsc.bcm.edu 37 1 200843152 200843178 + In_Frame_Del DEL GGCGCGAAGGATCAGCTCAGCCTCCTC GGCGCGAAGGATCAGCTCAGCCTCCTC - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 GGCGCGAAGGATCAGCTCAGCCTCCTC GGCGCGAAGGATCAGCTCAGCCTCCTC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 99.0 15.0 100.0 0.0 0.151515 0 . . none . GPR25 23 . NM_005298 exon1 c.986_1012del p.329_338del . . PASS Atlas-Indel HIST1H1C 3006 hgsc.bcm.edu 37 6 26056512 26056513 + Frame_Shift_Ins INS - - CA novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 73.0 12.0 76.0 0.0 0.164384 0 . . none . HIST1H1C 80 . NM_005319 exon1 c.145_146insTG p.A49fs . . PASS Atlas-Indel CUBN 8029 hgsc.bcm.edu 37 10 16883024 16883024 + Frame_Shift_Del DEL T T - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 75.0 10.0 73.0 0.0 0.133333 0 . . none . CUBN 515 . NM_001081 exon61 c.9687delT p.N3229fs . . PASS Atlas-Indel PCDH1 5097 hgsc.bcm.edu 37 5 141248200 141248200 + Frame_Shift_Del DEL C C - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 10.0 84.0 0.0 0.161 . . . none . PCDH1 119 . NM_032420 exon2 c.838delT p.F280fs . . PASS Pindel,Atlas-Indel SLC16A7 9194 hgsc.bcm.edu 37 12 60168856 60168856 + Frame_Shift_Del DEL T T - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 137.0 23.0 130.0 0.0 0.168 . . . none SLC16A7,NS,carcinoma,-1,1 SLC16A7 82 1 NM_001270623 exon5 c.779delG p.G260fs . . PASS Pindel,Atlas-Indel MAZ 4150 hgsc.bcm.edu 37 16 29819056 29819064 + In_Frame_Del DEL AGCGCAAGG AGCGCAAGG - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 AGCGCAAGG AGCGCAAGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 74.0 13.0 82.0 0.0 0.175676 0 . . none . MAZ 48 . NM_002383 exon2 c.949_957del p.317_319del . . PASS Atlas-Indel PLEKHD1 400224 hgsc.bcm.edu 37 14 69966878 69966879 + Frame_Shift_Ins INS - - AAAA novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 66.0 12.0 61.0 0.0 0.181818 0 . . none . PLEKHD1 24 . NM_001161498 exon2 c.196_197insAAAA p.E66fs . . PASS Atlas-Indel RTCA 8634 hgsc.bcm.edu 37 1 100731979 100731985 + Splice_Site DEL GAGTACA GAGTACA - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 GAGTACA GAGTACA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 105.0 12.0 98.0 0.0 0.114286 0 . . none . . . . . . . . . . PASS Atlas-Indel HIST1H3F 8968 hgsc.bcm.edu 37 6 26250470 26250480 + Frame_Shift_Del DEL GCATGATAGTC GCATGATAGTC - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 GCATGATAGTC GCATGATAGTC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 69.0 14.0 94.0 0.0 0.203 . . . none . HIST1H3F 16 . NM_021018 exon1 c.355_365del p.119_122del . . PASS Pindel,Atlas-Indel KRTAP5-3 387266 hgsc.bcm.edu 37 11 1629430 1629431 + Frame_Shift_Ins INS - - C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 136.0 25.0 199.0 0.0 0.183824 0 . . none . KRTAP5-3 33 . NM_001012708 exon1 c.186_187insG p.G62fs . . PASS Atlas-Indel DSPP 1834 hgsc.bcm.edu 37 4 88537205 88537213 + In_Frame_Del DEL GACAGCAGT GACAGCAGT - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 GACAGCAGT GACAGCAGT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 87.0 77.0 71.0 0.0 0.885057 0 . . none . DSPP 174 . NM_014208 exon5 c.3390_3398del p.1130_1133del . . PASS Atlas-Indel CRIP1 1396 hgsc.bcm.edu 37 14 105954680 105954681 + Frame_Shift_Del DEL CC CC - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 CC CC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 101.0 15.0 136.0 0.0 0.148515 0 . . none . CRIP1 1 . NM_001311 exon4 c.147_148del p.49_50del . . PASS Atlas-Indel EHD1 10938 hgsc.bcm.edu 37 11 64645661 64645661 + Frame_Shift_Del DEL G G - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 67.0 12.0 82.0 0.0 0.179104 0 . . none . EHD1 31 . NM_006795 exon1 c.277delA p.T93fs . . PASS Atlas-Indel HIST1H4E 8367 hgsc.bcm.edu 37 6 26204831 26204967 + Frame_Shift_Del DEL GTTTTTCAGATTTTTGCGGCTATTTTCGTTGGTGTGTTGGTCATGTCTGGTCGCGGCAAAGGCGGAAAGGGACTGGGTAAAGGAGGCGCTAAGCGTCACCGTAAGGTCCTGCGAGATAACATCCAGGGCATTACCAA GTTTTTCAGATTTTTGCGGCTATTTTCGTTGGTGTGTTGGTCATGTCTGGTCGCGGCAAAGGCGGAAAGGGACTGGGTAAAGGAGGCGCTAAGCGTCACCGTAAGGTCCTGCGAGATAACATCCAGGGCATTACCAA - novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 GTTTTTCAGATTTTTGCGGCTATTTTCGTTGGTGTGTTGGTCATGTCTGGTCGCGGCAAAGGCGGAAAGGGACTGGGTAAAGGAGGCGCTAAGCGTCACCGTAAGGTCCTGCGAGATAACATCCAGGGCATTACCAA GTTTTTCAGATTTTTGCGGCTATTTTCGTTGGTGTGTTGGTCATGTCTGGTCGCGGCAAAGGCGGAAAGGGACTGGGTAAAGGAGGCGCTAAGCGTCACCGTAAGGTCCTGCGAGATAACATCCAGGGCATTACCAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 56.0 12.0 69.0 0.0 0.214 . . . none . HIST1H4E 22 . NM_003545 wholegene . . . . PASS Pindel LPHN2 23266 hgsc.bcm.edu 37 1 82415874 82415874 + Silent SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 120.0 27.0 116.0 0.0 0.225 0 . . none . LPHN2 464 . NM_012302 exon6 c.G1200T p.V400V CATAGTGCCTACC . PASS Atlas-SNP ANKS6 203286 hgsc.bcm.edu 37 9 101518730 101518730 + Silent SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 42.0 6.0 69.0 0.0 0.142857 0 . . none . ANKS6 59 . NM_173551 exon12 c.C2298A p.G766G GCTGGAGCCCCCA . PASS Atlas-SNP OSBPL10 114884 hgsc.bcm.edu 37 3 32022446 32022446 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 50.0 6.0 43.0 0.0 0.12 0 . . none . OSBPL10 160 . NM_017784 exon1 c.G226A p.A76T CGAGCGCCGGCTC . PASS Atlas-SNP SLC12A6 9990 hgsc.bcm.edu 37 15 34628685 34628685 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 76.0 11.0 93.0 0.0 0.144737 0 . . none . SLC12A6 205 . NM_133647 exon1 c.C197T p.A66V GTGGTGGCCCCAG . PASS Atlas-SNP LIMD1 8994 hgsc.bcm.edu 37 3 45636656 45636656 + Silent SNP C C T rs143647674 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 29.0 6.0 39.0 0.0 0.206897 0 C|1.000;G|0.000 . alt . LIMD1 34 . NM_014240 exon1 c.C285T p.S95S GGGCAGCAAGCTG . PASS Atlas-SNP ALX3 257 hgsc.bcm.edu 37 1 110607400 110607400 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 119.0 26.0 150.0 0.0 0.218487 0 . . none . ALX3 16 . NM_006492 exon2 c.C403T p.P135S AAAGAGGAAGATG . PASS Atlas-SNP NFKB2 4791 hgsc.bcm.edu 37 10 104157819 104157819 + Missense_Mutation SNP T T A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 114.0 16.0 143.0 0.0 0.140351 0 . . none . NFKB2 48 . NM_001077494 exon9 c.T743A p.L248Q TTTATCTGCTTTG . PASS Atlas-SNP ABCA10 10349 hgsc.bcm.edu 37 17 67178333 67178333 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 