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
CLSTN1	22883	hgsc.bcm.edu	hg19	1	9809529	9809529	+	Silent	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	CLSTN1	NM_001009566	exon7	c.C975T	p.H325H	GAGCCGGTGGAGG	.	74.0	32.0	89.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
IFFO2	126917	hgsc.bcm.edu	hg19	1	19282228	19282228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	IFFO2	NM_001136265	exon1	c.C599T	p.P200L	ATCTCCGGCGTGA	.	34.0	8.0	43.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
CSDE1	7812	hgsc.bcm.edu	hg19	1	115277116	115277116	+	Missense_Mutation	SNP	T	T	A	rs200868850	alternate_allele	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	CSDE1	NM_001242891	exon8	c.A667T	p.M223L	ACAGCATAATGTT	.	295.0	34.0	389.0	0.0	.	145	.	.	.	alt	.	.	PASS	Atlas-SNP
RPRD2	23248	hgsc.bcm.edu	hg19	1	150443766	150443766	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	RPRD2	NM_015203	exon11	c.A2342C	p.E781A	CCCGAGAGCTCTC	.	109.0	43.0	127.0	0.0	.	189	.	.	.	none	.	.	PASS	Atlas-SNP
KDM5B	10765	hgsc.bcm.edu	hg19	1	202701002	202701002	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	KDM5B	NM_006618	exon24	c.T3975G	p.Y1325X	GTGCAAATATGAG	.	70.0	21.0	61.0	0.0	.	166	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	hg19	1	208234136	208234136	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	PLXNA2	NM_025179	exon13	c.T2633A	p.I878N	CCATGGATGGTCA	.	89.0	39.0	128.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	hg19	1	208234142	208234142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	PLXNA2	NM_025179	exon13	c.T2627C	p.V876A	ATGGTCACTCGCG	.	84.0	38.0	121.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
PTPN14	5784	hgsc.bcm.edu	hg19	1	214557537	214557537	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	PTPN14	NM_005401	exon13	c.G1661A	p.S554N	GCCGTGCTGTAGT	.	50.0	20.0	61.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC5G	285126	hgsc.bcm.edu	hg19	2	27500675	27500675	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	DNAJC5G	NM_173650	exon4	c.T167A	p.L56Q	GGAAACTGGCCTT	.	79.0	21.0	108.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	hg19	2	131976330	131976330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	.	NM_001083538	exon1	c.G355A	p.A119T	GTGGGCGCTTGGG	.	230.0	80.0	239.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GPR39	2863	hgsc.bcm.edu	hg19	2	133403162	133403162	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	GPR39	NM_001508	exon2	c.C1345A	p.Q449K	GGTTTTCAGGAGC	.	64.0	30.0	58.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	hg19	2	152382499	152382499	+	Silent	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	NEB_ENST00000427231,NS,carcinoma,0,3	NEB	NM_001271208	exon151	c.C22239T	p.V7413V	TTCCTTGACGTGA	.	102.0	25.0	126.0	0.0	.	1697	.	.	.	none	.	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	hg19	2	189867767	189867767	+	Silent	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	COL3A1	NM_000090	exon36	c.C2532T	p.P844P	AGGACCCCCTGGA	.	79.0	26.0	103.0	0.0	.	292	.	.	.	none	.	.	PASS	Atlas-SNP
IQCJ-SCHIP1	100505385	hgsc.bcm.edu	hg19	3	159606614	159606614	+	Silent	SNP	A	A	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	IQCJ-SCHIP1	NM_001197113	exon9	c.A1428T	p.P476P	GCTGCCACACATG	.	81.0	63.0	92.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
FAM193A	8603	hgsc.bcm.edu	hg19	4	2632748	2632748	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	FAM193A	NM_003704	exon3	c.T17A	p.L6H	GCCTGCTCCGGCA	.	60.0	18.0	76.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
