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	dbSNP_AF	Algorithm
UBE4B	10277	hgsc.bcm.edu	hg19	1	10197205	10197205	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	UBE4B	NM_001105562	exon17	c.A2305G	p.I769V	CTCTCTATTCTGC	.	85.0	38.0	205.0	0.0	.	233	.	.	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	hg19	1	33235826	33235826	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	KIAA1522	NM_020888	exon6	c.C1046A	p.T349N	AGGCCACCTACCT	.	76.0	33.0	113.0	0.0	.	68	.	.	Atlas-SNP
CCDC18	343099	hgsc.bcm.edu	hg19	1	93687490	93687490	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	CCDC18	NM_206886	exon16	c.C2172T	p.I724I	AACAATCAAGGCT	.	137.0	28.0	268.0	0.0	.	93	.	.	Atlas-SNP
NTRK1	4914	hgsc.bcm.edu	hg19	1	156851414	156851414	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	NTRK1	NM_002529	exon17	c.T2371A	p.Y791N	CCTGTCTACCTGG	.	161.0	23.0	131.0	0.0	.	287	.	.	Atlas-SNP
CAMK1G	57172	hgsc.bcm.edu	hg19	1	209785182	209785182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	CAMK1G	NM_020439	exon11	c.C961T	p.H321Y	AAGCTACACATGA	.	93.0	31.0	77.0	0.0	.	49	.	.	Atlas-SNP
SLC30A10	55532	hgsc.bcm.edu	hg19	1	220101274	220101274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	SLC30A10	NM_018713	exon1	c.C509A	p.P170H	CCCTGAGGCCCCC	.	11.0	9.0	0.0	0.0	.	58	.	.	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225510493	225510493	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	DNAH14	NM_001373	exon60	c.A9184G	p.I3062V	AAATTGATTAACC	.	105.0	18.0	108.0	0.0	.	300	.	.	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	hg19	1	233122171	233122171	+	Silent	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	PCNXL2	NM_014801	exon33	c.G5907T	p.T1969T	GGTGGACGTCTGG	.	172.0	60.0	153.0	0.0	.	204	.	.	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	hg19	2	71871124	71871124	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	DYSF	NM_001130987	exon42	c.A4557G	p.K1519K	GAGCAAATTCTTT	.	165.0	37.0	227.0	0.0	.	536	.	.	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	hg19	2	168101985	168101985	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	XIRP2	NM_152381	exon9	c.T4083C	p.S1361S	AGACTCTATTAAT	.	90.0	4.0	157.0	0.0	.	914	.	.	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	hg19	2	170076975	170076975	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	LRP2	NM_004525	exon34	c.T5637C	p.D1879D	AGCAGGATCAACA	.	79.0	7.0	148.0	0.0	.	751	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179453288	179453288	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	TTN	NM_001267550	exon304	c.C63164A	p.P21055Q	ACCACCGGTCTTG	.	138.0	41.0	236.0	0.0	.	18412	.	.	Atlas-SNP
FN1	2335	hgsc.bcm.edu	hg19	2	216271096	216271096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	FN1	NM_212476	exon19	c.G2851A	p.G951R	TCTGCCCGTGCTC	.	93.0	32.0	84.0	0.0	.	521	.	.	Atlas-SNP
C3orf33	285315	hgsc.bcm.edu	hg19	3	155493583	155493583	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	C3orf33	NM_173657	exon4	c.G100A	p.V34I	GTTTAACATTTCT	.	95.0	19.0	181.0	0.0	.	18	.	.	Atlas-SNP
SI	6476	hgsc.bcm.edu	hg19	3	164754186	164754186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	SI	NM_001041	exon22	c.G2506A	p.E836K	TAGTTTCTCCATC	.	86.0	21.0	142.0	0.0	.	500	.	.	Atlas-SNP
TRIM2	23321	hgsc.bcm.edu	hg19	4	154214187	154214187	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	TRIM2	NM_015271	exon4	c.G507A	p.T169T	GTGCACGGAGGGG	.	110.0	32.0	179.0	0.0	.	105	.	.	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	hg19	4	183664409	183664409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	.	NM_001080477	exon18	c.C3466T	p.R1156C	CGAAGGCGCAGCA	.	135.0	43.0	139.0	0.0	.	.	.	.	Atlas-SNP
NPR3	4883	hgsc.bcm.edu	hg19	5	32724927	32724927	+	Splice_Site	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	NPR3	NM_001204376	exon2	c.244+1G>T	.	CCTATGGTAACTC	.	173.0	36.0	234.0	0.0	.	65	.	.	Atlas-SNP
GABRB2	2561	hgsc.bcm.edu	hg19	5	160721290	160721290	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	GABRB2	NM_021911	exon11	c.T1337A	p.L446X	CTGGGCAACCCAG	.	135.0	39.0	231.0	0.0	.	161	.	.	Atlas-SNP
