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
BRDT	676	hgsc.bcm.edu	hg19	1	92433718	92433718	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	BRDT	NM_001242806	exon4	c.G346T	p.V116F	GACATTGTTCTTA	.	50.0	16.0	58.0	0.0	.	133	.	.	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	hg19	1	115401205	115401205	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SYCP1	NM_003176	exon6	c.A329G	p.Y110C	AACTGTATAAGGA	.	204.0	88.0	204.0	0.0	.	149	.	.	Atlas-SNP
MAN1A2	10905	hgsc.bcm.edu	hg19	1	118035855	118035855	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	MAN1A2	NM_006699	exon9	c.G1255T	p.A419S	CATGAGGCAAGAA	.	74.0	24.0	91.0	0.0	.	50	.	.	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	hg19	1	179989459	179989459	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	CEP350	NM_014810	exon12	c.C2550T	p.S850S	GGCCAGCATTAAC	.	81.0	19.0	49.0	0.0	.	418	.	.	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	hg19	1	247751732	247751732	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	OR2G2	NM_001001915	exon1	c.C71T	p.P24L	ATTATCCTCAGTT	.	372.0	89.0	285.0	0.0	.	88	.	.	Atlas-SNP
KCNF1	3754	hgsc.bcm.edu	hg19	2	11053487	11053487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	KCNF1	NM_002236	exon1	c.C935T	p.T312I	TGCAGACCCTCAC	.	68.0	19.0	60.0	0.0	.	70	.	.	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	hg19	2	37455644	37455644	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	CEBPZ	NM_005760	exon2	c.C692G	p.S231C	GTAGAAGAGGCTC	.	122.0	30.0	82.0	0.0	.	68	.	.	Atlas-SNP
LY75	4065	hgsc.bcm.edu	hg19	2	160737646	160737646	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	LY75	NM_002349	exon8	c.A1352T	p.E451V	TTTGGCTCATTCT	.	119.0	49.0	83.0	0.0	.	151	.	.	Atlas-SNP
USP4	7375	hgsc.bcm.edu	hg19	3	49365180	49365180	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	USP4	NM_199443	exon3	c.C299G	p.A100G	TTCCACGCCTCGG	.	167.0	19.0	135.0	0.0	.	72	.	.	Atlas-SNP
EGFLAM	133584	hgsc.bcm.edu	hg19	5	38407124	38407124	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	EGFLAM	NM_001205301	exon8	c.G1023T	p.R341S	GTCAAGGCTCTTT	.	118.0	30.0	90.0	0.0	.	302	.	.	Atlas-SNP
ITGA1	3672	hgsc.bcm.edu	hg19	5	52233253	52233253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	ITGA1	NM_181501	exon24	c.C2987T	p.P996L	CTTTTCCAATGCC	.	197.0	73.0	143.0	0.0	.	112	.	.	Atlas-SNP
SNCAIP	9627	hgsc.bcm.edu	hg19	5	121767681	121767681	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SNCAIP	NM_005460	exon6	c.C1200T	p.C400C	GGAGTGCGTACGC	.	150.0	38.0	108.0	0.0	.	308	.	.	Atlas-SNP
FAM13B	51306	hgsc.bcm.edu	hg19	5	137284796	137284796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	FAM13B	NM_001101800	exon17	c.G1942A	p.G648S	AAGAGCCAAAGCT	.	180.0	19.0	150.0	0.0	.	46	.	.	Atlas-SNP
BTNL3	10917	hgsc.bcm.edu	hg19	5	180432823	180432823	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	BTNL3	NM_197975	exon8	c.A1352C	p.D451A	TGTATGACGAGGA	.	126.0	30.0	97.0	0.0	.	55	.	.	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	hg19	6	28268801	28268801	+	Missense_Mutation	SNP	G	G	C	rs143874020		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	PGBD1	NM_001184743	exon7	c.G1170C	p.W390C	GAGTTGGACCAAA	.	60.0	24.0	44.0	0.0	.	106	.	G|1.000;C|0.000	Atlas-SNP