LNX1	84708	hgsc.bcm.edu	hg19	4	54343069	54343069	+	Silent	SNP	T	T	C	rs151307935	alternate_allele	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	LNX1	NM_001126328	exon9	c.A1743G	p.T581T	GGATGATGTTCTT	.	46.0	21.0	69.0	0.0	.	139	.	.	.	alt	T|1.000;G|0.000	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	hg19	4	56876035	56876035	+	Missense_Mutation	SNP	A	A	G	rs148279836		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	CEP135	NM_025009	exon19	c.A2471G	p.Q824R	GACTGCAAGATGA	.	144.0	45.0	251.0	0.0	.	115	.	.	.	weak	A|1.000;G|0.000	0.000	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	hg19	5	139781730	139781730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	ANKHD1-EIF4EBP3,NS,carcinoma,0,2	ANKHD1	NM_017978	exon1	c.G178A	p.G60S	AGCAGCGGCGGCG	.	59.0	3.0	69.0	1.0	.	233	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38825504	38825504	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	DNAH8	NM_001206927	exon42	c.A5944G	p.I1982V	AGAGATATTTTTG	.	111.0	53.0	130.0	0.0	.	1239	.	.	.	none	.	.	PASS	Atlas-SNP
EZR	7430	hgsc.bcm.edu	hg19	6	159188095	159188095	+	Missense_Mutation	SNP	G	G	C	rs367907031	alternate_allele	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	EZR	NM_003379	exon13	c.C1612G	p.L538V	GGGACAGCTCGCT	.	95.0	32.0	89.0	0.0	.	44	.	.	.	alt	.	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	hg19	6	170871004	170871004	+	Silent	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	TBP	NM_003194	exon3	c.G180A	p.Q60Q	GCAGCAGCAACAA	.	41.0	5.0	47.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
AUTS2	26053	hgsc.bcm.edu	hg19	7	70255844	70255844	+	Silent	SNP	A	A	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	AUTS2	NM_015570	exon19	c.A3642G	p.T1214T	TCCGACAGCAGCG	.	106.0	30.0	80.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
MTFR1	9650	hgsc.bcm.edu	hg19	8	66617127	66617127	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MTFR1	NM_014637	exon5	c.A480C	p.K160N	TGCCAAAATTGTG	.	127.0	51.0	122.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
SULF1	23213	hgsc.bcm.edu	hg19	8	70488224	70488224	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	SULF1	NM_001128205	exon6	c.C192G	p.N64K	CATGAACAAAACG	.	89.0	33.0	91.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	114326898	114326898	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	CSMD3_ENST00000343508,NS,carcinoma,0,2	CSMD3	NM_052900	exon2	c.T303G	p.N101K	TATTCTATTTCGT	.	131.0	52.0	136.0	0.0	.	2325	.	.	.	none	.	.	PASS	Atlas-SNP
SIGMAR1	10280	hgsc.bcm.edu	hg19	9	34637563	34637563	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	SIGMAR1	NM_005866	exon1	c.G132C	p.Q44H	CGCCAACTGCGCT	.	33.0	7.0	37.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
TMOD1	7111	hgsc.bcm.edu	hg19	9	100286582	100286582	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	TMOD1,NS,carcinoma,0,1	TMOD1	NM_001166116	exon2	c.G112A	p.D38N	GAGCTGGACCCTG	.	77.0	30.0	101.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PRDM12	59335	hgsc.bcm.edu	hg19	9	133556745	133556745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	PRDM12	NM_021619	exon5	c.C793T	p.H265Y	CGCATCCACACGC	.	73.0	29.0	77.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
GDI2	2665	hgsc.bcm.edu	hg19	10	5855180	5855180	+	Silent	SNP	C	C	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	GDI2	NM_001115156	exon1	c.G42T	p.L14L	CACCGTCAGGCCG	.	50.0	24.0	66.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	hg19	10	49986698	49986698	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	WDFY4	NM_020945	exon18	c.C3218T	p.S1073F	CCTTCTCCTGCTG	.	26.0	9.0	25.0	0.0	.	205	.	.	.	none	.	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	hg19	10	105795252	105795252	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	COL17A1	NM_000494	exon49	c.A3488C	p.E1163A	AGGAGCTCCTCAT	.	105.0	16.0	116.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	hg19	11	6412728	6412728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	SMPD1	NM_000543	exon2	c.G433A	p.V145M	GACATGGTGGAGG	.	52.0	19.0	55.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