256.0 48.0 302.0 0.0 0.1875 0 . . none . ABCA10 209 . NM_080282 exon23 c.C2730A p.F910L CTCCGTGAAGTTA . PASS Atlas-SNP FAM179B 23116 hgsc.bcm.edu 37 14 45433254 45433254 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 58.0 9.0 85.0 0.0 0.155172 0 . . none . FAM179B 115 . NM_015091 exon1 c.G1630A p.G544S GGCTCAGGTAAAA . PASS Atlas-SNP CAMSAP3 57662 hgsc.bcm.edu 37 19 7670117 7670117 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 69.0 4.0 83.0 0.0 0.057971 0 . . none KIAA1543,rectum,carcinoma,-2,4 CAMSAP3 131 4 NM_020902 exon2 c.G154T p.V52L GAGCACGTGCCCC . PASS Atlas-SNP SRRM5 100170229 hgsc.bcm.edu 37 19 44118178 44118178 + Silent SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 40.0 8.0 55.0 0.0 0.2 0 . . none . SRRM5 38 . NM_001145641 exon1 c.T1905C p.S635S AACCTCTAGCAAG . PASS Atlas-SNP HLA-C 3107 hgsc.bcm.edu 37 6 31239047 31239047 + Missense_Mutation SNP G G A rs281860470 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 150.0 23.0 133.0 0.0 0.153333 0 . . weak . HLA-C 92 . NM_002117 exon3 c.C422T p.A141V TCGTAGGCGGACT . PASS Atlas-SNP PCDH15 65217 hgsc.bcm.edu 37 10 55698632 55698632 + Nonsense_Mutation SNP G G A rs202033121 bycluster TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 43.0 10.0 44.0 0.0 0.232558 0 . . weak PCDH15_ENST00000417177,NS,malignant_melanoma,0,8 PCDH15 1715 8 NM_001142763 exon26 c.C3331T p.R1111X GGACTCGAAGTAC . PASS Atlas-SNP HIST1H2AG 8969 hgsc.bcm.edu 37 6 27100963 27100963 + Missense_Mutation SNP G G A rs201426448 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 111.0 21.0 95.0 0.0 0.189189 0 G|0.999;A|0.001 0.001 weak . HIST1H2AG 37 . NM_021064 exon1 c.G113A p.G38D GCAAAGGCAACTA . PASS Atlas-SNP PRMT10 90826 hgsc.bcm.edu 37 4 148594981 148594981 + Missense_Mutation SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 108.0 21.0 102.0 0.0 0.194444 0 . . none . PRMT10 68 . NM_138364 exon3 c.T383G p.V128G AGCTTCACTGCTT . PASS Atlas-SNP CCND2 894 hgsc.bcm.edu 37 12 4383364 4383364 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 177.0 26.0 194.0 0.0 0.146893 0 . . none . CCND2 50 . NM_001759 exon1 c.C158T p.P53L TCCAACCCTACAT . PASS Atlas-SNP SPTLC3 55304 hgsc.bcm.edu 37 20 13107302 13107302 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 82.0 17.0 83.0 0.0 0.207317 0 . . none . SPTLC3 78 . NM_018327 exon9 c.C1217T p.P406L GCCCACCGATAGC . PASS Atlas-SNP ANKS1A 23294 hgsc.bcm.edu 37 6 34857318 34857318 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 12.0 10.0 6.0 0.0 0.833333 0 . . none ANKS1A,NS,carcinoma,0,1 ANKS1A 123 1 NM_015245 exon1 c.A139G p.S47G GGCGGCAGCGGCG . scavenged Atlas-SNP IRF4 3662 hgsc.bcm.edu 37 6 393222 393222 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 205.0 79.0 155.0 0.0 0.385366 0 . . none . IRF4 65 . NM_001195286 exon2 c.C70G p.L24V GGGAAGCTCCGCC . PASS Atlas-SNP HIST1H1C 3006 hgsc.bcm.edu 37 6 26056391 26056391 + Missense_Mutation SNP C C T rs370479531 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 83.0 12.0 114.0 0.0 0.144578 0 . . alt . HIST1H1C 80 . NM_005319 exon1 c.G266A p.S89N CCCTTGCTCACCA . PASS Atlas-SNP OR7G3 390883 hgsc.bcm.edu 37 19 9236917 9236917 + Missense_Mutation SNP G G A rs61730387 bycluster;byfrequency TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 104.0 6.0 142.0 0.0 0.0576923 0 G|0.935;A|0.065 0.065 strong . OR7G3 41 . NM_001001958 exon1 c.C710T p.A237V GAAAAAGCTTTAT . PASS Atlas-SNP HIBADH 11112 hgsc.bcm.edu 37 7 27702327 27702327 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 135.0 25.0 158.0 0.0 0.185185 0 . . none . HIBADH 28 . NM_152740 exon1 c.C81T p.S27S TGCAAAGCTGCCG . PASS Atlas-SNP ITGA4 3676 hgsc.bcm.edu 37 2 182322531 182322531 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 70.0 12.0 82.0 0.0 0.171429 0 . . none ITGA4,colon,carcinoma,+1,1 ITGA4 142 1 NM_000885 exon1 c.G150A p.T50T CAACACGCTGTTC . PASS Atlas-SNP TFAP2D 83741 hgsc.bcm.edu 37 6 50712940 50712940 + Missense_Mutation SNP A A G rs201424626 by1000genomes TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 182.0 39.0 198.0 1.0 0.214286 0.00505051 A|1.000;G|0.000 0.000 strong TFAP2D,NS,carcinoma,0,1 TFAP2D 144 1 NM_172238 exon6 c.A1004G p.K335R CAAGAAAAAAGAT . scavenged Atlas-SNP ANXA11 311 hgsc.bcm.edu 37 10 81930597 81930597 + Missense_Mutation SNP T T A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 42.0 13.0 68.0 1.0 0.309524 0.0147059 . . none ANXA11,right_upper_lobe,carcinoma,0,1 ANXA11 32 1 NM_145868 exon4 c.A130T p.T44S CATAGGTGGCCAC . scavenged Atlas-SNP GDI1 2664 hgsc.bcm.edu 37 X 153670076 153670076 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 137.0 29.0 105.0 0.0 0.211679 0 . . none . GDI1 36 . NM_001493 exon8 c.A926G p.K309R CCATCAAGAACAC . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu 37 6 152671306 152671306 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 61.0 13.0 83.0 0.0 0.213115 0 . . none . SYNE1 3227 . NM_182961 exon72 c.C11898G p.H3966Q TACCTTGTGGTGG . PASS Atlas-SNP SCRN2 90507 hgsc.bcm.edu 37 17 45915662 45915662 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 48.0 14.0 72.0 0.0 0.291667 0 . . none . SCRN2 35 . NM_138355 exon7 c.G1093T p.A365S CCAGGGCTGCCTG . PASS Atlas-SNP ZNF804B 219578 hgsc.bcm.edu 37 7 88956767 88956767 + Missense_Mutation SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 94.0 12.0 90.0 0.0 0.12766 0 . . none . ZNF804B 322 . NM_181646 exon3 c.A359C p.E120A TGGCTGAGTTAAG . PASS Atlas-SNP PRCC 5546 hgsc.bcm.edu 37 1 156737930 156737930 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 39.0 6.0 46.0 0.0 0.153846 0 . . none . PRCC 39 . NM_005973 exon1 c.C367T p.P123S AATCTGCCCCCTC . PASS Atlas-SNP C1S 716 hgsc.bcm.edu 37 12 7173133 7173133 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 91.0 11.0 108.0 0.0 0.120879 0 . . none . C1S 93 . NM_201442 exon7 c.G730C p.D244H GCAGGAGATCGGC . PASS Atlas-SNP SLC13A5 284111 hgsc.bcm.edu 37 17 6607294 6607294 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 23.0 6.0 48.0 0.0 0.26087 0 . . none . SLC13A5 57 . NM_001143838 exon4 c.C450T p.P150P CACGATGGGCACC . PASS Atlas-SNP NOX4 50507 hgsc.bcm.edu 37 11 89059934 89059934 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 101.0 21.0 128.0 0.0 0.207921 0 . . none . NOX4 101 . NM_016931 exon18 c.C1727A