UBE2J1	51465	hgsc.bcm.edu	hg19	6	90047985	90047985	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	UBE2J1	NM_016021	exon5	c.G367A	p.G123R	CCTCTCCTTTTGT	.	202.0	11.0	113.0	0.0	.	28	.	.	Atlas-SNP
GPR63	81491	hgsc.bcm.edu	hg19	6	97247241	97247241	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	GPR63	NM_030784	exon2	c.C367A	p.L123I	AAGCTAGGCTGGC	.	55.0	13.0	45.0	0.0	.	60	.	.	Atlas-SNP
MAN1A1	4121	hgsc.bcm.edu	hg19	6	119511012	119511012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	MAN1A1,NS,carcinoma,0,2	MAN1A1	NM_005907	exon10	c.G1363A	p.G455R	TTAGTCCGCTGCT	.	49.0	13.0	76.0	1.0	.	77	.	.	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	hg19	7	11485864	11485864	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	THSD7A	NM_015204	exon13	c.C2888A	p.A963E	GGTTGTGCATTAT	.	142.0	54.0	110.0	0.0	.	219	.	.	Atlas-SNP
CCDC136	64753	hgsc.bcm.edu	hg19	7	128449544	128449544	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	CCDC136	NM_022742	exon11	c.A1646T	p.K549M	AGGAAAAGTACAA	.	221.0	61.0	248.0	0.0	.	170	.	.	Atlas-SNP
KIAA1432	57589	hgsc.bcm.edu	hg19	9	5742973	5742973	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	KIAA1432	NM_001206557	exon9	c.T1006G	p.F336V	AGTGTTTTTGGAG	.	328.0	115.0	253.0	0.0	.	97	.	.	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	hg19	9	6793123	6793123	+	Silent	SNP	T	T	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	KDM4C	NM_001146696	exon2	c.T201C	p.G67G	TGCGGGTCTTGCA	.	74.0	27.0	37.0	0.0	.	186	.	.	Atlas-SNP
RNF20	56254	hgsc.bcm.edu	hg19	9	104315030	104315030	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	RNF20	NM_019592	exon13	c.A1896T	p.E632D	GATTGAACTCAAG	.	222.0	57.0	180.0	0.0	.	110	.	.	Atlas-SNP
DYDC1	143241	hgsc.bcm.edu	hg19	10	82098869	82098869	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	DYDC1	NM_001269053	exon5	c.A383G	p.D128G	AGAATATCTTCAT	.	288.0	28.0	151.0	0.0	.	15	.	.	Atlas-SNP
TNKS2	80351	hgsc.bcm.edu	hg19	10	93609319	93609319	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	TNKS2	NM_025235	exon20	c.G2662A	p.E888K	GGACTTGAGCACC	.	147.0	47.0	122.0	0.0	.	103	.	.	Atlas-SNP
VAX1	11023	hgsc.bcm.edu	hg19	10	118896079	118896079	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	VAX1	NM_001112704	exon2	c.G333C	p.Q111H	ATAGAGCTGCTCC	.	46.0	31.0	48.0	0.0	.	50	.	.	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62293785	62293785	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	AHNAK,colon,carcinoma,+1,1	AHNAK	NM_001620	exon5	c.A8104G	p.I2702V	CTTTGATATTCAT	.	212.0	11.0	189.0	0.0	.	532	.	.	Atlas-SNP
PPP6R3	55291	hgsc.bcm.edu	hg19	11	68338555	68338555	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	PPP6R3	NM_001164162	exon12	c.A1326C	p.E442D	CTGGGAAATGAAT	.	87.0	19.0	61.0	0.0	.	159	.	.	Atlas-SNP
