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
WDTC1	23038	hgsc.bcm.edu	hg19	1	27631607	27631607	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	WDTC1,NS,carcinoma,0,1	WDTC1	NM_001276252	exon15	c.C1759T	p.Q587X	TGCCTGCAGCCAC	.	86.0	19.0	69.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
PHACTR4	65979	hgsc.bcm.edu	hg19	1	28792196	28792196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PHACTR4	NM_023923	exon4	c.G302A	p.G101D	TTGCAGGTGGTGA	.	108.0	29.0	114.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	hg19	1	34008360	34008360	+	Silent	SNP	C	C	A	rs199932348	alternate_allele	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CSMD2	NM_052896	exon57	c.G8805T	p.S2935S	ATTGACCGAGCAG	.	85.0	28.0	83.0	0.0	.	946	.	.	.	alt	C|0.999;T|0.001	.	PASS	Atlas-SNP
EPS15	2060	hgsc.bcm.edu	hg19	1	51929372	51929372	+	Silent	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.,1	EPS15	NM_001981	exon7	c.T474A	p.S158S	TAACTTAGAGTTG	.	58.0	11.0	40.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
TMED5	50999	hgsc.bcm.edu	hg19	1	93621899	93621899	+	Silent	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TMED5	NM_001167830	exon3	c.T429C	p.I143I	GCCAGTAATATAT	.	97.0	24.0	105.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
FMO5	2330	hgsc.bcm.edu	hg19	1	146658726	146658726	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FMO5	NM_001461	exon9	c.T1355C	p.L452P	AAGGCCAGAGACA	.	119.0	33.0	111.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1B1	481	hgsc.bcm.edu	hg19	1	169096621	169096621	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ATP1B1	NM_001677	exon4	c.A542G	p.N181S	AGCTCAACCGAGT	.	79.0	22.0	111.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R12B	4660	hgsc.bcm.edu	hg19	1	202464697	202464697	+	Splice_Site	SNP	G	G	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PPP1R12B	NM_002481	exon17	c.2336-1G>C	.	TGGCCAGAGAATG	.	82.0	22.0	81.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	hg19	1	207131928	207131928	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FCAMR	NM_001170631	exon8	c.T1667A	p.M556K	TGGAGCATCTTTC	.	79.0	18.0	87.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227182594	227182594	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	CDC42BPA_ENST00000366769,NS,carcinoma,0,3	CDC42BPA	NM_003607	exon35	c.C4958A	p.S1653X	CCCTCTGACGGGG	.	40.0	9.0	59.0	0.0	.	528	.	.	.	none	.	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228482711	228482711	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	OBSCN	NM_001271223	exon48	c.C12913A	p.Q4305K	TGCGGGCAGGAGA	.	117.0	29.0	161.0	0.0	.	2142	.	.	.	none	.	.	PASS	Atlas-SNP
AAK1	22848	hgsc.bcm.edu	hg19	2	69732772	69732772	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	AAK1	NM_014911	exon16	c.A2198T	p.E733V	AAACTCTCAGCTG	.	87.0	29.0	85.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
FAM136A	84908	hgsc.bcm.edu	hg19	2	70529069	70529069	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FAM136A	NM_032822	exon1	c.C75G	p.I25M	CTTCCGGATGTTC	.	102.0	25.0	95.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
RTKN	6242	hgsc.bcm.edu	hg19	2	74657138	74657138	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	RTKN	NM_001015055	exon6	c.T572C	p.L191P	AACCGCAGTTCAA	.	128.0	32.0	131.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179482094	179482094	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TTN	NM_001267550	exon254	c.G47718C	p.W15906C	ACGAATCCAATTA	.	115.0	23.0	140.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	hg19	3	57419487	57419487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DNAH12	NM_178504	exon31	c.C4655T	p.T1552I	ATTAAAGTTAGCG	.	78.0	16.0	75.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	hg19	3	132165336	132165336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DNAJC13	NM_015268	exon3	c.C86T	p.S29L	TCTTTTCAGTTGG	.	93.0	26.0	77.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
PSMD2	5708	hgsc.bcm.edu	hg19	3	184020504	184020504	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	PSMD2,NS,carcinoma,0,1	PSMD2	NM_002808	exon7	c.C901A	p.H301N	GGCCGGCATGGGG	.	69.0	17.0	97.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
KNG1	3827	hgsc.bcm.edu	hg19	3	186459563	186459563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	KNG1	NM_001102416	exon10	c.G1378T	p.G460C	GGACATGGCCTTG	.	177.0	45.0	214.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
FBXL5	26234	hgsc.bcm.edu	hg19	4	15638133	15638133	+	Silent	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FBXL5	NM_012161	exon5	c.T750C	p.P250P	ATGAACAGGGTAA	.	121.0	28.0	91.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