ZKSCAN4	387032	hgsc.bcm.edu	hg19	6	28219692	28219692	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	ZKSCAN4	NM_019110	exon1	c.C67T	p.L23L	CGGTCAGGAGCCC	.	74.0	21.0	91.0	0.0	.	42	.	.	Atlas-SNP
ZKSCAN4	387032	hgsc.bcm.edu	hg19	6	28219693	28219693	+	Silent	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	ZKSCAN4	NM_019110	exon1	c.C66A	p.L22L	GGTCAGGAGCCCC	.	74.0	20.0	91.0	0.0	.	42	.	.	Atlas-SNP
UBE3D	90025	hgsc.bcm.edu	hg19	6	83728705	83728705	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	.	NM_198920	exon8	c.A997G	p.S333G	TCCTGCTTTTGAT	.	71.0	22.0	115.0	0.0	.	.	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152668272	152668272	+	Silent	SNP	C	C	G	rs148493518	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	SYNE1	NM_182961	exon73	c.G12000C	p.A4000A	AAGTTTCGCTTGC	.	122.0	29.0	209.0	0.0	.	3227	.	C|0.995;T|0.005	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82585585	82585585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	PCLO	NM_014510	exon5	c.G4684A	p.E1562K	TCATTTCTATGAT	.	68.0	12.0	110.0	0.0	.	1506	.	.	Atlas-SNP
SEMA3D	223117	hgsc.bcm.edu	hg19	7	84628841	84628841	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	SEMA3D	NM_152754	exon17	c.G2249T	p.W750L	TGCTTCCACTTTG	.	232.0	64.0	357.0	0.0	.	177	.	.	Atlas-SNP
SPAM1	6677	hgsc.bcm.edu	hg19	7	123599552	123599552	+	Silent	SNP	C	C	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	SPAM1	NM_153189	exon5	c.C1059G	p.L353L	CTTGCTCCTAGAC	.	49.0	14.0	76.0	0.0	.	195	.	.	Atlas-SNP
EPHA1	2041	hgsc.bcm.edu	hg19	7	143094441	143094441	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EPHA1	NM_005232	exon10	c.A1727T	p.Q576L	TGCCTCTGCCGCT	.	42.0	13.0	103.0	0.0	.	193	.	.	Atlas-SNP
UBE3C	9690	hgsc.bcm.edu	hg19	7	156974970	156974970	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	UBE3C	NM_014671	exon8	c.T939C	p.G313G	GAGTGGTGGAGCA	.	157.0	43.0	314.0	0.0	.	124	.	.	Atlas-SNP
C9orf131	138724	hgsc.bcm.edu	hg19	9	35044763	35044763	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	C9orf131	NM_203299	exon2	c.G2137T	p.E713X	CAAAGAGAAGTTC	.	18.0	4.0	46.0	0.0	.	71	.	.	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	hg19	9	137710559	137710559	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	COL5A1	NM_000093	exon55	c.G4288T	p.A1430S	CAGGGGGCCCCTG	.	90.0	7.0	113.0	0.0	.	323	.	.	Atlas-SNP
DDX50	79009	hgsc.bcm.edu	hg19	10	70706314	70706314	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	DDX50	NM_024045	exon15	c.A2142G	p.R714R	AAGTCGACAAGAT	.	72.0	8.0	121.0	0.0	.	65	.	.	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	hg19	11	5863124	5863124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	OR52E6	NM_001005167	exon1	c.C4T	p.P2S	CTATAGGCATTCT	.	73.0	24.0	116.0	0.0	.	70	.	.	Atlas-SNP
EPS8	2059	hgsc.bcm.edu	hg19	12	15776172	15776172	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EPS8	NM_004447	exon20	c.A2275G	p.N759D	CCTTATTGAGAGA	.	86.0	17.0	139.0	0.0	.	70	.	.	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	hg19	12	40692294	40692294	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	LRRK2_ENST00000298910,NS,carcinoma,0,2	LRRK2	NM_198578	exon24	c.G3346C	p.G1116R	TTAGAAGGGTAAG	.	62.0	16.0	104.0	0.0	.	763	.	.	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	hg19	12	53038813	53038813	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	KRT2	NM_000423	exon9	c.C1910G	p.S637C	CTAAAAGAGAAGG	.	29.0	9.0	70.0	0.0	.	94	.	.	Atlas-SNP
EP400	57634	hgsc.bcm.edu	hg19	12	132546658	132546658	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EP400	NM_015409	exon46	c.C7888A	p.P2630T	TAGACGCCGGGAG	.	34.0	19.0	50.0	0.0	.	370	.	.	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	hg19	13	32972543	32972543	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	BRCA2	NM_000059	exon27	c.T9893G	p.F3298C	AGGCATTTCAGCC	.	101.0	6.0	146.0	0.0	.	812	.	.	Atlas-SNP
