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
LRRC8B	23507	hgsc.bcm.edu	hg19	1	90048545	90048545	+	Silent	SNP	A	A	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	LRRC8B	NM_015350	exon5	c.A336G	p.K112K	CGAGAAACAGCTC	.	174.0	61.0	152.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
OTX1	5013	hgsc.bcm.edu	hg19	2	63282730	63282730	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	OTX1	NM_014562	exon5	c.T344A	p.V115E	CTCCAGTGCGGGA	.	239.0	86.0	149.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
KCNJ3	3760	hgsc.bcm.edu	hg19	2	155555531	155555531	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	KCNJ3	NM_001260509	exon1	c.T244C	p.W82R	TGGCGCTGGAACC	.	467.0	30.0	352.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179615958	179615958	+	Silent	SNP	C	C	T	rs145004106		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	TTN	NM_133379	exon46	c.G11169A	p.T3723T	AGAAGACGTATCT	.	121.0	36.0	133.0	0.0	.	18412	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
CRBN	51185	hgsc.bcm.edu	hg19	3	3209472	3209472	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	CRBN	NM_016302	exon5	c.A533C	p.Q178P	GCTTGCTGGATTC	.	52.0	19.0	50.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
KLHDC8B	200942	hgsc.bcm.edu	hg19	3	49212303	49212303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	KLHDC8B	NM_173546	exon4	c.G670A	p.V224I	GGCAGCGTCTTTA	.	58.0	31.0	63.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	hg19	4	140811102	140811102	+	Silent	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	MAML3	NM_018717	exon2	c.G1488A	p.Q496Q	CTGCTGCTGCTGC	.	92.0	12.0	77.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	hg19	4	140811104	140811104	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	MAML3	NM_018717	exon2	c.C1486A	p.Q496K	GCTGCTGCTGCTG	.	93.0	10.0	79.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
SLC6A19	340024	hgsc.bcm.edu	hg19	5	1219218	1219218	+	Silent	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	SLC6A19	NM_001003841	exon9	c.C1374T	p.L458L	GGTGCTCACAGGT	.	106.0	41.0	79.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
LYRM4	57128	hgsc.bcm.edu	hg19	6	5260906	5260906	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	LYRM4	NM_020408	exon1	c.A61T	p.K21X	AACGCTTGCTCTC	.	13.0	9.0	6.0	0.0	.	5	.	.	.	none	.	.	PASS	Atlas-SNP
C7orf31	136895	hgsc.bcm.edu	hg19	7	25182389	25182389	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	C7orf31	NM_138811	exon8	c.A729C	p.K243N	AGGAGGTTTTGGG	.	89.0	38.0	81.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf153	389766	hgsc.bcm.edu	hg19	9	88844472	88844472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	C9orf153	NM_001276368	exon3	c.C47T	p.A16V	AGGGTGGCTTCTC	.	103.0	37.0	105.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
CTNNA3	29119	hgsc.bcm.edu	hg19	10	67726425	67726425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	CTNNA3	NM_013266	exon17	c.G2345A	p.C782Y	TGACTGCAGATTT	.	131.0	53.0	124.0	0.0	.	401	.	.	.	none	.	.	PASS	Atlas-SNP
NUP98	4928	hgsc.bcm.edu	hg19	11	3744474	3744474	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	NUP98	NM_005387	exon16	c.A2110T	p.S704C	CACTGCTTCCTTC	.	251.0	93.0	205.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	hg19	12	3765545	3765545	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	EFCAB4B	NM_001144958	exon9	c.C790A	p.Q264K	GCTCTTGACTGCG	.	109.0	37.0	85.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27445763	27445763	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	IL21R	NM_181079	exon4	c.C211G	p.L71V	CTCACCCTTACCT	.	89.0	42.0	64.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27459874	27459874	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	IL21R	NM_181079	exon10	c.T953C	p.F318S	CACCCTTCACTGG	.	172.0	62.0	148.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	hg19	17	38121980	38121980	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	GSDMA	NM_178171	exon2	c.C40T	p.Q14X	GCCAGACAGCTAA	.	107.0	5.0	72.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM37	4591	hgsc.bcm.edu	hg19	17	57134407	57134407	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	TRIM37	NM_015294	exon13	c.A1028G	p.Y343C	ACACGATATTCAT	.	36.0	21.0	46.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	hg19	19	30936011	30936011	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	ZNF536	NM_014717	exon2	c.G1542C	p.E514D	TGCGGAGATGGAC	.	44.0	21.0	31.0	0.0	.	424	.	.	.	none	.	.	PASS	Atlas-SNP
KCNN4	3783	hgsc.bcm.edu	hg19	19	44278354	44278354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	KCNN4	NM_002250	exon3	c.G673A	p.V225M	CGGCCACGGACAG	.	89.0	48.0	41.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
BPIFB3	359710	hgsc.bcm.edu	hg19	20	31660577	31660577	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	.	NM_182658	exon14	c.A1379G	p.N460S	TTTCCAATTCAGT	.	163.0	62.0	191.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
FAM83C	128876	hgsc.bcm.edu	hg19	20	33874582	33874582	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	FAM83C	NM_178468	exon4	c.C2000G	p.S667C	TCCCCAGACCCAG	.	236.0	101.0	173.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
TMPRSS3	64699	hgsc.bcm.edu	hg19	21	43802332	43802332	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	TMPRSS3	NM_001256317	exon9	c.C794G	p.P265R	GACTTGGGGAGGT	.	70.0	27.0	67.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MMP11	4320	hgsc.bcm.edu	hg19	22	24125618	24125618	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	MMP11	NM_005940	exon8	c.G1354T	p.G452C	CTGCGCGGCCGCC	.	166.0	21.0	116.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
VCX	26609	hgsc.bcm.edu	hg19	X	7811790	7811790	+	Silent	SNP	C	C	T	rs200229312		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	VCX	NM_013452	exon3	c.C354T	p.S118S	GGAGAGCGAGGTG	.	308.0	103.0	269.0	0.0	.	28	.	.	.	weak	.	.	PASS	Atlas-SNP
SUPT20HL1	100130302	hgsc.bcm.edu	hg19	X	24382384	24382384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	.	NM_001136234	exon1	c.G1507A	p.A503T	GCTGCTGCTGCTG	.	330.0	22.0	249.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SUPT20HL1	100130302	hgsc.bcm.edu	hg19	X	24382385	24382385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	.	NM_001136234	exon1	c.C1508T	p.A503V	CTGCTGCTGCTGC	.	324.0	25.0	244.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GAB3	139716	hgsc.bcm.edu	hg19	X	153908429	153908429	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	GAB3	NM_001081573	exon9	c.T1627C	p.S543P	CTGGTGATGCTGA	.	149.0	57.0	145.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
SULT1C2	6819	hgsc.bcm.edu	hg19	2	108910813	108910813	+	Splice_Site	DEL	G	G	-	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	SULT1C2	NM_001056	exon3	c.277+2G>-	.	.	.	97.0	39.0	74.0	0.0	.	82	.	0.402062	0	none	.	.	PASS	Atlas-Indel,Pindel
VCX2	51480	hgsc.bcm.edu	hg19	X	8138172	8138173	+	In_Frame_Ins	INS	-	-	TCCTGACTCAGTGGTTCCTCCAGCTCGGCC	novel		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	.	VCX2	NM_016378	exon3	c.321_322insGGCCGAGCTGGAGGAACCACTGAGTCAGGA	p.E107delinsEAELEEPLSQE	.	.	182.0	11.0	127.0	0.0	.	16	.	0.060	.	none	.	.	PASS	Pindel
