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
TTC4	7268	hgsc.bcm.edu	hg19	1	55183223	55183223	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TTC4	NM_004623	exon3	c.G288C	p.K96N	CTACAAGAAAGCT	.	156.0	55.0	176.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
ASH1L	55870	hgsc.bcm.edu	hg19	1	155313421	155313421	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ASH1L	NM_018489	exon23	c.C8094T	p.R2698R	CTCAATGCGAAAG	.	177.0	64.0	186.0	0.0	.	279	.	.	.	none	.	.	PASS	Atlas-SNP
LMNA	4000	hgsc.bcm.edu	hg19	1	156107474	156107474	+	Silent	SNP	A	A	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	LMNA	NM_170707	exon10	c.A1638C	p.S546S	GCGCTCAGTGACT	.	77.0	29.0	74.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
AXDND1	126859	hgsc.bcm.edu	hg19	1	179339155	179339155	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	AXDND1	NM_144696	exon4	c.C316G	p.R106G	CCTGTTCGAAGGA	.	106.0	44.0	104.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
CAPN13	92291	hgsc.bcm.edu	hg19	2	30987162	30987162	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CAPN13	NM_144575	exon6	c.T535C	p.S179P	AATAGGATCCGAG	.	136.0	55.0	102.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
XPO1	7514	hgsc.bcm.edu	hg19	2	61705989	61705989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	XPO1	NM_003400	exon25	c.A3182G	p.N1061S	TGTGGATTAAAGA	.	42.0	20.0	68.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	hg19	2	62067237	62067237	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	FAM161A	NM_032180	exon3	c.A902G	p.K301R	TTTTGCTTGACTA	.	46.0	21.0	67.0	0.0	.	200	.	.	.	none	.	.	PASS	Atlas-SNP
RTKN	6242	hgsc.bcm.edu	hg19	2	74656034	74656034	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RTKN	NM_001015055	exon7	c.T791C	p.L264P	AGGGTGAGTGTGG	.	232.0	68.0	249.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	hg19	2	84846836	84846836	+	Silent	SNP	T	T	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	DNAH6	NM_001370	exon24	c.T3600G	p.L1200L	TGAACTTCTGGAG	.	54.0	23.0	67.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	hg19	2	152390040	152390040	+	Silent	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	NEB	NM_001271208	exon144	c.C21438A	p.A7146A	CATCTTGGCACTA	.	56.0	4.0	76.0	0.0	.	1697	.	.	.	none	.	.	PASS	Atlas-SNP
AGPS	8540	hgsc.bcm.edu	hg19	2	178257747	178257747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	AGPS	NM_003659	exon1	c.C230T	p.A77V	CCGCCGCGCAGGA	.	53.0	31.0	51.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179598544	179598544	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TTN	NM_001267550	exon53	c.T15572G	p.V5191G	CCTCTCACAGCAG	.	151.0	66.0	154.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179598545	179598545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TTN	NM_001267550	exon53	c.G15571T	p.V5191L	CTCTCACAGCAGC	.	151.0	65.0	156.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186672719	186672719	+	Missense_Mutation	SNP	T	T	C	rs377239551		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	FSIP2	NM_173651	exon17	c.T18953C	p.I6318T	GTAAGATTAAACT	.	152.0	14.0	111.0	0.0	.	251	.	.	.	weak	.	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	hg19	2	198265131	198265131	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SF3B1	NM_012433	exon19	c.A2746G	p.T916A	CCACTGTGCCAAA	.	176.0	77.0	178.0	0.0	.	1038	.	.	.	none	.	.	PASS	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	hg19	3	38966961	38966961	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SCN11A	NM_014139	exon5	c.G657C	p.L219F	CAGGGGCAATAGT	.	141.0	53.0	132.0	0.0	.	296	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNB1	5364	hgsc.bcm.edu	hg19	3	48465285	48465285	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	PLXNB1	NM_001130082	exon3	c.G736A	p.A246T	CATAGGCACGAAA	.	188.0	81.0	218.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