RPS3	6188	hgsc.bcm.edu	hg19	11	75110602	75110602	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	RPS3	NM_001256802	exon1	c.A11G	p.Q4R	CAGTGCAAATATC	.	113.0	31.0	110.0	0.0	.	20	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92531317	92531317	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	FAT3	NM_001008781	exon9	c.T5138A	p.I1713N	ATGGGATCTTTAC	.	149.0	56.0	104.0	0.0	.	1822	.	.	Atlas-SNP
SCN3B	55800	hgsc.bcm.edu	hg19	11	123513234	123513234	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SCN3B	NM_018400	exon3	c.T365A	p.V122E	CGGGACACATTGC	.	71.0	18.0	54.0	0.0	.	53	.	.	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	hg19	12	56993854	56993854	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	BAZ2A_ENST00000551812,colon,carcinoma,0,2	BAZ2A	NM_013449	exon25	c.G4925T	p.R1642L	CAGACACGAATGC	.	73.0	29.0	90.0	0.0	.	263	.	.	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	hg19	12	81004359	81004359	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	PTPRQ	NM_001145026	exon25	c.G4357C	p.E1453Q	TATGTAGAAGGGA	.	85.0	16.0	57.0	0.0	.	119	.	.	Atlas-SNP
UBE2N	7334	hgsc.bcm.edu	hg19	12	93804590	93804590	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	UBE2N	NM_003348	exon3	c.G338C	p.S113T	GGAGCACTTAACA	.	201.0	24.0	147.0	0.0	.	20	.	.	Atlas-SNP
ANO4	121601	hgsc.bcm.edu	hg19	12	101381373	101381373	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	ANO4	NM_178826	exon7	c.T554A	p.L185Q	TGAGGCTGGACAA	.	39.0	17.0	47.0	0.0	.	183	.	.	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	hg19	13	21742126	21742126	+	Splice_Site	SNP	C	C	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SKA3	NM_001166017	exon5	c.743+1G>T	.	TGCTTACCTTTTA	.	91.0	8.0	65.0	0.0	.	76	.	.	Atlas-SNP
CENPJ	55835	hgsc.bcm.edu	hg19	13	25466801	25466801	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	CENPJ	NM_018451	exon10	c.G3196T	p.E1066X	TCTTCTCCACCTC	.	175.0	45.0	118.0	0.0	.	116	.	.	Atlas-SNP
RB1	5925	hgsc.bcm.edu	hg19	13	48953728	48953728	+	Splice_Site	SNP	A	A	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	RB1_ENST00000267163,NS,carcinoma,0,2	RB1	NM_000321	exon14	c.1333-2A>G	.	GTTTGTAGCGATA	.	143.0	48.0	109.0	0.0	.	1068	.	.	Atlas-SNP
LRFN5	145581	hgsc.bcm.edu	hg19	14	42356583	42356583	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	LRFN5	NM_152447	exon3	c.G755A	p.R252K	GGTTGAGGCGTCT	.	84.0	9.0	65.0	0.0	.	269	.	.	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27460454	27460454	+	Silent	SNP	G	G	T	rs56002407	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	IL21R	NM_181079	exon10	c.G1533T	p.T511T	GGACACGTTTGAC	.	22.0	11.0	48.0	0.0	.	95	.	G|0.999;A|0.001	Atlas-SNP
SLC38A7	55238	hgsc.bcm.edu	hg19	16	58706093	58706093	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SLC38A7	NM_018231	exon9	c.C938A	p.S313Y	GGATAGGACAGGA	.	52.0	26.0	80.0	0.0	.	26	.	.	Atlas-SNP
TMEM106A	113277	hgsc.bcm.edu	hg19	17	41368750	41368750	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	TMEM106A	NM_145041	exon7	c.A605C	p.E202A	GGGATGAAAACAC	.	151.0	19.0	104.0	0.0	.	20	.	.	Atlas-SNP
