Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
HSPG2	3339	hgsc.bcm.edu	hg19	1	22180783	22180783	+	Silent	SNP	T	T	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HSPG2	NM_005529	exon50	c.A6342G	p.E2114E	CACATATTCTCCA	.	73.0	33.0	97.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	hg19	1	41976929	41976929	+	Silent	SNP	G	G	T	rs146058477	alternate_allele	TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HIVEP3	NM_024503	exon9	c.C6414A	p.A2138A	GGACTCGGCCTTC	.	33.0	17.0	37.0	0.0	.	235	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
ZSWIM5	57643	hgsc.bcm.edu	hg19	1	45485775	45485775	+	Silent	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ZSWIM5	NM_020883	exon13	c.G2658A	p.E886E	TACCATCTCCCTG	.	85.0	33.0	114.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	hg19	1	112299342	112299342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	DDX20	NM_007204	exon2	c.C376T	p.L126F	CTTGTTCTTGAAA	.	96.0	47.0	119.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
RFX5	5993	hgsc.bcm.edu	hg19	1	151317225	151317225	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	RFX5	NM_000449	exon6	c.A332T	p.Q111L	ACACTTTGCTTTG	.	123.0	54.0	124.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	hg19	1	152284898	152284898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	FLG,NS,lymphoid_neoplasm,0,1	FLG	NM_002016	exon3	c.C2464A	p.H822N	GCTCATGGTGGGA	.	95.0	33.0	103.0	0.0	.	900	.	.	.	none	.	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	hg19	1	169519125	169519125	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	F5	NM_000130	exon10	c.G1525A	p.V509M	TGTCCACGTCACT	.	120.0	43.0	152.0	0.0	.	301	.	.	.	none	.	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	hg19	2	160206448	160206448	+	Missense_Mutation	SNP	T	T	C	rs200214529	bycluster	TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	BAZ2B	NM_013450	exon28	c.A4634G	p.N1545S	TGGTCATTGGGGA	.	120.0	47.0	117.0	0.0	.	196	.	.	.	weak	.	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	hg19	2	168105464	168105464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	XIRP2,axilla,malignant_melanoma,0,1	XIRP2	NM_152381	exon9	c.C7562T	p.S2521F	TAAAATCTCATTC	.	234.0	80.0	240.0	0.0	.	914	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179460381	179460381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	TTN	NM_001267550	exon295	c.G57700A	p.V19234M	ATGTCACTGGGGT	.	171.0	66.0	194.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC150	284992	hgsc.bcm.edu	hg19	2	197576887	197576887	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	CCDC150	NM_001080539	exon16	c.G1714C	p.E572Q	CAGCTAGAAGAAC	.	167.0	65.0	165.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
SCG2	7857	hgsc.bcm.edu	hg19	2	224463934	224463934	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	SCG2	NM_003469	exon2	c.T67C	p.S23P	CCCCAGAGATGAG	.	195.0	75.0	225.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	hg19	3	9962215	9962215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	IL17RC	NM_153461	exon6	c.G719A	p.S240N	TAGGGAGTGAGGT	.	99.0	50.0	75.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	hg19	3	10442753	10442753	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ATP2B2	NM_001683	exon5	c.T665A	p.L222H	GCAGGGAGGAGGT	.	88.0	22.0	86.0	0.0	.	304	.	.	.	none	.	.	PASS	Atlas-SNP
ATG7	10533	hgsc.bcm.edu	hg19	3	11374553	11374553	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ATG7	NM_001136031	exon9	c.T875A	p.M292K	CAGAAATGGCATT	.	110.0	27.0	91.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
RBM15B	29890	hgsc.bcm.edu	hg19	3	51431071	51431071	+	Silent	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	RBM15B	NM_013286	exon1	c.C2241A	p.I747I	GGTGATCAGCAGT	.	125.0	75.0	79.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