p.S576Y CTGAAAGACTCTT . PASS Atlas-SNP MN1 4330 hgsc.bcm.edu 37 22 28194930 28194930 + Silent SNP C C T rs45463091 byfrequency TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 52.0 8.0 65.0 1.0 0.153846 0.0153846 C|0.958;T|0.042 0.042 strong MN1,colon,carcinoma,0,4 MN1 122 4 NM_002430 exon1 c.G1602A p.Q534Q CTGCTGCTGTTGC . scavenged Atlas-SNP HIST4H4 121504 hgsc.bcm.edu 37 12 14923952 14923952 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 59.0 12.0 63.0 0.0 0.20339 0 . . none . HIST4H4 13 . NM_175054 exon1 c.C67A p.L23M CCCGCAGCACCTT . PASS Atlas-SNP KLF2 10365 hgsc.bcm.edu 37 19 16436806 16436806 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 31.0 9.0 35.0 0.0 0.290323 0 . . none . KLF2 10 . NM_016270 exon2 c.G855C p.K285N CACCAAGAGTTCG . PASS Atlas-SNP OR10X1 128367 hgsc.bcm.edu 37 1 158549535 158549535 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 89.0 8.0 89.0 0.0 0.0898876 0 . . none . OR10X1 96 . NM_001004477 exon1 c.T155C p.L52P GTGAGAAGGTAGA . PASS Atlas-SNP HIST1H3I 8354 hgsc.bcm.edu 37 6 27839875 27839875 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 154.0 60.0 151.0 0.0 0.38961 0 . . none . HIST1H3I 28 . NM_003533 exon1 c.G219A p.R73R GATCTCCCGTACC . PASS Atlas-SNP GADD45B 4616 hgsc.bcm.edu 37 19 2476602 2476602 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 66.0 12.0 76.0 0.0 0.181818 0 . . none . GADD45B 6 . NM_015675 exon2 c.G120A p.V40V GGGGGTGTACGAG . PASS Atlas-SNP HIST1H2BN 8341 hgsc.bcm.edu 37 6 27806574 27806574 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 113.0 22.0 108.0 0.0 0.19469 0 . . none . HIST1H2BN 11 . NM_003520 exon1 c.G135A p.V45V CAAGGTGCTGAAG . PASS Atlas-SNP PTPN6 5777 hgsc.bcm.edu 37 12 7061240 7061240 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 83.0 11.0 112.0 0.0 0.13253 0 . . none . PTPN6 42 . NM_080548 exon3 c.G232C p.V78L GAGCTGGTGGAGT . PASS Atlas-SNP ANK2 287 hgsc.bcm.edu 37 4 114290944 114290944 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 84.0 15.0 90.0 0.0 0.178571 0 . . none . ANK2 576 . NM_001148 exon43 c.G11593A p.D3865N GATGAAGATGCAG . PASS Atlas-SNP RIMS2 9699 hgsc.bcm.edu 37 8 105263908 105263908 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 130.0 23.0 125.0 0.0 0.176923 0 . . none . RIMS2 1357 . NM_001100117 exon24 c.G3910C p.E1304Q GAACTAGAGCTAT . PASS Atlas-SNP IRF4 3662 hgsc.bcm.edu 37 6 393348 393348 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 117.0 49.0 96.0 0.0 0.418803 0 . . none . IRF4 65 . NM_001195286 exon2 c.G196A p.E66K CGCGAGGAGGACG . PASS Atlas-SNP HIST1H4H 8365 hgsc.bcm.edu 37 6 26285420 26285420 + Missense_Mutation SNP C C T rs377418572 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 38.0 89.0 0.0 0.4 0 . . alt . HIST1H4H 16 . NM_003543 exon1 c.G308A p.G103D CCTTAGCCACCGA . PASS Atlas-SNP KLF2 10365 hgsc.bcm.edu 37 19 16436833 16436833 + Silent SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 28.0 9.0 33.0 0.0 0.321429 0 . . none . KLF2 10 . NM_016270 exon2 c.C882G p.R294R TCTGCGCACGCAC . PASS Atlas-SNP IFT88 8100 hgsc.bcm.edu 37 13 21237643 21237643 + Missense_Mutation SNP G G A rs143840290 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 31.0 6.0 51.0 1.0 0.193548 0.0196078 G|1.000;A|0.000 0.000 weak IFT88,caecum,carcinoma,0,1 IFT88 83 1 NM_175605 exon25 c.G2102A p.R701H GTCTGCGTTTCTT . scavenged Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186039858 186039858 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 131.0 23.0 126.0 0.0 0.175573 0 . . none . HMCN1 797 . NM_031935 exon52 c.C8108A p.S2703Y TTCCTTCTGCCTC . PASS Atlas-SNP HIST1H1D 3007 hgsc.bcm.edu 37 6 26234570 26234570 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 117.0 35.0 98.0 0.0 0.299145 0 . . none . HIST1H1D 40 . NM_005320 exon1 c.C592T p.P198S CCTTGGGCTTAGG . PASS Atlas-SNP RHBG 57127 hgsc.bcm.edu 37 1 156347192 156347192 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 76.0 12.0 90.0 0.0 0.157895 0 . . none . RHBG 133 . NM_020407 exon2 c.G288A p.L96L CCTCCTGGCCGCC . PASS Atlas-SNP SEMA3D 223117 hgsc.bcm.edu 37 7 84629120 84629120 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 12.0 89.0 0.0 0.193548 0 . . none . SEMA3D 177 . NM_152754 exon17 c.A1970G p.K657R TCCTTCTTCTGCA . PASS Atlas-SNP TAGAP 117289 hgsc.bcm.edu 37 6 159463199 159463199 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 78.0 11.0 89.0 1.0 0.141026 0.011236 . . none TAGAP,NS,carcinoma,+1,1 TAGAP 75 1 NM_138810 exon5 c.G226A p.A76T CCAAAGCCCCAGA . scavenged Atlas-SNP ESPN 83715 hgsc.bcm.edu 37 1 6504644 6504644 + Missense_Mutation SNP C C T rs201251427 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 113.0 26.0 125.0 0.0 0.230089 0 C|0.999;T|0.001 0.001 weak ESPN,NS,carcinoma,+1,1 ESPN 32 1 NM_031475 exon6 c.C1094T p.P365L TCCAGCCGCTGAA . PASS Atlas-SNP PDE4D 5144 hgsc.bcm.edu 37 5 58334737 58334737 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 72.0 13.0 87.0 0.0 0.180556 0 . . none . PDE4D 345 . NM_001104631 exon6 c.G870A p.Q290Q CTCTAGCTGGTCC . PASS Atlas-SNP NOX4 50507 hgsc.bcm.edu 37 11 89069055 89069055 + Missense_Mutation SNP C C A rs147166939 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 445.0 92.0 523.0 0.0 0.206742 0 C|1.000;T|0.000 . alt NOX4,colon,carcinoma,0,1 NOX4 101 1 NM_016931 exon17 c.G1574T p.R525L TTCCACCGAGGAC . PASS Atlas-SNP SUV420H2 84787 hgsc.bcm.edu 37 19 55853653 55853653 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 91.0 5.0 100.0 0.0 0.0549451 0 . . none . SUV420H2 20 . NM_032701 exon3 c.C181A p.L61M CGGGACCTGGAGG . PASS Atlas-SNP ADAM9 8754 hgsc.bcm.edu 37 8 38899582 38899582 + Silent SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 194.0 45.0 212.0 0.0 0.231959 0 . . none . ADAM9 66 . NM_003816 exon12 c.C1248A p.S416S TCCCTCCTGTGGT . PASS Atlas-SNP C5orf46 389336 hgsc.bcm.edu 37 5 147286021 147286021 + Missense_Mutation SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 281.0 42.0 293.0 0.0 0.149466 0 . . none . C5orf46 8 . NM_206966 exon1 c.T44G p.L15R AAGACAAGCAGTC . PASS Atlas-SNP SLC23A3 151295 hgsc.bcm.edu 37 2 220033469 220033469 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 73.0 14.0 112.0 0.0 0.191781 0 . . none . SLC23A3 60 . NM_001144890 exon5 c.G603A p.G201G CAGGGGCCCACAG . PASS Atlas-SNP ALG9 79796 hgsc.bcm.edu 37 11 