PEX16	9409	hgsc.bcm.edu	hg19	11	45936221	45936221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	PEX16,colon,carcinoma,0,1	PEX16	NM_004813	exon6	c.C475T	p.P159S	TGCCAGGGCTGTG	.	59.0	21.0	51.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC22	79962	hgsc.bcm.edu	hg19	12	49745201	49745201	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	DNAJC22	NM_024902	exon3	c.G942T	p.E314D	GACAGAGGAGGCA	.	120.0	5.0	132.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	hg19	13	101287091	101287091	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	TMTC4	NM_032813	exon12	c.A1474C	p.S492R	GAGCACTTCTGAA	.	62.0	21.0	95.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	hg19	14	105927271	105927271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MTA1	NM_004689	exon10	c.C923T	p.T308M	ATTTCACGGACAT	.	98.0	4.0	155.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	hg19	16	70163023	70163023	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	PDPR	NM_017990	exon6	c.A605T	p.N202I	CCCAAAATGGTGA	.	473.0	124.0	379.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
KARS	3735	hgsc.bcm.edu	hg19	16	75678300	75678300	+	Silent	SNP	A	A	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	KARS	NM_001130089	exon2	c.T27A	p.L9L	CCTAACAAGCCTT	.	96.0	54.0	87.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	hg19	17	10358389	10358389	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MYH4	NM_017533	exon21	c.C2304A	p.F768L	TTTGAAGAAAACC	.	115.0	31.0	104.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
ADPRM	56985	hgsc.bcm.edu	hg19	17	10608594	10608594	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	.	NM_020233	exon2	c.T351G	p.S117R	CTTCAGTAGAGAG	.	149.0	81.0	113.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SUPT6H	6830	hgsc.bcm.edu	hg19	17	27014486	27014486	+	Silent	SNP	G	G	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	SUPT6H	NM_003170	exon23	c.G3003T	p.L1001L	CCTCCTGAAGGTA	.	44.0	10.0	45.0	0.0	.	165	.	.	.	none	.	.	PASS	Atlas-SNP
CACNB1	782	hgsc.bcm.edu	hg19	17	37341119	37341119	+	Splice_Site	SNP	T	T	A	rs3211445		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	CACNB1	NM_000723	exon9	c.649-2A>T	.	TCTGTCTGGGGGG	.	83.0	50.0	102.0	0.0	.	89	.	.	.	weak	.	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	hg19	17	37883597	37883597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	ERBB2	NM_004448	exon26	c.C3209T	p.A1070V	AGGAGGCCCCCAG	.	74.0	21.0	73.0	0.0	.	429	.	.	.	none	.	.	PASS	Atlas-SNP
C17orf77	146723	hgsc.bcm.edu	hg19	17	72588562	72588562	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	C17orf77	NM_152460	exon3	c.G377T	p.C126F	AGGTGTGCCCAAA	.	65.0	18.0	70.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
MARCH2	51257	hgsc.bcm.edu	hg19	19	8503277	8503277	+	Silent	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MARCH2	NM_001005415	exon5	c.C588T	p.S196S	GGTCTCCTTCCGC	.	62.0	22.0	87.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
MAG	4099	hgsc.bcm.edu	hg19	19	35804347	35804347	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	MAG_ENST00000392213,colon,carcinoma,0,1	MAG	NM_002361	exon11	c.G1871T	p.R624L	AAATCCGGGTCAA	.	37.0	2.0	35.0	0.0	.	172	.	.	.	none	.	.	PASS	Atlas-SNP
MORC2	22880	hgsc.bcm.edu	hg19	22	31345772	31345772	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MORC2	NM_014941	exon6	c.A97C	p.T33P	TCTGAGTAGACTC	.	59.0	23.0	82.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