NISCH	11188	hgsc.bcm.edu	hg19	3	52505969	52505969	+	Silent	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	NISCH	NM_001276293	exon5	c.C549T	p.F183F	GGACTTCACCTGT	.	284.0	18.0	323.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
SKIL	6498	hgsc.bcm.edu	hg19	3	170078913	170078913	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SKIL	NM_001248008	exon1	c.A794T	p.E265V	AAGTGGAGCATGA	.	190.0	66.0	187.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
RUFY3	22902	hgsc.bcm.edu	hg19	4	71629308	71629308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RUFY3	NM_001130709	exon3	c.G572A	p.G191E	TCTGGGGGCCTCT	.	104.0	50.0	184.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
NSUN2	54888	hgsc.bcm.edu	hg19	5	6600168	6600168	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	NSUN2	NM_017755	exon19	c.C2175T	p.T725T	CTGTCCGGTGCTG	.	146.0	64.0	125.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
FASTKD3	79072	hgsc.bcm.edu	hg19	5	7867451	7867451	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	FASTKD3	NM_024091	exon2	c.A746G	p.E249G	AATGTTTCCAATT	.	32.0	11.0	31.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	hg19	5	60840060	60840060	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ZSWIM6	NM_020928	exon14	c.G3564T	p.Q1188H	CATTCAGTTTACA	.	138.0	50.0	136.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	hg19	6	31938842	31938842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	DOM3Z	NM_005510	exon3	c.G439A	p.E147K	AGCCCTCCTGCCG	.	88.0	34.0	90.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
PGK2	5232	hgsc.bcm.edu	hg19	6	49753793	49753793	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	PGK2	NM_138733	exon1	c.G1108C	p.V370L	CTATAACAGTGAT	.	189.0	53.0	195.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
GIGYF1	64599	hgsc.bcm.edu	hg19	7	100279805	100279805	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	GIGYF1	NM_022574	exon22	c.G2815A	p.D939N	TATAATCGTGGAC	.	81.0	5.0	50.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
FOXP2	93986	hgsc.bcm.edu	hg19	7	114302186	114302186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	FOXP2	NM_148898	exon15	c.G1789A	p.V597I	GGAGCAGTATGGA	.	245.0	53.0	157.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	hg19	7	116415114	116415114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	MET	NM_001127500	exon15	c.G3262A	p.V1088M	CATGTAGTGATTG	.	205.0	127.0	133.0	0.0	.	412	.	.	.	none	.	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	hg19	7	116415115	116415115	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	MET,NS,carcinoma,0,1	MET	NM_001127500	exon15	c.T3263G	p.V1088G	ATGTAGTGATTGG	.	202.0	125.0	132.0	0.0	.	412	.	.	.	none	.	.	PASS	Atlas-SNP
AASS	10157	hgsc.bcm.edu	hg19	7	121717970	121717970	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	AASS	NM_005763	exon23	c.G2584T	p.G862W	TGTCCCCATAAGC	.	222.0	21.0	143.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
AASS	10157	hgsc.bcm.edu	hg19	7	121717971	121717971	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	AASS	NM_005763	exon23	c.T2583C	p.Y861Y	GTCCCCATAAGCC	.	222.0	21.0	145.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	hg19	7	138566237	138566237	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	KIAA1549	NM_020910	exon11	c.C4126A	p.P1376T	GCAGTGGCGCTGG	.	259.0	71.0	196.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	hg19	8	41547822	41547822	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ANK1	NM_001142446	exon34	c.C4150T	p.L1384L	TGCGCAGAAACGA	.	136.0	57.0	146.0	0.0	.	497	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB10	65986	hgsc.bcm.edu	hg19	8	81412103	81412103	+	Silent	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ZBTB10	NM_023929	exon2	c.T1347C	p.S449S	AATGAGTGAAGTT	.	67.0	21.0	83.