GRAMD1C	54762	hgsc.bcm.edu	hg19	3	113659165	113659165	+	Silent	SNP	C	C	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	GRAMD1C	NM_017577	exon17	c.C1881G	p.L627L	AGTGCTCCGAGAC	.	151.0	31.0	112.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
FAM43A	131583	hgsc.bcm.edu	hg19	3	194408012	194408012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	FAM43A	NM_153690	exon1	c.T457C	p.F153L	AAGGTCTTCGCCT	.	23.0	10.0	13.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	hg19	4	1305935	1305935	+	Missense_Mutation	SNP	G	G	C	rs146286709	alternate_allele	TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	MAEA	NM_005882	exon2	c.G238C	p.V80L	CTCAGCGTCCTCA	.	67.0	21.0	122.0	0.0	.	39	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
SH3TC1	54436	hgsc.bcm.edu	hg19	4	8229479	8229479	+	Silent	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	SH3TC1	NM_018986	exon12	c.C2058T	p.P686P	CCTGCCCTTCCTA	.	42.0	13.0	87.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	hg19	4	11401470	11401470	+	Missense_Mutation	SNP	A	A	T	rs183663781	bycluster;by1000genomes;alternate_allele	TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HS3ST1	NM_005114	exon2	c.T160A	p.L54M	GCGGCAACTGCTG	.	30.0	13.0	49.0	0.0	.	41	.	.	.	alt	A|0.999;C|0.001	.	PASS	Atlas-SNP
COQ2	27235	hgsc.bcm.edu	hg19	4	84185397	84185397	+	Silent	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	COQ2	NM_015697	exon7	c.G1221A	p.K407K	GTCTGTCTTCTTT	.	201.0	71.0	249.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH18	54510	hgsc.bcm.edu	hg19	4	138452946	138452946	+	Silent	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	PCDH18,NS,carcinoma,0,1	PCDH18	NM_019035	exon1	c.G297A	p.Q99Q	GTTTTTCTGGCAC	.	89.0	33.0	134.0	0.0	.	229	.	.	.	none	.	.	PASS	Atlas-SNP
PPID	5481	hgsc.bcm.edu	hg19	4	159634384	159634384	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PPID	NM_005038	exon7	c.G781T	p.E261X	CTGTCTCAATAAC	.	77.0	34.0	86.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
PKD2L2	27039	hgsc.bcm.edu	hg19	5	137271569	137271569	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PKD2L2	NM_014386	exon13	c.C1755G	p.Y585X	TGACTACCAGCCT	.	56.0	22.0	62.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
F12	2161	hgsc.bcm.edu	hg19	5	176831557	176831557	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	F12	NM_000505	exon8	c.G743T	p.R248L	ACGTTCCGGTAGG	.	34.0	18.0	42.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	hg19	6	33638181	33638181	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ITPR3	NM_002224	exon19	c.G2269T	p.V757L	CTGGGCGTGGACC	.	52.0	46.0	67.0	0.0	.	409	.	.	.	none	.	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	hg19	7	5567773	5567773	+	Silent	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ACTB	NM_001101	exon5	c.C846T	p.I282I	CTTCATGATGGAG	.	90.0	27.0	68.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
C7orf63	79846	hgsc.bcm.edu	hg19	7	89903320	89903320	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	C7orf63	NM_001039706	exon9	c.A880T	p.K294X	GTATTTAAAAATC	.	272.0	140.0	208.0	1.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC132	55610	hgsc.bcm.edu	hg19	7	92905642	92905642	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	CCDC132	NM_024553	exon12	c.C967T	p.H323Y	ACTATTCATATAT	.	78.0	15.0	62.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM56	81844	hgsc.bcm.edu	hg19	7	100732116	100732116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	TRIM56_ENST00000306085,right_lower_lobe,carcinoma,0,2	TRIM56	NM_030961	exon3	c.C1523T	p.P508L	GGTCCCCCCGGAT	.	98.0	32.0	67.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
