Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq Trna_tot Trna_ref Trna_var Trna_alt1 Trna_alt2 SRRM1 10250 ucsc.edu 37 1 24978030 24978030 + Missense_Mutation SNP G G A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . SRRM1-93 NM_005839 exon6 c.G652A p.E218K AAGAAGGAAAAAA . 97 1 94 1 . 9 9 0 0 0 MAST2 23139 bcgsc.ca 37 1 46493460 46493460 + Missense_Mutation SNP T T G rs1707336 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 T - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . MAST2-581 NM_015112 exon17 c.T1977G p.I659M CAAAATTGGCCTC . 217 6 197 0 G|0.475;N|0.000 10 10 0 0 0 HIST2H3D 653604 broad.mit.edu 37 1 149784860 149784861 + Frame_Shift_Del DEL TG TG - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . HIST2H3D-22 NM_001123375 exon1 c.376_377del p.126_126del GCCAACTGGATGT . 611 11 315 0 . 0 0 0 0 0 DENND4B 9909 hgsc.bcm.edu 37 1 153907287 153907287 + Missense_Mutation SNP G G C rs199597671 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . DENND4B-69 NM_014856 exon18 c.C2722G p.Q908E GCTGCTGCTGCTG . 113 6 63 0 . 5 5 0 0 0 FRMD4A 55691 hgsc.bcm.edu 37 10 13699100 13699100 + Nonsense_Mutation SNP G G T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . FRMD4A-229 NM_018027 exon22 c.C2489A p.S830X TACTGCGAGCTGG . 28 20 5 0 . 0 0 0 0 0 STAM 8027 broad.mit.edu 37 10 17730077 17730077 + Missense_Mutation SNP G G C novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . STAM-154 NM_003473 exon5 c.G349C p.D117H TGGACAGATGAAT . 117 4 120 0 . 5 5 0 0 0 IDE 3416 broad.mit.edu 37 10 94268534 94268534 + Silent SNP G G T rs201815833 alternate_allele TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . IDE-92 NM_004969 exon7 c.C1011A p.L337L CCCAATGAGATGA . 109 5 111 0 . 16 16 0 0 0 ERLIN1 10613 bcgsc.ca 37 10 101912064 101912064 + Missense_Mutation SNP T T C rs2862954 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 T - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . NM_006459 exon11 c.A871G p.I291V AAGCAATGGCCTG . 180 6 150 1 A|0.005;C|0.270 24 24 0 0 0 MUC2 4583 broad.mit.edu 37 11 1093292 1093292 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . MUC2-90 NM_002457 exon30 c.C5111T p.T1704I CCACCACCACTAC . 132 4 86 0 . 0 0 0 0 0 MUC5B 727897 hgsc.bcm.edu 37 11 1271221 1271221 + Missense_Mutation SNP A A G novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A A - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . NM_002458 exon31 c.A13111G p.T4371A AAGGCCACCACGA . 549 23 462 0 . 0 0 0 0 0 SYT8 90019 bcgsc.ca 37 11 1858262 1858262 + Missense_Mutation SNP C C T rs484955 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . SYT8-91 NM_138567 exon8 c.C908T p.T303M AGGGCACGGCGGC . 121 8 189 1 C|0.863;T|0.137 0 0 0 0 0 PGAP2 27315 broad.mit.edu 37 11 3845156 3845156 + Missense_Mutation SNP A A G novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PGAP2-90 NM_001256236 exon5 c.A563G p.E188G GCGGGGAGGTGCC . 81 30 20 3 . 10 10 0 0 0 PTPRJ 5795 bcgsc.ca 37 11 48166267 48166267 + Missense_Mutation SNP G G C rs4752904 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PTPRJ-541 NM_002843 exon13 c.G2616C p.E872D GTATGAGGATTTC . 112 5 133 1 G|0.569;C|0.431 0 0 0 0 0 ATN1 1822 hgsc.bcm.edu;ucsc.edu 37 12 7045900 7045900 + Silent SNP G G A rs142238167 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ATN1-139 NM_001007026 exon5 c.G1470A p.Q490Q GCAGCAGCAGCAG . 209 18 118 0 G|0.985;A|0.015 252 247 5 0 0 ATN1 1822 ucsc.edu 37 12 7045906 7045906 + Silent SNP G G A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ATN1-139 NM_001007026 exon5 c.G1476A p.Q492Q GCAGCAGCAGCAG . 195 27 98 0 . 364 361 3 0 0 ATN1 1822 hgsc.bcm.edu 37 12 7045924 7045924 + Missense_Mutation SNP G G T rs199988271 alternate_allele TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ATN1-139 NM_001007026 exon5 c.G1494T p.Q498H GCAGCAGCAGCAG . 