111657183 111657183 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 120.0 5.0 110.0 0.0 0.0416667 0 . . none . ALG9 77 . NM_024740 exon16 c.G1795A p.V599I AGTTTACGTACAC . PASS Atlas-SNP CUX2 23316 hgsc.bcm.edu 37 12 111744875 111744875 + Missense_Mutation SNP G G A rs201601231 bycluster;by1000genomes TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 49.0 10.0 57.0 0.0 0.204082 0 G|1.000;A|0.000 0.000 strong . CUX2 145 . NM_015267 exon11 c.G1009A p.D337N ATCGCCGACCTGG . PASS Atlas-SNP KCNC2 3747 hgsc.bcm.edu 37 12 75436936 75436936 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 102.0 19.0 148.0 0.0 0.186275 0 . . none . KCNC2 239 . NM_139137 exon5 c.C1866T p.N622N AGGAGAGTTGTAG . PASS Atlas-SNP EHMT2 10919 hgsc.bcm.edu 37 6 31856190 31856190 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 83.0 5.0 66.0 0.0 0.060241 0 . . none . EHMT2 45 . NM_006709 exon12 c.C1459A p.R487S CCATGCGGGCGCG . PASS Atlas-SNP PARD3 56288 hgsc.bcm.edu 37 10 34626206 34626206 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 10.0 78.0 0.0 0.16129 0 . . none . PARD3 131 . NM_001184787 exon17 c.G2566A p.G856S CACTACCTAAATC . PASS Atlas-SNP OR51G2 81282 hgsc.bcm.edu 37 11 4936072 4936072 + Silent SNP G G A rs199760109 by1000genomes TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 79.0 22.0 83.0 0.0 0.278481 0 G|1.000;A|0.000 0.000 strong . OR51G2 70 . NM_001005238 exon1 c.C822T p.P274P CAGGTGGGGTGCC . PASS Atlas-SNP PRR5-ARHGAP8 553158 hgsc.bcm.edu 37 22 45241156 45241156 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 54.0 14.0 47.0 0.0 0.259259 0 . . none . PRR5-ARHGAP8 53 . NM_181334 exon11 c.G970C p.D324H CTCAAAGACAAAA . PASS Atlas-SNP AKAP17A 8227 hgsc.bcm.edu 37 X 1718203 1718203 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 113.0 20.0 93.0 0.0 0.176991 0 . . none . AKAP17A 46 . NM_005088 exon4 c.C1030G p.L344V GAGAAGCTGCAGG . PASS Atlas-SNP PPFIA2 8499 hgsc.bcm.edu 37 12 81769580 81769580 + Missense_Mutation SNP G G A rs370246827 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 81.0 12.0 105.0 0.0 0.148148 0 . . weak . PPFIA2 207 . NM_001220476 exon9 c.C1126T p.R376W CCTGCCGCAGGAT . PASS Atlas-SNP SLC9A7 84679 hgsc.bcm.edu 37 X 46618168 46618168 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 47.0 19.0 41.0 0.0 0.404255 0 . . none . SLC9A7 73 . NM_001257291 exon1 c.G297A p.L99L CTCGTGCAGAAAG . PASS Atlas-SNP TNFRSF8 943 hgsc.bcm.edu 37 1 12123708 12123708 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 84.0 20.0 101.0 0.0 0.238095 0 . . none . TNFRSF8 70 . NM_001243 exon1 c.C53T p.A18V TACGAGCCTTCCC . PASS Atlas-SNP MGA 23269 hgsc.bcm.edu 37 15 42003386 42003386 + Nonsense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 65.0 9.0 55.0 0.0 0.138462 0 . . none . MGA 264 . NM_001080541 exon8 c.C2923T p.Q975X GCACAGCAGCAGC . PASS Atlas-SNP HIST1H2BC 8347 hgsc.bcm.edu 37 6 26123770 26123770 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 107.0 20.0 106.0 0.0 0.186916 0 . . none . HIST1H2BC 35 . NM_003526 exon1 c.G363A p.K121K GGTGTACTTGGTG . PASS Atlas-SNP BRS3 680 hgsc.bcm.edu 37 X 135574270 135574270 + Silent SNP C C T rs369993360 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 64.0 32.0 70.0 0.0 0.5 0 . . alt . BRS3 62 . NM_001727 exon3 c.C936T p.T312T TTTCACCATTTTC . PASS Atlas-SNP HIST1H4I 8294 hgsc.bcm.edu 37 6 27107282 27107282 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 140.0 49.0 132.0 0.0 0.35 0 . . none . HIST1H4I 26 . NM_003495 exon1 c.C195T p.N65N GGAGAACGTGATC . PASS Atlas-SNP JMJD7-PLA2G4B 8681 hgsc.bcm.edu 37 15 42139859 42139859 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 67.0 19.0 87.0 0.0 0.283582 0 . . none . JMJD7-PLA2G4B 90 . NM_005090 exon25 c.C2840A p.T947K GGCGGACACCCGA . PASS Atlas-SNP HIST1H2AC 8334 hgsc.bcm.edu 37 6 26124565 26124565 + Silent SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 81.0 12.0 121.0 0.0 0.148148 0 . . none . HIST1H2AC 29 . NM_003512 exon1 c.C105A p.L35L CCTGCTCCGTAAA . PASS Atlas-SNP ATAD3B 83858 hgsc.bcm.edu 37 1 1431048 1431048 + Missense_Mutation SNP A A G rs201429000 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 56.0 4.0 69.0 1.0 0.0714286 0.0144928 . . weak ATAD3B,NS,neuroblastoma,0,1 ATAD3B 68 1 NM_031921 exon16 c.A1798G p.T600A CTGGCCACGGACC . scavenged Atlas-SNP NINJ1 4814 hgsc.bcm.edu 37 9 95887259 95887259 + Silent SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 54.0 10.0 65.0 0.0 0.185185 0 . . none . NINJ1 7 . NM_004148 exon3 c.G390T p.V130V GACTACCACGATG . PASS Atlas-SNP KLF2 10365 hgsc.bcm.edu 37 19 16436027 16436027 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 35.0 6.0 17.0 0.0 0.171429 0 . . none . KLF2 10 . NM_016270 exon2 c.C76T p.R26C CCGCAGCGCTGGC . PASS Atlas-SNP EIF2B5 8893 hgsc.bcm.edu 37 3 183855505 183855505 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 88.0 25.0 117.0 0.0 0.284091 0 . . none . EIF2B5 62 . NM_003907 exon3 c.G418T p.A140S GTTGATGCCAAGG . PASS Atlas-SNP RGS7 6000 hgsc.bcm.edu 37 1 241032080 241032080 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 88.0 14.0 100.0 0.0 0.159091 0 . . none . RGS7 308 . NM_002924 exon8 c.G523A p.A175T ACTTTGCTTGTGC . PASS Atlas-SNP BMP15 9210 hgsc.bcm.edu 37 X 50659592 50659592 + Silent SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 64.0 33.0 72.0 0.0 0.515625 0 . . none . BMP15 62 . NM_005448 exon2 c.T1164C p.S388S TGAGTCTTGTACA . PASS Atlas-SNP TMSB4X 7114 hgsc.bcm.edu 37 X 12994468 12994468 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 146.0 55.0 170.0 0.0 0.376712 0 . . none . TMSB4X 3 . NM_021109 exon2 c.C88A p.P30T CCACTGCCTTCCA . PASS Atlas-SNP SIGLEC5 8778 hgsc.bcm.edu 37 19 52131127 52131127 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 110.0 20.0 128.0 0.0 0.181818 0 . . none SIGLEC5,NS,carcinoma,0,2 SIGLEC5 67 2 NM_003830 exon5 c.G957A p.P319P GCCCAGCGGGTGC . PASS Atlas-SNP ZNF530 348327 hgsc.bcm.edu 37 19 58117726 58117726 + Missense_Mutation SNP G G A rs201516823 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 10.0 108.0 0.0 0.16129 0 G|0.999;A|0.001 0.001 weak . ZNF530 71 . NM_020880 exon3 c.G833A p.R278H TTAGTCGCAAAAC . PASS Atlas-SNP LRP1B 53353 hgsc.bcm.edu 37 2 141819821 141819821 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 56.0 13.0 59.0 0.0 0.232143 0 . . none . LRP1B 1315 . NM_018557 exon8 c.C1035T p.Y345Y ATTCCCGTAGTCA . PASS Atlas-SNP PAX5 5079 hgsc.bcm.edu 37 9 37002696 37002696 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 159.0 32.0 169.0 0.0 0.201258 0 . . none . PAX5 250 . NM_016734 exon5 c.C553G p.L185V TGCCCAGGATGCC . PASS Atlas-SNP SSTR4 6754 hgsc.bcm.edu 37 20 23016253 23016253 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 66.0 20.0 59.0 1.0 0.30303 0.0169492 . . none SSTR4,NS,carcinoma,-1,1 SSTR4 83 1 NM_001052 exon1 c.G133A p.A45T CGGGCGGCGGGCA . scavenged Atlas-SNP KCNK3 3777 hgsc.bcm.edu 37 2 26951314 26951314 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 44.0 9.0 48.0 0.0 0.204545 0 . . none . KCNK3 43 . NM_002246 exon2 c.G1063A p.D355N TACAGCGACACGC . PASS Atlas-SNP ATF4 468 hgsc.bcm.edu 37 22 39917610 39917610 + Missense_Mutation SNP G G A rs148038848 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 99.0 23.0 118.0 0.0 0.232323 0 G|1.000;A|0.000 0.000 weak . ATF4 27 . NM_001675 exon1 c.G160A p.A54T GACAAGGCTAAGG . PASS Atlas-SNP FUT4 2526 hgsc.bcm.edu 37 11 94278849 94278849 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 32.0 7.0 39.0 0.0 0.21875 0 . . none . FUT4 17 . NM_002033 exon1 c.G1550A p.R517Q GGGACCGGCCCAA . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70960860 70960860 + Silent SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 55.0 10.0 75.0 0.0 0.181818 0 . . none . UACA 235 . NM_018003 exon16 c.A2163G p.K721K ATAAACTTTTTCA . PASS Atlas-SNP MBTD1 54799 hgsc.bcm.edu 37 17 49281177 49281177 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 197.0 47.0 197.0 0.0 0.238579 0 . . none . MBTD1 44 . NM_017643 exon8 c.C714T p.S238S TTTTCCGCTGGCT . PASS Atlas-SNP CORO1A 11151 hgsc.bcm.edu 37 16 30198463 30198463 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 46.0 10.0 52.0 0.0 0.217391 0 . . none . CORO1A 36 . NM_001193333 exon6 c.C555T p.S185S CTGGAGCCGAGAT . PASS Atlas-SNP AIFM2 84883 hgsc.bcm.edu 37 10 71880315 71880315 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 50.0 7.0 63.0 0.0 0.14 0 . . none . AIFM2 33 . NM_001198696 exon5 c.C455T p.S152L CCAGCCGAGCCTC . PASS Atlas-SNP PLD2 5338 hgsc.bcm.edu 37 17 4711711 4711711 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 45.0 13.0 62.0 0.0 0.288889 0 . . none . PLD2 138 . NM_001243108 exon4 c.G383A p.R128Q TGGCTCGGTGAGG . PASS Atlas-SNP STAT3 6774 hgsc.bcm.edu 37 17 40474419 40474419 + Missense_Mutation SNP T T A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 93.0 14.0 154.0 0.0 0.150538 0 . . none STAT3,skin,lymphoid_neoplasm,-1,42 STAT3 268 42 NM_003150 exon21 c.A1982T p.D661V GTAGCATCCATGA . PASS Atlas-SNP PLG 5340 hgsc.bcm.edu 37 6 161173935 161173935 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 283.0 58.0 352.0 0.0 0.204947 0 . . none . PLG 150 . NM_000301 exon19 c.G2275A p.D759N TAGGGTGACAGTG . PASS Atlas-SNP BRAP 8315 hgsc.bcm.edu 37 12 112082105 112082105 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 47.0 12.0 79.0 0.0 0.255319 0 . . none . BRAP 42 . NM_006768 exon12 c.G1677A p.E559E CTGTCCCTCCTGG . PASS Atlas-SNP FPGT 8790 hgsc.bcm.edu 37 1 74670119 74670119 + Missense_Mutation SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 86.0 11.0 112.0 0.0 0.127907 0 . . none FPGT,NS,carcinoma,0,1 FPGT 77 1 NM_001199328 exon4 c.A388C p.I130L GGAAAAATTTTCA . PASS Atlas-SNP SOWAHD 347454 hgsc.bcm.edu 37 X 118893023 118893023 + Missense_Mutation SNP G G C rs373940647 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 26.0 5.0 25.0 0.0 0.192308 0 . . weak . . . . NM_001105576 exon1 c.G393C p.E131D GCGGGAGCTGCTG . PASS Atlas-SNP ICOSLG 23308 hgsc.bcm.edu 37 21 45656994 45656994 + Nonsense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 4.0 102.0 0.0 0.0421053 0 . . none . ICOSLG 20 . NM_015259 exon3 c.G162A p.W54X GGTTTGCCAATAT . PASS Atlas-SNP SMC4 10051 hgsc.bcm.edu 37 3 160130162 160130162 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 312.0 118.0 294.0 0.0 0.378205 0 . . none SMC4,mouth,carcinoma,0,1 SMC4 135 1 NM_005496 exon6 c.G901A p.E301K GAAGGAGAGAAAA . PASS Atlas-SNP LINGO4 339398 hgsc.bcm.edu 37 1 151774688 151774688 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 57.0 9.0 64.0 0.0 0.157895 0 . . none . LINGO4 51 . NM_001004432 exon2 c.G493T p.D165Y GGTTGTCCCCAAC . PASS Atlas-SNP EPHB1 2047 hgsc.bcm.edu 37 3 134670283 134670283 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 84.0 31.0 114.0 0.0 0.369048 0 . . none . EPHB1 519 . NM_004441 exon3 c.A194G p.E65G TCTTCGAGCCCAA . PASS Atlas-SNP LGALS8 3964 hgsc.bcm.edu 37 1 236703874 236703874 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 53.0 9.0 41.0 0.0 0.169811 0 . . none . LGALS8 42 . NM_006499 exon6 c.A356G p.N119S CTGTAAATGGAAA . PASS Atlas-SNP PHIP 55023 hgsc.bcm.edu 37 6 79671508 79671508 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 245.0 11.0 271.0 0.0 0.044898 0 . . none . PHIP 177 . NM_017934 exon31 c.G3555A p.V1185V GGGGGCCACAAAT . PASS Atlas-SNP CFB 629 hgsc.bcm.edu 37 6 31918104 31918104 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 67.0 5.0 66.0 0.0 0.0746269 0 . . none . CFB 33 . NM_001710 exon12 c.G1548A p.V516V TGTGGTGTCTGAG . PASS Atlas-SNP OR51M1 390059 hgsc.bcm.edu 37 11 5410941 5410941 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 41.0 8.0 53.0 0.0 0.195122 0 . . none . OR51M1 60 . NM_001004756 exon1 c.T313C p.Y105H AGTATCTACTTTG . PASS Atlas-SNP KAT2A 2648 hgsc.bcm.edu 37 17 40267789 40267789 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 52.0 8.0 70.0 0.0 0.153846 0 . . none . KAT2A 54 . NM_021078 exon12 c.C1827T p.Y609Y GAGGAAGTAGAGA . PASS Atlas-SNP ACTB 60 hgsc.bcm.edu 37 7 5568064 5568064 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 69.0 14.0 99.0 0.0 0.202899 0 . . none . ACTB 45 . NM_001101 exon4 c.G650A p.C217Y ACGTAGCACAGCT . PASS Atlas-SNP CLK1 1195 hgsc.bcm.edu 37 2 201721689 201721689 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 56.0 16.0 64.0 0.0 0.285714 0 . . none . CLK1 103 . NM_001162407 exon8 c.G978A p.L326L GTGAGTCAACTTA . PASS Atlas-SNP PCDHA9 9752 hgsc.bcm.edu 37 5 140229745 140229745 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 92.0 15.0 122.0 0.0 0.163043 0 . . none . PCDHA9 373 . NM_031857 exon1 c.G1665A p.V555V GTTCGTGCTGGAC . PASS Atlas-SNP C5orf46 