CHRM2	1129	hgsc.bcm.edu	hg19	7	136700128	136700128	+	Silent	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	CHRM2,NS,carcinoma,0,1	CHRM2	NM_001006632	exon3	c.G516A	p.E172E	TGTGGAGGATGGG	.	101.0	25.0	64.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	hg19	8	144990855	144990855	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PLEC	NM_201380	exon32	c.G13545T	p.W4515C	GTAGAGCCAGCCC	.	33.0	17.0	45.0	0.0	.	1144	.	.	.	none	.	.	PASS	Atlas-SNP
GDA	9615	hgsc.bcm.edu	hg19	9	74828909	74828909	+	Splice_Site	SNP	T	T	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	GDA	NM_001242507	exon5	c.356+2T>A	.	GAGAGGTAAAAGG	.	106.0	45.0	134.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	hg19	9	78710821	78710821	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PCSK5	NM_006200	exon8	c.G910C	p.G304R	GGCCTCGGCTCTG	.	81.0	32.0	99.0	0.0	.	329	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	hg19	9	78710822	78710822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PCSK5	NM_006200	exon8	c.G911A	p.G304D	GCCTCGGCTCTGT	.	82.0	31.0	101.0	0.0	.	329	.	.	.	none	.	.	PASS	Atlas-SNP
CDK5RAP2	55755	hgsc.bcm.edu	hg19	9	123216128	123216128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	CDK5RAP2	NM_018249	exon21	c.G2399A	p.R800Q	AGTTCCCGTACCA	.	116.0	42.0	106.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	hg19	9	134305606	134305606	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PRRC2B	NM_013318	exon1	c.T75A	p.D25E	GTTTGATAAGTAT	.	135.0	64.0	139.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
EBF3	253738	hgsc.bcm.edu	hg19	10	131757260	131757260	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	EBF3	NM_001005463	exon5	c.C423G	p.Y141X	GCCCTCGTAGACG	.	94.0	45.0	108.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	hg19	10	134646865	134646865	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	TTC40	NM_001200049	exon50	c.A7114C	p.T2372P	TACCTGTCTCTTC	.	124.0	51.0	163.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
SIGIRR	59307	hgsc.bcm.edu	hg19	11	407106	407106	+	Silent	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	SIGIRR	NM_001135053	exon7	c.T684C	p.L228L	GTCCGAAAGCACC	.	25.0	13.0	34.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	hg19	11	56000203	56000203	+	Silent	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	OR5T2	NM_001004746	exon1	c.C459T	p.L153L	AGCCAAGAGAAAG	.	91.0	37.0	107.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
FAM86C1	55199	hgsc.bcm.edu	hg19	11	71507154	71507154	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	FAM86C1	NM_018172	exon4	c.C353A	p.S118Y	TCAATTCTACATG	.	86.0	37.0	124.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
GIT2	9815	hgsc.bcm.edu	hg19	12	110390969	110390969	+	Silent	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	GIT2	NM_001135213	exon14	c.C1176T	p.P392P	ATAGTCGGGCTGA	.	90.0	46.0	84.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
MYCBP2	23077	hgsc.bcm.edu	hg19	13	77732194	77732194	+	Silent	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	MYCBP2	NM_015057	exon45	c.T6648C	p.H2216H	TGGTGAATGAGAA	.	101.0	36.0	100.0	0.0	.	1029	.	.	.	none	.	.	PASS	Atlas-SNP
OR11H4	390442	hgsc.bcm.edu	hg19	14	20711302	20711302	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	OR11H4	NM_001004479	exon1	c.G352T	p.G118X	TCACTGGGAACAA	.	68.0	4.0	91.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	hg19	14	23900190	23900190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	MYH7	NM_000257	exon10	c.G815A	p.R272K	ATAACTCTGGATT	.	29.0	15.0	36.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY4	196883	hgsc.bcm.edu	hg19	14	24798392	24798392	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ADCY4	NM_001198592	exon11	c.C1399T	p.L467F	CCTCAAGCGAGGA	.	64.0	27.0	96.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR5A	25938	hgsc.bcm.edu	hg19	14	31771694	31771694	+	Silent	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HEATR5A	NM_015473	exon33	c.C5271T	p.Y1757Y	TGTGAGGTACAAT	.	87.0	33.0	107.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