194 20 81 0 G|0.999;A|0.001 344 344 0 0 0 TAS2R46 259292 hgsc.bcm.edu 37 12 11214495 11214510 + Frame_Shift_Del DEL TAGTATCACCAGAACA TAGTATCACCAGAACA - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 TAGTATCACCAGAACA TAGTATCACCAGAACA - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TAS2R46-1 NM_176887 exon1 c.384_399del p.128_133del CCCCAATAGTATC . 231 0 125 0 . 0 0 0 0 0 TUBA1C 84790 ucsc.edu 37 12 49666152 49666152 + Silent SNP G G A rs199599214 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TUBA1C-90 NM_032704 exon4 c.G492A p.K164K CAAGAAGTCCAAG . 373 38 252 37 G|0.998;A|0.002 1150 386 764 0 0 FAM186A 121006 broad.mit.edu 37 12 50744753 50744753 + Silent SNP T T C rs10506292 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . FAM186A-68 NM_001145475 exon4 c.A5862G p.K1954K CAATCTTTTCTTA . 116 4 69 0 T|0.350;C|0.650 0 0 0 0 0 DIP2B 57609 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 51072495 51072495 + Missense_Mutation SNP A A G novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A A - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . DIP2B-95 NM_173602 exon8 c.A950G p.E317G AGCCGGAGGGACG . 240 25 136 0 . 12 10 2 0 0 WSCD2 9671 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 108589790 108589790 + Missense_Mutation SNP G G T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . WSCD2-136 NM_014653 exon2 c.G181T p.G61C GCTGAGGGTGCTG . 339 74 173 1 . 1 1 0 0 0 TAOK3 51347 broad.mit.edu 37 12 118610311 118610311 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TAOK3-933 NM_016281 exon17 c.G1850A p.R617Q ATTTTCCGCTTGA . 494 10 264 0 . 56 54 2 0 0 FZD10 11211 broad.mit.edu 37 12 130647553 130647553 + Missense_Mutation SNP C C A rs200800452 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . FZD10-658 NM_007197 exon1 c.C66A p.S22R CATCAGCTCCATG . 244 17 71 1 . 0 0 0 0 0 RNF17 56163 broad.mit.edu 37 13 25367256 25367256 + Missense_Mutation SNP G G T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . RNF17-228 NM_001184993 exon10 c.G1012T p.D338Y TGTTACGATACAT . 126 3 103 0 . 0 0 0 0 0 FRY 10129 bcgsc.ca 37 13 32811974 32811974 + Missense_Mutation SNP C C T rs73169136 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . FRY-142 NM_023037 exon44 c.C6269T p.A2090V TCCAGGCACAGCT . 211 7 149 0 C|0.990;T|0.010 10 10 0 0 0 RNASE4 6038 bcgsc.ca 37 14 21167576 21167576 + Missense_Mutation SNP A A T rs3748338 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . RNASE4-514 NM_002937 exon2 c.A46T p.T16S CTGCTGACCCTGC . 57 4 59 0 A|0.887;N|0.000 2 2 0 0 0 ANKRD34C 390616 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 15 79587017 79587017 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . NM_001146341 exon2 c.C1391T p.P464L TCCTGCCGCCTTT . 84 6 73 0 . 0 0 0 0 0 C15orf37 283687 bcgsc.ca 37 15 80216532 80216532 + RNA SNP A A T rs2733101 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . . . . . TAACCGATGCCTA . 122 5 90 0 A|0.380;T|0.620 0 0 0 0 0 KREMEN2 79412 hgsc.bcm.edu 37 16 3017992 3017992 + Missense_Mutation SNP T T C novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 T T - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . KREMEN2-659 NM_172229 exon9 c.T1360C p.S454P CAGAGCTCCCTGC . 9 5 0 0 . 4 1 3 0 0 RRN3 54700 broad.mit.edu 37 16 15188060 15188060 + Missense_Mutation SNP G G A rs201504364 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . RRN3-91 NM_018427 exon1 c.C31T p.P11S CTCCCGGCAAACG . 407 11 88 2 G|0.997;A|0.003 27 27 0 0 0 RRN3 54700 broad.mit.edu 37 16 15188066 15188066 + Missense_Mutation SNP G G A rs200006712 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . RRN3-91 NM_018427 exon1 c.C25T p.R9C GCAAACGCGTGTG . 