MAGED2	10916	hgsc.bcm.edu	hg19	X	54841947	54841947	+	Silent	SNP	C	C	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	MAGED2	NM_201222	exon12	c.C1653T	p.A551A	TGGTGCCAGTACC	.	47.0	4.0	48.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
TCEAL4	79921	hgsc.bcm.edu	hg19	X	102841929	102841929	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	TCEAL4	NM_001006935	exon3	c.A326T	p.E109V	GGAGTGAAACAAG	.	126.0	104.0	153.0	1.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
SLC25A5	292	hgsc.bcm.edu	hg19	X	118603720	118603720	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	SLC25A5	NM_001152	exon2	c.T208G	p.F70V	CTGTCCTTCTGGC	.	63.0	45.0	40.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	hg19	13	76395479	76395497	+	Frame_Shift_Del	DEL	AAAGAAGATTCTACCACTT	AAAGAAGATTCTACCACTT	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	AAAGAAGATTCTACCACTT	AAAGAAGATTCTACCACTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	LMO7	NM_015842	exon11	c.1674_1692del	p.558_564del	.	.	104.0	28.0	161.0	0.0	.	334	.	0.269231	0	none	.	.	PASS	Atlas-Indel,Pindel
EPB41L1	2036	hgsc.bcm.edu	hg19	20	34765954	34765956	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	EPB41L1	NM_001258329	exon5	c.422_424del	p.141_142del	.	.	50.0	20.0	64.0	0.0	.	111	.	0.4	0	none	.	.	PASS	Atlas-Indel,Pindel
KIAA1614	57710	hgsc.bcm.edu	hg19	1	180885446	180885457	+	In_Frame_Del	DEL	TCCCAGGGTATG	TCCCAGGGTATG	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	TCCCAGGGTATG	TCCCAGGGTATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	KIAA1614,NS,chondrosarcoma,0,1	KIAA1614	NM_020950	exon2	c.206_217del	p.69_73del	.	.	53.0	17.0	67.0	0.0	.	75	.	0.320755	0	none	.	.	PASS	Atlas-Indel,Pindel
C11orf57	55216	hgsc.bcm.edu	hg19	11	111953315	111953315	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	C11orf57	NM_001082969	exon6	c.500delA	p.H167fs	.	.	209.0	79.0	256.0	0.0	.	41	.	0.37799	0	none	.	.	PASS	Atlas-Indel,Pindel
DPYS	1807	hgsc.bcm.edu	hg19	8	105393497	105393499	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	DPYS	NM_001385	exon9	c.1488_1490del	p.496_497del	.	.	55.0	26.0	69.0	0.0	.	107	.	0.472727	0	none	.	.	PASS	Atlas-Indel,Pindel
RFX8	731220	hgsc.bcm.edu	hg19	2	102018936	102018936	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	RFX8	NM_001145664	exon11	c.1208delT	p.I403fs	.	.	89.0	38.0	107.0	0.0	.	16	.	0.426966	0	none	.	.	PASS	Atlas-INDEL
CNOT1	23019	hgsc.bcm.edu	hg19	16	58592566	58592570	+	Frame_Shift_Del	DEL	CAAGA	CAAGA	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CAAGA	CAAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	CNOT1_ENST00000441024,NS,lymphoid_neoplasm,0,2	CNOT1	NM_001265612	exon18	c.2140_2144del	p.714_715del	.	.	97.0	46.0	102.0	0.0	.	359	.	0.474227	0	none	.	.	PASS	Atlas-Indel,Pindel
TTC40	54777	hgsc.bcm.edu	hg19	10	134738376	134738376	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	TTC40	NM_001200049	exon11	c.1081delA	p.I361fs	.	.	82.0	39.0	129.0	0.0	.	100	.	0.47561	0	none	.	.	PASS	Atlas-Indel,Pindel
NUFIP1	26747	hgsc.bcm.edu	hg19	13	45563329	45563329	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	NUFIP1	NM_012345	exon1	c.244delG	p.D82fs	.	.	113.0	22.0	130.0	0.0	.	41	.	0.19469	0	none	.	.	PASS	Atlas-INDEL
ARL6IP4	51329	hgsc.bcm.edu	hg19	12	123465766	123465770	+	Frame_Shift_Del	DEL	AGAGC	AGAGC	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	AGAGC	AGAGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	ARL6IP4	NM_018694	exon2	c.448_452del	p.150_151del	.	.	144.0	31.0	155.0	0.0	.	14	.	0.215278	0	none	.	.	PASS	Atlas-Indel,Pindel
RFX8	731220	hgsc.bcm.edu	hg19	2	102018936	102018937	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	.	RFX8	NM_001145664	exon11	c.1207_1208del	p.403_403del	.	.	90.0	27.0	109.0	0.0	.	16	.	0.300	.	none	.	.	PASS	Pindel