SPATA20	64847	hgsc.bcm.edu	hg19	17	48629417	48629417	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	SPATA20	NM_022827	exon14	c.G1833A	p.A611A	GAGTGCGTGGCTC	.	121.0	20.0	108.0	0.0	.	59	.	.	Atlas-SNP
GH2	2689	hgsc.bcm.edu	hg19	17	61957832	61957832	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	GH2	NM_002059	exon5	c.C503A	p.S168Y	CTGTAGGACTGAT	.	241.0	48.0	216.0	0.0	.	73	.	.	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	hg19	17	74019605	74019605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	EVPL	NM_001988	exon3	c.C329A	p.P110Q	GCCTGCGGGTGCT	.	68.0	23.0	65.0	0.0	.	155	.	.	Atlas-SNP
GATA6	2627	hgsc.bcm.edu	hg19	18	19780725	19780725	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	GATA6	NM_005257	exon7	c.C1727T	p.S576L	TCGCCTCGCCGGC	.	45.0	12.0	41.0	0.0	.	35	.	.	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	hg19	19	11339690	11339690	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	DOCK6	NM_020812	exon23	c.C2740T	p.L914L	ACTGCAGAGCCAG	.	37.0	15.0	51.0	0.0	.	104	.	.	Atlas-SNP
PDGFB	5155	hgsc.bcm.edu	hg19	22	39621841	39621841	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	PDGFB	NM_002608	exon6	c.C613T	p.Q205X	GAGTTTGGGGCGT	.	81.0	13.0	69.0	0.0	.	91	.	.	Atlas-SNP
TLR8	51311	hgsc.bcm.edu	hg19	X	12937428	12937428	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	TLR8	NM_138636	exon2	c.C269G	p.T90S	ATCTCACTAAAAT	.	144.0	49.0	112.0	0.0	.	134	.	.	Atlas-SNP
GLUD2	2747	hgsc.bcm.edu	hg19	X	120182439	120182439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	GLUD2	NM_012084	exon1	c.G901A	p.D301N	TTTAGAGATAAAA	.	379.0	96.0	298.0	0.0	.	89	.	.	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	hg19	12	124821719	124821753	+	In_Frame_Del	DEL	AGGTGGACCTGGGGGAGGAGAGAAGGCGGTCAGGC	AGGTGGACCTGGGGGAGGAGAGAAGGCGGTCAGGC	-	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	AGGTGGACCTGGGGGAGGAGAGAAGGCGGTCAGGC	AGGTGGACCTGGGGGAGGAGAGAAGGCGGTCAGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	NCOR2	NM_006312	exon40	c.5688_5696del	p.1896_1899del	.	.	129.0	16.0	298.0	0.0	.	475	.	.	Atlas-Indel,Pindel
UNC13B	10497	hgsc.bcm.edu	hg19	9	35403876	35403926	+	In_Frame_Del	DEL	GCTGTGCCTGCTGGTGCCCCTTGGGCCGGAAGATCCATATGGATGAGACAG	GCTGTGCCTGCTGGTGCCCCTTGGGCCGGAAGATCCATATGGATGAGACAG	-	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	GCTGTGCCTGCTGGTGCCCCTTGGGCCGGAAGATCCATATGGATGAGACAG	GCTGTGCCTGCTGGTGCCCCTTGGGCCGGAAGATCCATATGGATGAGACAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	UNC13B	NM_006377	exon39	c.4621_4671del	p.1541_1557del	.	.	48.0	15.0	63.0	0.0	.	153	.	.	Pindel
PLEKHM1	9842	hgsc.bcm.edu	hg19	17	43559816	43559835	+	Frame_Shift_Del	DEL	TGGGGGTCCAGTCCATTCTC	TGGGGGTCCAGTCCATTCTC	-	novel		TCGA-G3-A25Y-01A-11D-A16V-10	TCGA-G3-A25Y-10A-01D-A16V-10	TGGGGGTCCAGTCCATTCTC	TGGGGGTCCAGTCCATTCTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b50391f-d890-4ca0-b942-beab0f8bf1c9	9cfc4adf-3fd0-4f1f-b9e1-5f7a6e1469df	.	PLEKHM1	NM_014798	exon2	c.17_36del	p.6_12del	.	.	142.0	10.0	140.0	0.0	.	69	.	.	Pindel