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	hg19	9	5078361	5078361	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	JAK2,colon,carcinoma,-1,3	JAK2	NM_004972	exon16	c.G2048T	p.R683I	TTATCAGAGAAGA	.	71.0	25.0	66.0	1.0	.	35466	.	.	.	none	.	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	hg19	9	32459420	32459420	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	DDX58	NM_014314	exon17	c.C2430A	p.C810X	CTTTCTGCAGAGC	.	47.0	4.0	57.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	hg19	9	79820297	79820297	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	VPS13A	NM_001018038	exon4	c.A256G	p.I86V	GAAGAAATTTATT	.	55.0	34.0	59.0	0.0	.	735	.	.	.	none	.	.	PASS	Atlas-SNP
CTSL2	1515	hgsc.bcm.edu	hg19	9	99799669	99799669	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CTSL2	NM_001201575	exon4	c.A261C	p.E87D	CCTGAATTCTTCA	.	114.0	55.0	108.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	hg19	10	64968540	64968540	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	JMJD1C	NM_032776	exon10	c.T2889C	p.F963F	TTCCATAAAAGCT	.	28.0	11.0	29.0	0.0	.	347	.	.	.	none	.	.	PASS	Atlas-SNP
P4HA1	5033	hgsc.bcm.edu	hg19	10	74810906	74810906	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	P4HA1	NM_001142596	exon7	c.C805T	p.Q269X	TTTTCTGATCAGA	.	65.0	34.0	76.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
FAM35A	54537	hgsc.bcm.edu	hg19	10	88911776	88911776	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	FAM35A	NM_019054	exon3	c.C665G	p.S222X	ATAAGTCAAGGTC	.	113.0	40.0	134.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
ACCSL	390110	hgsc.bcm.edu	hg19	11	44079985	44079985	+	Silent	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ACCSL	NM_001031854	exon12	c.C1446T	p.L482L	TGGCCTCTATGTC	.	128.0	60.0	116.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	hg19	11	76893004	76893004	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	MYO7A	NM_001127179	exon24	c.A2912G	p.E971G	ACCTGGAGCGAGG	.	94.0	4.0	71.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	hg19	11	108381026	108381026	+	Silent	SNP	T	T	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	EXPH5	NM_015065	exon6	c.A5208C	p.T1736T	GGTGAATGTGATG	.	108.0	41.0	101.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
MCAM	4162	hgsc.bcm.edu	hg19	11	119182661	119182661	+	Splice_Site	SNP	T	T	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	MCAM	NM_006500	exon11	c.1144-2A>T	.	CCTGTCTGGGATG	.	29.0	15.0	39.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	hg19	12	7984344	7984344	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SLC2A14	NM_153449	exon5	c.T197A	p.I66N	TTATTGATAAATT	.	191.0	61.0	129.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	hg19	12	12274330	12274330	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	LRP6	NM_002336	exon23	c.C4572G	p.H1524Q	TGCAAAGTGCCGG	.	166.0	37.0	120.0	0.0	.	170	.	.	.	none	.	.	PASS	Atlas-SNP
ARID2	196528	hgsc.bcm.edu	hg19	12	46244883	46244883	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ARID2	NM_152641	exon15	c.A2977T	p.T993S	TCCTCTACCCCTC	.	393.0	114.0	248.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	hg19	12	78591182	78591182	+	Splice_Site	SNP	G	G	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	NAV3	NM_014903	exon34	c.6380+1G>C	.	CAAATGGTATGCT	.	27.0	13.0	21.0	0.0	.	506	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN2	6311	hgsc.bcm.edu	hg19	12	111926345	111926345	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ATXN2	NM_002973	exon15	c.T2655C	p.V885V	AGTCTGAACCCCT	.	154.0	85.0	99.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	hg19	12	120158284	120158284	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CIT	NM_001206999	exon30	c.A3839G	p.K1280R	CTCACCTTTTTCT	.	163.0	88.0	127.0	0.0	.	535	.	.	.	none	.	.	PASS	Atlas-SNP