CALM1	801	hgsc.bcm.edu	hg19	14	90870770	90870770	+	Silent	SNP	A	A	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	CALM1	NM_006888	exon5	c.A333C	p.T111T	CATGACAAACTTA	.	197.0	96.0	213.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	hg19	15	28380665	28380665	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HERC2	NM_004667	exon79	c.G12189C	p.W4063C	CTCACCCCAAGAG	.	134.0	54.0	156.0	0.0	.	501	.	.	.	none	.	.	PASS	Atlas-SNP
RNF111	54778	hgsc.bcm.edu	hg19	15	59350658	59350658	+	Silent	SNP	T	T	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	RNF111	NM_017610	exon5	c.T1275A	p.T425T	TGATACTGCTTCA	.	80.0	27.0	99.0	0.0	.	179	.	.	.	none	.	.	PASS	Atlas-SNP
LACTB	114294	hgsc.bcm.edu	hg19	15	63419075	63419075	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	LACTB	NM_171846	exon3	c.G442T	p.V148F	GCTGATGTTGAGA	.	90.0	42.0	142.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
TRAP1	10131	hgsc.bcm.edu	hg19	16	3727498	3727498	+	Splice_Site	SNP	C	C	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	TRAP1	NM_001272049	exon6	c.545+1G>C	.	CACTCACCCATCT	.	79.0	29.0	67.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	hg19	16	27375041	27375041	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	IL4R	NM_000418	exon11	c.A2368G	p.K790E	AAGAGTAAATCCT	.	40.0	12.0	39.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
HAS3	3038	hgsc.bcm.edu	hg19	16	69148783	69148783	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HAS3	NM_005329	exon4	c.T1276C	p.Y426H	GCCACCTACGCCT	.	82.0	37.0	77.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
TRPV1	7442	hgsc.bcm.edu	hg19	17	3480920	3480920	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	TRPV1	NM_018727	exon11	c.T1685C	p.M562T	ATGCCCATCTGCT	.	129.0	39.0	129.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
SLC6A4	6532	hgsc.bcm.edu	hg19	17	28534784	28534784	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	SLC6A4	NM_001045	exon13	c.T1616A	p.I539N	CAGCAGATCCTCC	.	141.0	87.0	110.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
DDX5	1655	hgsc.bcm.edu	hg19	17	62499923	62499923	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	DDX5	NM_004396	exon5	c.A505G	p.I169V	TTACAATAGGCCC	.	222.0	85.0	205.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
PRKAR1A	5573	hgsc.bcm.edu	hg19	17	66511650	66511650	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PRKAR1A	NM_001276290	exon1	c.A110G	p.Q37R	TTGTGCAGTTGTG	.	68.0	37.0	55.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
EXOC7	23265	hgsc.bcm.edu	hg19	17	74097811	74097811	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	EXOC7	NM_001145298	exon3	c.T260G	p.V87G	CTGATGACATGGT	.	90.0	24.0	61.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
EXOC7	23265	hgsc.bcm.edu	hg19	17	74097812	74097812	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	EXOC7	NM_001145298	exon3	c.G259T	p.V87F	TGATGACATGGTC	.	86.0	22.0	63.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
HKR1	284459	hgsc.bcm.edu	hg19	19	37853726	37853726	+	Silent	SNP	C	C	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HKR1	NM_181786	exon6	c.C1029T	p.N343N	GTCGAACCTCTTT	.	72.0	32.0	81.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
IGFL3	388555	hgsc.bcm.edu	hg19	19	46623600	46623600	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	IGFL3	NM_207393	exon4	c.T365C	p.V122A	TACAGGACGTGCC	.	71.0	32.0	93.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
IGFL3	388555	hgsc.bcm.edu	hg19	19	46623601	46623601	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	IGFL3	NM_207393	exon4	c.G364T	p.V122F	ACAGGACGTGCCT	.	71.0	32.0	93.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