382 11 80 2 G|0.997;A|0.003 21 21 0 0 0 C16orf88 400506 broad.mit.edu 37 16 19722724 19722724 + Frame_Shift_Del DEL T T - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . C16orf88-68 NM_001012991 exon3 c.957delA p.K319fs GTTGCCTTTTTTT . 333 8 155 0 . 0 0 0 0 0 SEZ6L2 26470 hgsc.bcm.edu;ucsc.edu 37 16 29884982 29884982 + Missense_Mutation SNP C C T rs146085461 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . SEZ6L2-92 NM_001243332 exon13 c.G2173A p.V725I AGCCAACGGGGAA . 117 53 18 0 C|1.000;T|0.000 38 9 29 0 0 DHODH 1723 bcgsc.ca 37 16 72042682 72042682 + Missense_Mutation SNP A A C rs3213422 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . DHODH-227 NM_001361 exon1 c.A19C p.K7Q CACCTGAAAGTGA . 493 11 187 0 A|0.433;C|0.567 0 0 0 0 0 TBC1D26 353149 broad.mit.edu 37 17 15641610 15641610 + Missense_Mutation SNP A A G rs202131240 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TBC1D26-90 NM_178571 exon7 c.A296G p.Y99C GAGTATACAAAGT . 208 4 191 0 . 0 0 0 0 0 KRT12 3859 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 39021191 39021191 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . KRT12-91 NM_000223 exon3 c.G674A p.R225H CCCTGGCGCAGGG . 131 56 94 0 . 0 0 0 0 0 KLHL10 317719 broad.mit.edu;bcgsc.ca 37 17 40004254 40004254 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . KLHL10-227 NM_152467 exon5 c.C1522T p.R508C ACTTGGCGCACAA . 393 9 323 1 . 0 0 0 0 0 ENOSF1 55556 broad.mit.edu 37 18 683362 683362 + Missense_Mutation SNP G G A rs142662421 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ENOSF1-91 NM_202758 exon11 c.C823T p.R275C CCCAGCGCTGGTT . 252 5 231 0 G|0.999;A|0.001 37 37 0 0 0 NCOA1 8648 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 24951320 24951320 + Missense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . NCOA1-228 NM_147223 exon14 c.C2861T p.A954V ACAGAGCTCTGGG . 64 27 64 0 . 24 13 11 0 0 ST6GAL2 84620 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 107423245 107423245 + Missense_Mutation SNP C C A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ST6GAL2-191 NM_032528 exon6 c.G1479T p.Q493H CAGGCGCTGCACC . 159 32 120 1 . 0 0 0 0 0 FAM171B 165215 ucsc.edu 37 2 187559047 187559047 + Silent SNP G G A rs73979342 TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . FAM171B-141 NM_177454 exon1 c.G147A p.Q49Q GCAGCAGCAACAA . 135 16 88 0 G|0.500;A|0.500 29 18 11 0 0 SLC23A2 9962 hgsc.bcm.edu 37 20 4850569 4850569 + Frame_Shift_Del DEL G G - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . SLC23A2-92 NM_203327 exon12 c.1233delC p.P411fs GTGGATGGGGGGG . 405 11 183 2 . 0 0 0 0 0 RBM12 10137 ucsc.edu 37 20 34240740 34240740 + Silent SNP A A G novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A A - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . RBM12-93 NM_001198840 exon2 c.T2505C p.P835P TGGGCCAGGGCCG . 41 6 23 0 . 27 27 0 0 0 SMTN 6525 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 22 31495743 31495743 + Nonsense_Mutation SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . SMTN-154 NM_001207017 exon20 c.C2719T p.Q907X GACATCCAGAACT . 150 8 118 0 . 1 1 0 0 0 TMPRSS6 164656 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 22 37462261 37462261 + Silent SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TMPRSS6-292 NM_153609 exon18 c.G2295A p.P765P CACCAGCGGACCA . 185 47 88 0 . 0 0 0 0 0 NBEAL2 23218 broad.mit.edu 37 3 47043602 47043602 + Missense_Mutation SNP G G A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . NBEAL2-69 NM_015175 exon31 c.G4975A p.E1659K GCTGCAGAGCGCT . 73 3 35 0 . 4 4 0 0 0 PLXND1 23129 bcgsc.ca 37 3 129285429 129285429 + Missense_Mutation SNP G G T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PLXND1-90 NM_015103 exon23 c.C4132A p.L1378I AGTTGAGGGTCTG . 79 4 63 0 . 