389336 hgsc.bcm.edu 37 5 147286047 147286047 + Silent SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 271.0 39.0 284.0 0.0 0.143911 0 . . none . C5orf46 8 . NM_206966 exon1 c.T18C p.L6L CAGGCGAAGTACT . PASS Atlas-SNP TMEM135 65084 hgsc.bcm.edu 37 11 87024503 87024503 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 231.0 41.0 265.0 0.0 0.177489 0 . . none . TMEM135 40 . NM_022918 exon11 c.G973A p.D325N AACTTAGATGATG . PASS Atlas-SNP FLJ25363 0 hgsc.bcm.edu 37 3 109195589 109195589 + Silent SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 16.0 84.0 0.0 0.258065 0 . . none . . . . NM_001145553 exon4 c.A267G p.Q89Q GCCTCAAGAACAG . PASS Atlas-SNP ZNF208 7757 hgsc.bcm.edu 37 19 22157028 22157028 + Missense_Mutation SNP C C A rs202182420 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 42.0 6.0 40.0 0.0 0.142857 0 C|0.996;A|0.004 0.004 weak . ZNF208 817 . NM_007153 exon4 c.G808T p.A270S GGATTGCAGATTG . PASS Atlas-SNP DGKI 9162 hgsc.bcm.edu 37 7 137080402 137080402 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 9.0 55.0 0.0 0.145161 0 . . none DGKI_ENST00000288490,NS,carcinoma,-1,2 DGKI 335 2 NM_004717 exon33 c.G3023T p.R1008L ACAGCCCGGTTCC . PASS Atlas-SNP GAS6 2621 hgsc.bcm.edu 37 13 114530106 114530106 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 62.0 9.0 90.0 0.0 0.145161 0 . . none GAS6_ENST00000327773,colon,carcinoma,-1,2 GAS6 75 2 NM_000820 exon12 c.G1340A p.S447N TTCCAGCTCCTCA . PASS Atlas-SNP TNRC6C 57690 hgsc.bcm.edu 37 17 76045908 76045908 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 61.0 25.0 63.0 0.0 0.409836 0 . . none TNRC6C,NS,carcinoma,+1,1 TNRC6C 173 1 NM_018996 exon4 c.C765T p.N255N AGGTAACCCTGCC . PASS Atlas-SNP HIF3A 64344 hgsc.bcm.edu 37 19 46832549 46832549 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 90.0 18.0 109.0 0.0 0.2 0 . . none . HIF3A 154 . NM_152795 exon12 c.C1526T p.P509L AGCTACCCAGGGC . PASS Atlas-SNP ZNF570 148268 hgsc.bcm.edu 37 19 37975034 37975034 + Silent SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 81.0 18.0 79.0 0.0 0.222222 0 . . none . ZNF570 58 . NM_144694 exon5 c.T510C p.S170S GGGAAGTTTTCAT . PASS Atlas-SNP HIST1H2AK 8330 hgsc.bcm.edu 37 6 27805883 27805883 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 149.0 22.0 148.0 0.0 0.147651 0 . . none HIST1H2AK,NS,carcinoma,0,1 HIST1H2AK 28 1 NM_003510 exon1 c.A235G p.I79V GGATGATGCGGGT . PASS Atlas-SNP KCNU1 157855 hgsc.bcm.edu 37 8 36694417 36694417 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 86.0 16.0 88.0 0.0 0.186047 0 . . none . KCNU1 359 . NM_001031836 exon14 c.G1472A p.G491D TGCCAGGCTTGTG . PASS Atlas-SNP CHD5 26038 hgsc.bcm.edu 37 1 6189098 6189098 + Missense_Mutation SNP T T A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 43.0 7.0 52.0 0.0 0.162791 0 . . none . CHD5 267 . NM_015557 exon23 c.A3419T p.N1140I TTCTTGTTCTGGC . PASS Atlas-SNP SMARCA5 8467 hgsc.bcm.edu 37 4 144467950 144467950 + Silent SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 101.0 27.0 141.0 0.0 0.267327 0 . . none SMARCA5,rectum,carcinoma,-1,1 SMARCA5 73 1 NM_003601 exon20 c.A2542C p.R848R AATAAGAGAGATT . PASS Atlas-SNP PATZ1 23598 hgsc.bcm.edu 37 22 31741415 31741415 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 70.0 9.0 114.0 0.0 0.128571 0 . . none . PATZ1 24 . NM_032050 exon1 c.G174A p.V58V GGCCAGCACGGCG . PASS Atlas-SNP TMSB4X 7114 hgsc.bcm.edu 37 X 12994364 12994364 + Splice_Site SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 90.0 26.0 123.0 0.0 0.288889 0 . . none . TMSB4X 3 . . . . . CCTGCAGCTTTTC . PASS Atlas-SNP ANKS1A 23294 hgsc.bcm.edu 37 6 34857324 34857324 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 10.0 7.0 4.0 0.0 0.7 0 . . none ANKS1A,NS,carcinoma,0,1 ANKS1A 123 1 NM_015245 exon1 c.G145A p.G49S AGCGGCGGCGGCG . scavenged Atlas-SNP SYNPR 132204 hgsc.bcm.edu 37 3 63466620 63466620 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 41.0 8.0 47.0 0.0 0.195122 0 . . none SYNPR,NS,carcinoma,+1,4 SYNPR 38 4 NM_001130003 exon3 c.C197T p.A66V CGTTTGCCTACCC . PASS Atlas-SNP SSTR4 6754 hgsc.bcm.edu 37 20 23016714 23016714 + Nonsense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 16.0 5.0 11.0 0.0 0.3125 0 . . none . SSTR4 83 . NM_001052 exon1 c.C594A p.C198X GGCCTGCAACCTG . PASS Atlas-SNP HIST1H1D 3007 hgsc.bcm.edu 37 6 26234687 26234687 + Missense_Mutation SNP C C A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 87.0 12.0 82.0 0.0 0.137931 0 . . none HIST1H1D,NS,carcinoma,0,1 HIST1H1D 40 1 NM_005320 exon1 c.G475T p.V159L TCTTTACCTTCTT . PASS Atlas-SNP HIST1H2AM 8336 hgsc.bcm.edu 37 6 27860749 27860749 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 161.0 32.0 135.0 0.0 0.198758 0 . . none . HIST1H2AM 27 . NM_003514 exon1 c.C179T p.T60I TCGGCAGTTAGGT . PASS Atlas-SNP TNNT1 7138 hgsc.bcm.edu 37 19 55645539 55645539 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 40.0 7.0 61.0 0.0 0.175 0 . . none . TNNT1 28 . NM_003283 exon12 c.C645T p.P215P GCAGGAGGGCTGT . PASS Atlas-SNP HIST1H1D 3007 hgsc.bcm.edu 37 6 26234812 26234812 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 20.0 70.0 0.0 0.25 0 . . none . HIST1H1D 40 . NM_005320 exon1 c.G350A p.G117D GGTTTGCCTTCCC . PASS Atlas-SNP CXCR4 7852 hgsc.bcm.edu 37 2 136872627 136872627 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 151.0 28.0 179.0 0.0 0.18543 0 . . none . CXCR4 51 . NM_001008540 exon1 c.G883A p.A295T AGAAAGCTAGGGC . PASS Atlas-SNP EIF4A2 1974 hgsc.bcm.edu 37 3 186502355 186502355 + Missense_Mutation SNP C C G rs371691662 alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 109.0 21.0 151.0 0.0 0.192661 0 . . alt . EIF4A2 55 . NM_001967 exon3 c.C78G p.S26R ACAGAGCAACTGG . PASS Atlas-SNP WDR96 80217 hgsc.bcm.edu 37 10 105923874 105923874 + Missense_Mutation SNP G G A rs146455280 bycluster;by1000genomes;alternate_allele TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 71.0 22.0 80.0 0.0 0.309859 0 G|1.000;T|0.000 . alt . WDR96 183 . NM_025145 exon24 c.C3224T p.T1075M ACAAGCGTTCTCT . PASS Atlas-SNP ZNF474 133923 hgsc.bcm.edu 37 5 121488255 121488255 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 70.0 17.0 74.0 0.0 0.242857 0 . . none . ZNF474 43 . NM_207317 exon2 c.G570T p.K190N GCCAAAGGGTGAG . PASS Atlas-SNP KRTAP5-2 440021 hgsc.bcm.edu 37 11 1619234 