VWA8	23078	hgsc.bcm.edu	hg19	13	42440068	42440068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	.	NM_015058	exon11	c.G1317A	p.M439I	TTTAACCATGTGA	.	73.0	36.0	75.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SIX4	51804	hgsc.bcm.edu	hg19	14	61186919	61186919	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SIX4	NM_017420	exon2	c.A1108T	p.I370F	CCTGAATAAAAGA	.	103.0	37.0	110.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
GPHN	10243	hgsc.bcm.edu	hg19	14	67647539	67647539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	GPHN	NM_020806	exon23	c.G2195A	p.R732H	GCAGCCGTCTGAT	.	125.0	58.0	123.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
CASKIN1	57524	hgsc.bcm.edu	hg19	16	2239295	2239295	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CASKIN1	NM_020764	exon5	c.G430T	p.V144L	TGTCCACCATGCA	.	77.0	4.0	81.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM159	57146	hgsc.bcm.edu	hg19	16	21185458	21185458	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TMEM159	NM_020422	exon4	c.G393C	p.W131C	CTGCTGGTTTTCT	.	127.0	59.0	113.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
ZP2	7783	hgsc.bcm.edu	hg19	16	21214557	21214557	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ZP2	NM_003460	exon10	c.C988A	p.L330I	GGAGTAGGCATTT	.	54.0	31.0	62.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
SETD1A	9739	hgsc.bcm.edu	hg19	16	30976286	30976286	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SETD1A	NM_014712	exon7	c.C1223A	p.S408Y	CACCTTCTTACAC	.	63.0	19.0	64.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
THAP11	57215	hgsc.bcm.edu	hg19	16	67876718	67876718	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	THAP11	NM_020457	exon1	c.G261T	p.E87D	CAATGAGCGCAAA	.	28.0	12.0	47.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
LGALS9	3965	hgsc.bcm.edu	hg19	17	25967635	25967635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	LGALS9	NM_009587	exon3	c.G169A	p.D57N	GGAAATGACATTG	.	819.0	207.0	609.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
WIPI1	55062	hgsc.bcm.edu	hg19	17	66440668	66440668	+	Silent	SNP	C	C	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	WIPI1	NM_017983	exon4	c.G396A	p.L132L	GGTCTTCAACAGC	.	119.0	31.0	74.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
RBBP8	5932	hgsc.bcm.edu	hg19	18	20562277	20562277	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RBBP8	NM_203292	exon7	c.G525A	p.R175R	TAACCGGCTACGA	.	138.0	44.0	112.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM4	54795	hgsc.bcm.edu	hg19	19	49714007	49714007	+	Silent	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TRPM4	NM_017636	exon22	c.G3369T	p.T1123T	GCTAACGTGGGAA	.	125.0	41.0	186.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
TMC4	147798	hgsc.bcm.edu	hg19	19	54669261	54669261	+	Silent	SNP	G	G	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TMC4	NM_001145303	exon6	c.C855A	p.S285S	AGCCTCGGACTCC	.	52.0	25.0	67.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	hg19	20	55033659	55033659	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CASS4	NM_020356	exon6	c.C2217A	p.H739Q	CAGTCACCTCTGC	.	94.0	11.0	106.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	hg19	20	61300283	61300283	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	SLCO4A1	NM_016354	exon11	c.G1878A	p.G626G	CGCAGGGGGCATC	.	20.0	14.0	19.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	hg19	21	46875643	46875643	+	Missense_Mutation	SNP	C	C	G	rs375087150	alternate_allele	TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	COL18A1	NM_030582	exon1	c.C199G	p.R67G	ACCCCCCGGAATG	.	131.0	60.0	159.0	0.0	.	129	.	.	.	alt	.	.	PASS	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	hg19	22	17488934	17488934	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	GAB4	NM_001037814	exon1	c.C71T	p.S24L	GGCCACGAAGACA	.	46.0	14.0	49.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
TRAF3IP2	10758	hgsc.bcm.edu	hg19	6	111912891	111912891	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TRAF3IP2	NM_001164281	exon2	c.400delA	p.M134fs	.	.	86.0	32.0	82.0	0.0	.	35	.	0.372093	0	none	.	.	PASS	Atlas-Indel,Pindel