MAVS	57506	hgsc.bcm.edu	hg19	20	3842062	3842062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	MAVS	NM_020746	exon4	c.C376A	p.H126N	GCGGCCCACAGCA	.	257.0	147.0	223.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
SLC13A3	64849	hgsc.bcm.edu	hg19	20	45216777	45216777	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	SLC13A3	NM_022829	exon8	c.C1042A	p.L348I	AGAAAAGGATGAA	.	130.0	28.0	74.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
BCAS1	8537	hgsc.bcm.edu	hg19	20	52612540	52612540	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	BCAS1	NM_003657	exon5	c.A773C	p.D258A	GAGCAATCCGCAG	.	85.0	14.0	60.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
HSPA13	6782	hgsc.bcm.edu	hg19	21	15746238	15746238	+	Silent	SNP	G	G	T	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	HSPA13	NM_006948	exon5	c.C1116A	p.T372T	ATTAAGGGTATCA	.	113.0	42.0	107.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
FIGF	2277	hgsc.bcm.edu	hg19	X	15364334	15364334	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	FIGF	NM_004469	exon7	c.A986C	p.K329T	GCTGTTTTGCCAC	.	79.0	55.0	176.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ND2	0	hgsc.bcm.edu	hg19	MT	5226	5226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	.	ENST00000361453	exon1	c.G757A	p.G253S	CTAGGAGGCCTGC	.	199.0	191.0	19.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11150	11150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	.	ENST00000361381	exon1	c.G391A	p.A131T	ACCTTGGCTATCA	.	250.0	233.0	14.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MID1	4281	hgsc.bcm.edu	hg19	X	10535072	10535072	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	MID1	NM_033289	exon2	c.517delC	p.L173X	.	.	68.0	45.0	150.0	0.0	.	72	.	0.661765	0	none	.	.	PASS	Atlas-Indel,Pindel
ZZEF1	23140	hgsc.bcm.edu	hg19	17	3947660	3947660	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ZZEF1	NM_015113	exon38	c.6025delG	p.A2009fs	.	.	96.0	55.0	66.0	0.0	.	195	.	0.572917	0	none	.	.	PASS	Atlas-Indel,Pindel
LAMP2	3920	hgsc.bcm.edu	hg19	X	119565189	119565190	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	LAMP2	NM_002294	exon9	c.1222_1223insAT	p.E408fs	.	.	182.0	138.0	340.0	0.0	.	101	.	0.758242	0	none	.	.	PASS	Atlas-Indel,Pindel
PCDH18	54510	hgsc.bcm.edu	hg19	4	138452939	138452940	+	Frame_Shift_Ins	INS	-	-	CT	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	PCDH18	NM_019035	exon1	c.304_305insAG	p.L102fs	.	.	87.0	29.0	136.0	0.0	.	229	.	0.333333	0	none	.	.	PASS	Atlas-INDEL
ABCC9	10060	hgsc.bcm.edu	hg19	12	21962796	21962797	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	ABCC9	NM_020297	exon35	c.4305_4306del	p.1435_1436del	.	.	32.0	13.0	35.0	0.0	.	411	.	0.40625	0	none	.	.	PASS	Atlas-INDEL
STAT5B	6777	hgsc.bcm.edu	hg19	17	40369252	40369259	+	Frame_Shift_Del	DEL	TCACCGAC	TCACCGAC	-	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	TCACCGAC	TCACCGAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	STAT5B	NM_012448	exon11	c.1300_1307del	p.434_436del	.	.	172.0	73.0	132.0	0.0	.	89	.	0.424419	0	none	.	.	PASS	Atlas-Indel,Pindel
DVL3	1857	hgsc.bcm.edu	hg19	3	183888399	183888400	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	DVL3	NM_004423	exon15	c.2007_2008insC	p.M669fs	.	.	55.0	11.0	73.0	0.0	.	68	.	0.2	0	none	.	.	PASS	Atlas-INDEL
STAB1	23166	hgsc.bcm.edu	hg19	3	52555381	52555381	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-F9-A7VF-01A-11D-A33Q-10	TCGA-F9-A7VF-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6f35b843-6207-45fa-b18f-ad0f104f9651	491d7fcd-e412-4f53-a19a-d5d51744cd81	.	STAB1	NM_015136	exon56	c.5912delG	p.C1971fs	.	.	55.0	30.0	41.0	0.0	.	178	.	0.545455	0	none	.	.	PASS	Atlas-Indel,Pindel