ZC3H13	23091	hgsc.bcm.edu	hg19	13	46619587	46619587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	ZC3H13	NM_015070	exon2	c.G56A	p.S19N	GATGTGCTATCAG	.	158.0	45.0	249.0	0.0	.	197	.	.	Atlas-SNP
NPAS3	64067	hgsc.bcm.edu	hg19	14	33684454	33684454	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	NPAS3	NM_001164749	exon3	c.T207G	p.F69L	AAACTTTGAGTTC	.	105.0	7.0	160.0	0.0	.	266	.	.	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	hg19	15	33765652	33765652	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	RYR3	NM_001243996	exon2	c.C84T	p.T28T	CGCCACCATTCAT	.	71.0	15.0	111.0	0.0	.	760	.	.	Atlas-SNP
CORO7	79585	hgsc.bcm.edu	hg19	16	4414675	4414675	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	CORO7	NM_024535	exon13	c.G1060T	p.E354X	GGTCCTCGTGGAA	.	113.0	27.0	126.0	0.0	.	73	.	.	Atlas-SNP
ADAMTS18	170692	hgsc.bcm.edu	hg19	16	77323286	77323286	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	ADAMTS18	NM_199355	exon22	c.G3425A	p.G1142E	TGGACCCCTCCCC	.	46.0	11.0	86.0	0.0	.	270	.	.	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	hg19	17	28386624	28386624	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EFCAB5	NM_198529	exon14	c.G2642A	p.W881X	AGAAGTGGGACAG	.	80.0	17.0	151.0	0.0	.	122	.	.	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	hg19	17	78321423	78321423	+	Silent	SNP	A	A	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	RNF213	NM_001256071	exon29	c.A9288T	p.T3096T	GGAAACAGGCAAG	.	60.0	17.0	69.0	0.0	.	766	.	.	Atlas-SNP
CCDC178	374864	hgsc.bcm.edu	hg19	18	30795652	30795652	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	.	NM_001105528	exon18	c.G1940T	p.R647L	GCTGAGCGTTTAC	.	132.0	32.0	270.0	0.0	.	.	.	.	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	hg19	18	43523169	43523169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EPG5	NM_020964	exon9	c.C1901T	p.A634V	TAGCGTGCTCTAT	.	106.0	24.0	186.0	0.0	.	199	.	.	Atlas-SNP
ZNF554	115196	hgsc.bcm.edu	hg19	19	2834344	2834344	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	ZNF554	NM_001102651	exon5	c.C1111T	p.L371L	CGCCATCTGAGAA	.	31.0	9.0	29.0	0.0	.	47	.	.	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17756598	17756598	+	Silent	SNP	G	G	A	rs373430076		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	UNC13A_ENST00000519716,NS,carcinoma,0,2	UNC13A	NM_001080421	exon18	c.C2241T	p.D747D	GATGTCGTCATCC	.	93.0	19.0	179.0	0.0	.	299	.	.	Atlas-SNP
KRTAP27-1	643812	hgsc.bcm.edu	hg19	21	31709697	31709697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	KRTAP27-1	NM_001077711	exon1	c.G290T	p.R97M	GCTGTCCTTTCGC	.	188.0	46.0	291.0	0.0	.	53	.	.	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	hg19	22	18370147	18370147	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	MICAL3	NM_015241	exon14	c.C1946T	p.S649F	ATAGGGGATCTGG	.	205.0	12.0	310.0	0.0	.	53	.	.	Atlas-SNP
USP9Y	8287	hgsc.bcm.edu	hg19	Y	14885659	14885659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	USP9Y	NM_004654	exon17	c.G2131A	p.D711N	GAACCAGACTTGG	.	110.0	9.0	190.0	0.0	.	49	.	.	Atlas-SNP
TOB2	10766	hgsc.bcm.edu	hg19	22	41832827	41832827	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	TOB2	NM_016272	exon2	c.524delC	p.T175fs	.	.	80.0	27.0	121.0	0.0	.	30	.	.	Atlas-Indel,Pindel
OGDH	4967	hgsc.bcm.edu	hg19	7	44741215	44741216	+	Splice_Site	INS	-	-	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	OGDH	NM_002541	exon20	c.2632+1->T	.	.	.	76.0	20.0	110.0	0.0	.	145	.	.	Atlas-Indel,Pindel
HNRPLL	92906	hgsc.bcm.edu	hg19	2	38812823	38812825	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	HNRPLL	NM_138394	exon3	c.508_510del	p.170_170del	.	.	116.0	32.0	182.0	0.0	.	19	.	.	Atlas-Indel,Pindel
EPHA4	2043	hgsc.bcm.edu	hg19	2	222290820	222290821	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BD-A3ER-01A-11D-A20W-10	TCGA-BD-A3ER-11A-11D-A20W-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7f571d60-db6d-4282-9998-16c1ae74dcce	9124e6e8-f6c3-47a4-af2a-beda990f56f0	.	EPHA4	NM_004438	exon17	c.2889_2890insA	p.N963fs	.	.	155.0	37.0	193.0	0.0	.	263	.	.	Atlas-Indel,Pindel