CSE1L	1434	hgsc.bcm.edu	hg19	20	47705894	47705895	+	Frame_Shift_Ins	INS	-	-	TT	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CSE1L	NM_001316	exon18	c.1932_1933insTT	p.L644fs	.	.	64.0	15.0	73.0	0.0	.	83	.	0.234375	0	none	.	.	PASS	Atlas-Indel,Pindel
DHTKD1	55526	hgsc.bcm.edu	hg19	10	12162862	12162863	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	DHTKD1	NM_018706	exon17	c.2735_2736insT	p.D912fs	.	.	90.0	37.0	94.0	0.0	.	104	.	0.411111	0	none	.	.	PASS	Atlas-Indel,Pindel
EP300	2033	hgsc.bcm.edu	hg19	22	41558757	41558757	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	EP300	NM_001429	exon21	c.3701delG	p.R1234fs	.	.	132.0	51.0	134.0	0.0	.	367	.	0.386364	0	none	.	.	PASS	Atlas-Indel,Pindel
ALG6	29929	hgsc.bcm.edu	hg19	1	63868011	63868011	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	ALG6	NM_013339	exon4	c.253delT	p.Y85fs	.	.	37.0	19.0	41.0	0.0	.	33	.	0.513514	0	none	.	.	PASS	Atlas-Indel,Pindel
EML5	161436	hgsc.bcm.edu	hg19	14	89171882	89171883	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	EML5	NM_183387	exon12	c.1876_1877insA	p.V626fs	.	.	41.0	18.0	32.0	0.0	.	141	.	0.439024	0	none	.	.	PASS	Atlas-Indel,Pindel
TDRD1	56165	hgsc.bcm.edu	hg19	10	115947630	115947635	+	In_Frame_Del	DEL	AATTTG	AATTTG	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	AATTTG	AATTTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	TDRD1	NM_198795	exon2	c.39_44del	p.13_15del	.	.	70.0	20.0	95.0	0.0	.	126	.	0.285714	0	none	.	.	PASS	Atlas-Indel,Pindel
WWP1	11059	hgsc.bcm.edu	hg19	8	87447714	87447715	+	Frame_Shift_Ins	INS	-	-	AATTTTT	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	WWP1	NM_007013	exon15	c.1635_1636insAATTTTT	p.R545fs	.	.	120.0	17.0	172.0	0.0	.	97	.	0.141667	0	none	.	.	PASS	Atlas-INDEL
RELA	5970	hgsc.bcm.edu	hg19	11	65425828	65425840	+	Frame_Shift_Del	DEL	GGAGACACGCACA	GGAGACACGCACA	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	GGAGACACGCACA	GGAGACACGCACA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RELA	NM_001243985	exon8	c.796_808del	p.266_270del	.	.	78.0	18.0	110.0	0.0	.	44	.	0.230769	0	none	.	.	PASS	Atlas-Indel,Pindel
RAF1	5894	hgsc.bcm.edu	hg19	3	12653543	12653543	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RAF1	NM_002880	exon3	c.227delT	p.M76fs	.	.	118.0	55.0	126.0	0.0	.	66	.	0.466102	0	none	.	.	PASS	Atlas-Indel,Pindel
BCL2L14	79370	hgsc.bcm.edu	hg19	12	12247627	12247628	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	BCL2L14	NM_138723	exon5	c.707_708del	p.236_236del	.	.	276.0	71.0	203.0	0.0	.	47	.	0.257246	0	none	.	.	PASS	Atlas-Indel,Pindel
RYR3	6263	hgsc.bcm.edu	hg19	15	34130027	34130027	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	RYR3	NM_001036	exon89	c.11845delG	p.E3949fs	.	.	83.0	45.0	85.0	0.0	.	760	.	0.542169	0	none	.	.	PASS	Atlas-Indel,Pindel
KRTAP19-7	337974	hgsc.bcm.edu	hg19	21	31933587	31933587	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	KRTAP19-7	NM_181614	exon1	c.23delA	p.Y8fs	.	.	220.0	104.0	198.0	0.0	.	23	.	0.472727	0	none	.	.	PASS	Atlas-Indel,Pindel
CNTF	1270	hgsc.bcm.edu	hg19	11	58391968	58391968	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	CNTF	NM_000614	exon2	c.575delA	p.H192fs	.	.	68.0	28.0	73.0	0.0	.	22	.	0.411765	0	none	.	.	PASS	Atlas-Indel,Pindel
PCDHB10	56126	hgsc.bcm.edu	hg19	5	140573409	140573413	+	Frame_Shift_Del	DEL	ACCCA	ACCCA	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	ACCCA	ACCCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	PCDHB10	NM_018930	exon1	c.1283_1287del	p.428_429del	.	.	145.0	23.0	188.0	0.0	.	177	.	0.159	.	none	.	.	PASS	Pindel
WWP1	11059	hgsc.bcm.edu	hg19	8	87447715	87447715	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	.	WWP1	NM_007013	exon15	c.1635delC	p.R545fs	.	.	119.0	15.0	172.0	0.0	.	97	.	0.126	.	none	.	.	PASS	Pindel