30 30 0 0 0 MUC4 4585 bcgsc.ca 37 3 195505805 195505805 + Missense_Mutation SNP A A C novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . MUC4-90 NM_018406 exon2 c.T12646G p.S4216A ATGCTGAGGAAGT . 646 34 306 8 . 0 0 0 0 0 UGT2B15 7366 bcgsc.ca 37 4 69536084 69536084 + Missense_Mutation SNP A A C rs1902023 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 A - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . UGT2B15-46 NM_001076 exon1 c.T253G p.Y85D CCAAATAATTTTT . 289 10 294 2 A|0.468;C|0.532 0 0 0 0 0 ADH1A 124 ucsc.edu 37 4 100203572 100203572 + Silent SNP C C T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C C - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . ADH1A-227 NM_000667 exon6 c.G759A p.E253E TAGCACCTCCTGG . 404 15 282 16 . 1788 1 1785 1 1 PCDHB3 56132 ucsc.edu 37 5 140482342 140482342 + Silent SNP T T C rs17844403 bycluster;byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 T T - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PCDHB3-92 NM_018937 exon1 c.T2109C p.F703F CCTCTTTTCGGTG . 67 9 11 0 T|0.997;C|0.003 34 10 24 0 0 PRRC2A 7916 broad.mit.edu 37 6 31597341 31597358 + In_Frame_Del DEL AGCAGCAGCAGCACCAGT AGCAGCAGCAGCACCAGT - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PRRC2A-156 NM_004638 exon14 c.1973_1990del p.658_664del TGAAGCAGCAGCA . 6 4 4 0 . 0 0 0 0 0 LAMA2 3908 bcgsc.ca 37 6 129722453 129722453 + Missense_Mutation SNP C C A rs56173620 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . LAMA2-162 NM_000426 exon38 c.C5530A p.R1844S GCCAACCGTCTTG . 88 4 67 0 C|0.989;A|0.011 0 0 0 0 0 POU5F1B 5462 bcgsc.ca 37 8 128428621 128428621 + Silent SNP C C A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . NM_001159542 exon1 c.C510A p.I170I GCTCATCCTGGGG . 30 4 45 0 . 0 0 0 0 0 GNAQ 2776 broad.mit.edu 37 9 80646047 80646047 + Silent SNP G G A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . GNAQ-3808 NM_002072 exon1 c.C105T p.D35D GCGGGCGTCCCGC . 100 10 18 0 . 4 4 0 0 0 COL15A1 1306 ucsc.edu 37 9 101748114 101748114 + Missense_Mutation SNP G G A novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 G G - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . COL15A1-96 NM_001855 exon3 c.G368A p.R123Q GCCTGCGGCTCTC . 140 2 113 0 . 64 34 30 0 0 KIAA0368 23392 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 9 114195628 114195628 + Missense_Mutation SNP T T C novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 T T - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . KIAA0368-68 NM_001080398 exon9 c.A1267G p.I423V CTTCTATGAATTT . 152 8 120 0 . 14 14 0 0 0 TNMD 64102 broad.mit.edu 37 X 99854070 99854070 + Frame_Shift_Del DEL A A - novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . TNMD-130 NM_022144 exon6 c.635delA p.E212fs CCAACGAAAAAAA . 458 7 226 0 . 0 0 0 0 0 CAPN6 827 bcgsc.ca 37 X 110494841 110494841 + Missense_Mutation SNP C C G rs12013711 byfrequency TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 C - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . CAPN6-195 NM_014289 exon6 c.G829C p.V277L TATACACCTTCTC . 288 8 154 0 C|0.723;0|0.021 0 0 0 0 0 PGRMC1 10857 broad.mit.edu 37 X 118370384 118370384 + Missense_Mutation SNP G G T novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . PGRMC1-130 NM_006667 exon1 c.G58T p.G20W AGCGGCGGGCTGC . 139 5 29 0 . 43 43 0 0 0 KRTAP9-1 728318 hgsc.bcm.edu 37 17 39346616 39346617 + In_Frame_Ins INS - - AGCCTAGCTGTGGGTCCAGCTGCTGCC novel TCGA-PA-A5YG-01A-11D-A29I-10 TCGA-PA-A5YG-10A-01D-A29L-10 - - - - - - Unknown Untested Somatic Phase_I WXS none . . Illumina GAIIx bc84db10-201a-4c8c-b43f-6a4557ecd98c 13f7f8b4-77e2-4100-b2fe-c35064ead1ea . . NM_001190460 exon1 c.478_479insAGCCTAGCTGTGGGTCCAGCTGCTGCC p.Q160delinsQPSCGSSCCQ TGCTGCCAGCCTT . 227 0 106 0 . 0 0 0 0 0