1619234 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 102.0 19.0 118.0 0.0 0.186275 0 . . none . KRTAP5-2 38 . NM_001004325 exon1 c.G247A p.G83S TGGAGCCCCCACA . PASS Atlas-SNP CPA2 1358 hgsc.bcm.edu 37 7 129916536 129916536 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 88.0 5.0 115.0 0.0 0.0568182 0 . . none CPA2,NS,carcinoma,0,1 CPA2 36 1 NM_001869 exon7 c.G654A p.L218L CCTCCTGCCAGTC . PASS Atlas-SNP LIPN 643418 hgsc.bcm.edu 37 10 90537944 90537944 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 21.0 98.0 0.0 0.221053 0 . . none . LIPN 28 . NM_001102469 exon9 c.A1142G p.D381G GCCTCGATGCCCC . PASS Atlas-SNP RPL35A 6165 hgsc.bcm.edu 37 3 197678057 197678057 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 70.0 15.0 88.0 0.0 0.214286 0 . . none . RPL35A 9 . NM_000996 exon3 c.C39T p.G13G TGCTGGCTATAAG . PASS Atlas-SNP PCDHGA12 26025 hgsc.bcm.edu 37 5 140810511 140810511 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 102.0 12.0 109.0 0.0 0.117647 0 . . none PCDHGA12_ENST00000252085,NS,carcinoma,+1,4 PCDHGA12 271 4 NM_032094 exon1 c.G185A p.R62H CGGAGCGCGGAGT . PASS Atlas-SNP A2M 2 hgsc.bcm.edu 37 12 9266020 9266020 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 144.0 28.0 135.0 0.0 0.194444 0 . . none . A2M 180 . NM_000014 exon2 c.G206A p.G69E CTGTTTCCCCTGA . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu 37 19 9072256 9072256 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 67.0 11.0 90.0 0.0 0.164179 0 . . none . MUC16 4315 . NM_024690 exon3 c.C15190A p.L5064I AGGAGAGCTTATC . PASS Atlas-SNP ABCC10 89845 hgsc.bcm.edu 37 6 43399895 43399895 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 46.0 6.0 48.0 0.0 0.130435 0 . . none . ABCC10 118 . NM_001198934 exon3 c.C177T p.I59I TTACATCCTACCC . PASS Atlas-SNP HNRNPD 3184 hgsc.bcm.edu 37 4 83294756 83294756 + Nonsense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 23.0 6.0 18.0 0.0 0.26087 0 . . none . HNRNPD 23 . NM_031370 exon1 c.C76T p.Q26X CCTCCTGCTCGCC . PASS Atlas-SNP HEMK1 51409 hgsc.bcm.edu 37 3 50609175 50609175 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 74.0 21.0 98.0 0.0 0.283784 0 . . none . HEMK1 17 . NM_016173 exon3 c.C263T p.P88L CCCAGCCCTTGAC . PASS Atlas-SNP ACADM 34 hgsc.bcm.edu 37 1 76228440 76228440 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 367.0 71.0 406.0 0.0 0.19346 0 . . none . ACADM 50 . NM_001127328 exon12 c.A1270G p.K424E AAGTACAAAAATT . PASS Atlas-SNP GPR34 2857 hgsc.bcm.edu 37 X 41555136 41555136 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 106.0 44.0 110.0 0.0 0.415094 0 . . none . GPR34 42 . NM_001097579 exon3 c.C250T p.R84C ATTCACCGTAAAA . PASS Atlas-SNP IRS1 3667 hgsc.bcm.edu 37 2 227663446 227663446 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 74.0 14.0 73.0 0.0 0.189189 0 . . none . IRS1 141 . NM_005544 exon1 c.C9T p.S3S CGGAGGGCTCGCC . PASS Atlas-SNP EFHC1 114327 hgsc.bcm.edu 37 6 52344443 52344443 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 98.0 17.0 96.0 0.0 0.173469 0 . . none . EFHC1 68 . NM_018100 exon9 c.G1498T p.G500C GTGTTTGGTCACC . PASS Atlas-SNP MCM4 4173 hgsc.bcm.edu 37 8 48889332 48889332 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 51.0 10.0 48.0 0.0 0.196078 0 . . none . MCM4 97 . NM_182746 exon17 c.G2586A p.L862L GCGCTTGCTCTGA . PASS Atlas-SNP DUSP2 1844 hgsc.bcm.edu 37 2 96810559 96810559 + Missense_Mutation SNP G G C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 60.0 10.0 54.0 0.0 0.166667 0 . . none . DUSP2 20 . NM_004418 exon2 c.C451G p.L151V GCGGCAGCGCAGG . PASS Atlas-SNP ARHGAP21 57584 hgsc.bcm.edu 37 10 24909112 24909112 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 87.0 20.0 93.0 0.0 0.229885 0 . . none . ARHGAP21 185 . NM_020824 exon9 c.G1712A p.R571Q CTCATTCGCCTGT . PASS Atlas-SNP CA4 762 hgsc.bcm.edu 37 17 58227428 58227428 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 53.0 5.0 46.0 0.0 0.0943396 0 . . none . CA4 20 . NM_000717 exon1 c.C33T p.S11S CCTCTCCGCGGCG . PASS Atlas-SNP IL2RA 3559 hgsc.bcm.edu 37 10 6104051 6104051 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 93.0 16.0 113.0 0.0 0.172043 0 . . none . IL2RA 37 . NM_000417 exon1 c.G64A p.E22K CCTTACCTGCCTG . PASS Atlas-SNP HTR1B 3351 hgsc.bcm.edu 37 6 78172576 78172576 + Missense_Mutation SNP A A G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 14.0 92.0 0.0 0.147368 0 . . none . HTR1B 55 . NM_000863 exon1 c.T545C p.L182P GGCGGCAGCGAGA . PASS Atlas-SNP MYC 4609 hgsc.bcm.edu 37 8 128751032 128751032 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 52.0 10.0 69.0 0.0 0.192308 0 . . none MYC_ENST00000377970,NS,lymphoid_neoplasm,0,2 MYC 168 2 NM_002467 exon2 c.G569A p.S190N CCTCCAGCTTGTA . PASS Atlas-SNP ZNF367 195828 hgsc.bcm.edu 37 9 99180102 99180102 + Nonsense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 46.0 6.0 59.0 0.0 0.130435 0 . . none . ZNF367 27 . NM_153695 exon1 c.G213A p.W71X CCAGCGCCACGGG . PASS Atlas-SNP CRIP1 1396 hgsc.bcm.edu 37 14 105954689 105954689 + Missense_Mutation SNP A A C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 108.0 17.0 149.0 0.0 0.157407 0 . . none . CRIP1 1 . NM_001311 exon4 c.A157C p.N53H TACTGCAACCACC . PASS Atlas-SNP GZMM 3004 hgsc.bcm.edu 37 19 549011 549011 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 103.0 11.0 94.0 0.0 0.106796 0 . . none GZMM,bladder,carcinoma,+1,1 GZMM 11 1 NM_005317 exon4 c.C438T p.S146S GTGCAGCATGGCC . PASS Atlas-SNP CYB5R4 51167 hgsc.bcm.edu 37 6 84569547 84569547 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 76.0 14.0 84.0 0.0 0.184211 0 . . none . CYB5R4 72 . NM_016230 exon1 c.C46G p.Q16E TCGCAGCAGCGTG . PASS Atlas-SNP FANCG 2189 hgsc.bcm.edu 37 9 35077020 35077020 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 19.0 85.0 0.0 0.2375 0 . . none . FANCG 56 . NM_004629 exon6 c.G725A p.R242Q ACAGGCCGTGGAC . PASS Atlas-SNP HIST1H3F 8968 hgsc.bcm.edu 37 6 26250506 26250506 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 75.0 18.0 87.0 0.0 0.24 0 . . none . HIST1H3F 16 . NM_021018 exon1 c.C328T p.L110L CACACAGGTTGGT . PASS Atlas-SNP SIPA1 6494 hgsc.bcm.edu 37 11 65416900 65416900 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 59.0 12.0 78.0 0.0 0.20339 0 . . none . SIPA1 45 . NM_006747 exon10 c.C2474T p.A825V ATCTGGCCGAGGA . PASS Atlas-SNP AKAP8 10270 hgsc.bcm.edu 37 19 15484046 15484046 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 97.0 17.0 105.0 0.0 0.175258 0 . . none . AKAP8 68 . NM_005858 exon5 c.G477A p.G159G GTCGGACCCCAGG . PASS Atlas-SNP TAF5L 27097 hgsc.bcm.edu 37 1 229730826 229730826 + Missense_Mutation SNP T T G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 37.0 18.0 30.0 0.0 0.486486 0 . . none . TAF5L 76 . NM_014409 exon5 c.A988C p.N330H CTGCATTATCATC . PASS Atlas-SNP TAF1B 9014 hgsc.bcm.edu 37 2 10008516 10008516 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 269.0 50.0 259.0 0.0 0.185874 0 . . none . TAF1B 62 . NM_005680 exon6 c.C511G p.H171D GACATCCACACTC . PASS Atlas-SNP HIST1H4F 8361 hgsc.bcm.edu 37 6 26240823 26240823 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 103.0 15.0 128.0 0.0 0.145631 0 . . none HIST1H4F,colon,carcinoma,0,1 HIST1H4F 9 1 NM_003540 exon1 c.G170A p.G57D CCCGCGGTGTTCT . PASS Atlas-SNP ZC2HC1A 51101 hgsc.bcm.edu 37 8 79629693 79629693 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 17.0 80.0 0.0 0.2125 0 . . none . . . . NM_016010 exon9 c.T943C p.C315R AAATTTTGCTGTG . PASS Atlas-SNP NEB 4703 hgsc.bcm.edu 37 2 152486080 152486080 + Silent SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 66.0 13.0 62.0 0.0 0.19697 0 . . none . NEB 1697 . NM_001271208 exon68 c.C9804A p.A3268A GGCCTTGGCAGCC . PASS Atlas-SNP SNX1 6642 hgsc.bcm.edu 37 15 64410372 64410372 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 140.0 35.0 202.0 0.0 0.25 0 . . none . SNX1 36 . NM_003099 exon3 c.G328A p.A110T GTGCTAGCCAAAA . PASS Atlas-SNP RXFP2 122042 hgsc.bcm.edu 37 13 32376518 32376518 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 22.0 107.0 0.0 0.231579 0 . . none . RXFP2 95 . NM_130806 exon18 c.C2241G p.D747E TGGAGACAGTATA . PASS Atlas-SNP ZMYM2 7750 hgsc.bcm.edu 37 13 20641392 20641392 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 19.0 78.0 0.0 0.2375 0 . . none . ZMYM2 191 . NM_001190964 exon22 c.G3315A p.K1105K AGTAAAGTTAAAA . PASS Atlas-SNP EIF4A2 1974 hgsc.bcm.edu 37 3 186502430 186502430 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 95.0 20.0 110.0 0.0 0.210526 0 . . none . EIF4A2 55 . NM_001967 exon3 c.C153T p.Y51Y TGCTTACGGTTTT . PASS Atlas-SNP IRF4 3662 hgsc.bcm.edu 37 6 393209 393209 + Silent SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 180.0 73.0 135.0 0.0 0.405556 0 . . none . IRF4 65 . NM_001195286 exon2 c.C57T p.C19C GAGCTGCGGCAAC . PASS Atlas-SNP HIST2H2BE 8349 hgsc.bcm.edu 37 1 149858111 149858111 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 88.0 16.0 97.0 0.0 0.181818 0 . . none HIST2H2BE,NS,carcinoma,0,2 HIST2H2BE 33 2 NM_003528 exon1 c.G80C p.G27A TTCTTGCCGTCTT . PASS Atlas-SNP TMEM132A 54972 hgsc.bcm.edu 37 11 60699343 60699343 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 104.0 20.0 137.0 0.0 0.192308 0 . . none . TMEM132A 135 . NM_017870 exon6 c.T1202C p.I401T CCCTTATCCCACT . PASS Atlas-SNP SCN4A 6329 hgsc.bcm.edu 37 17 62045701 62045701 + Missense_Mutation SNP C C T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 6.0 107.0 0.0 0.075 0 . . none . SCN4A 205 . NM_000334 exon6 c.G718A p.V240M CCCCCACGATCGT . PASS Atlas-SNP BTBD9 114781 hgsc.bcm.edu 37 6 38545397 38545397 + Missense_Mutation SNP T T C rs373363401 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 51.0 21.0 54.0 0.0 0.411765 0 . . weak . BTBD9 85 . NM_052893 exon7 c.A1133G p.Y378C GGAAAATATAATT . PASS Atlas-SNP PLD6 201164 hgsc.bcm.edu 37 17 17106346 17106346 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 105.0 21.0 161.0 0.0 0.2 0 . . none . PLD6 9 . NM_178836 exon2 c.G494C p.R165T AGCACCCTCTTGT . PASS Atlas-SNP TMEM135 65084 hgsc.bcm.edu 37 11 87024484 87024484 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 227.0 46.0 260.0 0.0 0.202643 0 . . none . TMEM135 40 . NM_022918 exon11 c.G954A p.L318L CTTCCTGCGCTGG . PASS Atlas-SNP HIST1H2BG 8339 hgsc.bcm.edu 37 6 26216544 26216544 + Missense_Mutation SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 76.0 7.0 69.0 0.0 0.0921053 0 . . none . HIST1H2BG 25 . NM_003518 exon1 c.C328T p.H110Y CTGCGTGCTTGGC . PASS Atlas-SNP TRPM6 140803 hgsc.bcm.edu 37 9 77400960 77400960 + Missense_Mutation SNP C C G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 132.0 27.0 158.0 0.0 0.204545 0 . . none TRPM6_ENST00000451710,axilla,malignant_melanoma,+1,2 TRPM6 377 2 NM_017662 exon21 c.G2749C p.A917P CAATGGCCACAGT . PASS Atlas-SNP ZNF846 162993 hgsc.bcm.edu 37 19 9868728 9868728 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 80.0 15.0 81.0 0.0 0.1875 0 . . none . ZNF846 61 . NM_001077624 exon6 c.A1025G p.E342G CCACACTCCTTAC . PASS Atlas-SNP ISLR2 57611 hgsc.bcm.edu 37 15 74426853 74426853 + Missense_Mutation SNP G G T novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 75.0 8.0 95.0 0.0 0.106667 0 . . none . ISLR2 78 . NM_001130138 exon4 c.G1758T p.E586D GAAGGAGCTCCCA . PASS Atlas-SNP PIK3C2A 5286 hgsc.bcm.edu 37 11 17167456 17167456 + Missense_Mutation SNP T T G novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 75.0 15.0 83.0 0.0 0.2 0 . . none . PIK3C2A 148 . NM_002645 exon6 c.A1594C p.K532Q GGTGTTTGTTTAA . PASS Atlas-SNP ZNF534 147658 hgsc.bcm.edu 37 19 52941505 52941505 + Silent SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 65.0 15.0 82.0 0.0 0.230769 0 . . none . ZNF534 105 . NM_001143939 exon4 c.T831C p.H277H AATTCATACTGGA . PASS Atlas-SNP LRRFIP2 9209 hgsc.bcm.edu 37 3 37151161 37151161 + Missense_Mutation SNP T T C novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 218.0 42.0 198.0 0.0 0.192661 0 . . none . LRRFIP2 71 . NM_006309 exon11 c.A547G p.T183A TATATGTTGCCAG . PASS Atlas-SNP NAT8L 339983 hgsc.bcm.edu 37 4 2062888 2062888 + Silent SNP C C T rs376253416 TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 115.0 19.0 125.0 0.0 0.165217 0 . . weak . NAT8L 23 . NM_178557 exon2 c.C540T p.P180P GCCGCCCGGTGAG . PASS Atlas-SNP SPRY4 81848 hgsc.bcm.edu 37 5 141694497 141694497 + Silent SNP G G A novel TCGA-FA-A6HN-01A-11D-A31X-10 TCGA-FA-A6HN-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 01217848-97f3-4995-89c8-3b0cf9527c40 6c06b9ec-6df2-4029-9b30-c38448f9637f 96.0 22.0 117.0 0.0 0.229167 0 . . none . SPRY4 31 . NM_030964 exon3 c.C246T p.A82A GGTCAGGGCCAGG . PASS Atlas-SNP