SLC34A2	10568	hgsc.bcm.edu	hg19	4	25667838	25667838	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SLC34A2	NM_006424	exon5	c.G468C	p.L156F	CGTCTTGGTGCAG	.	71.0	28.0	52.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
RNF150	57484	hgsc.bcm.edu	hg19	4	141868823	141868823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	RNF150	NM_020724	exon4	c.G875A	p.R292Q	AGGATCCGGACAA	.	337.0	62.0	274.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	hg19	4	187509944	187509944	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FAT1	NM_005245	exon27	c.T13569A	p.Y4523X	TCTTTGATACCCT	.	154.0	29.0	134.0	0.0	.	500	.	.	.	none	.	.	PASS	Atlas-SNP
CDH12	1010	hgsc.bcm.edu	hg19	5	22078621	22078621	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CDH12	NM_004061	exon5	c.C165T	p.G55G	TACCCAGCCACGT	.	141.0	47.0	150.0	0.0	.	238	.	.	.	none	.	.	PASS	Atlas-SNP
AP3B1	8546	hgsc.bcm.edu	hg19	5	77536710	77536710	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	AP3B1	NM_003664	exon3	c.G255T	p.K85N	CACATTCTTCACA	.	612.0	150.0	661.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
PRDM6	93166	hgsc.bcm.edu	hg19	5	122435363	122435363	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PRDM6	NM_001136239	exon3	c.G607A	p.A203T	ATGTGCGCGGACA	.	79.0	23.0	96.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
MEGF10	84466	hgsc.bcm.edu	hg19	5	126705644	126705644	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MEGF10	NM_032446	exon6	c.C362G	p.P121R	TTGCTCCAAACAC	.	51.0	16.0	52.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	hg19	5	137760025	137760025	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	KDM3B	NM_016604	exon16	c.G4234C	p.G1412R	AAGCAAGGTCAGG	.	99.0	25.0	107.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	hg19	5	156590429	156590429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FAM71B	NM_130899	exon2	c.G847A	p.A283T	CTATTGCCACATC	.	53.0	15.0	55.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
ECI2	10455	hgsc.bcm.edu	hg19	6	4131018	4131018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ECI2	NM_206836	exon3	c.C295T	p.L99F	TGCCAAGGGCATT	.	91.0	25.0	104.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
MRS2	57380	hgsc.bcm.edu	hg19	6	24405466	24405466	+	Silent	SNP	T	T	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MRS2	NM_020662	exon2	c.T261C	p.T87T	ATTTACTGTGGTG	.	43.0	12.0	64.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
SLC25A27	9481	hgsc.bcm.edu	hg19	6	46626712	46626712	+	Silent	SNP	T	T	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SLC25A27	NM_001204051	exon3	c.T312A	p.G104G	TGGAGGTCGAATG	.	128.0	31.0	140.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CASP8AP2	9994	hgsc.bcm.edu	hg19	6	90571848	90571848	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CASP8AP2	NM_001137667	exon7	c.G420A	p.L140L	TAGATTGTCTGAG	.	86.0	22.0	102.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
L3MBTL3	84456	hgsc.bcm.edu	hg19	6	130415502	130415502	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	L3MBTL3	NM_032438	exon18	c.G1726A	p.G576S	CATCTGGGCCCTC	.	95.0	23.0	91.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
ZMIZ2	83637	hgsc.bcm.edu	hg19	7	44801088	44801088	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ZMIZ2	NM_031449	exon10	c.G1281A	p.V427V	CCCTGTGCGCGAT	.	37.0	10.0	58.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	hg19	7	47832364	47832364	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PKD1L1	NM_138295	exon56	c.T8387A	p.L2796X	TCGTCTAACAGAT	.	92.0	26.0	83.0	0.0	.	328	.	.	.	none	.	.	PASS	Atlas-SNP
CADPS2	93664	hgsc.bcm.edu	hg19	7	121960313	121960313	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CADPS2	NM_001167940	exon30	c.G3809A	p.R1270H	GTTAAACGTCTGT	.	93.0	20.0	76.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
TRPV5	56302	hgsc.bcm.edu	hg19	7	142609899	142609899	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TRPV5	NM_019841	exon13	c.C1537A	p.Q513K	CTGTCTGGAAAAT	.	96.0	25.0	113.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	hg19	8	17419548	17419548	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SLC7A2	NM_001164771	exon10	c.C1720A	p.L574I	CTGTTTCTTGTTC	.	40.0	15.0	39.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
ANXA13	312	hgsc.bcm.edu	hg19	8	124705533	124705533	+	Silent	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ANXA13	NM_001003954	exon9	c.G669A	p.G223G	GCCTTCCCCTGCC	.	123.0	36.0	109.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
IZUMO3	100129669	hgsc.bcm.edu	hg19	9	24544202	24544202	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	.	NM_001271706	exon4	c.G469A	p.G157R	TACCTCCACAATA	.	77.0	21.0	101.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	hg19	9	72961521	72961521	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SMC5	NM_015110	exon19	c.C2524A	p.Q842K	ATTCAGCAAGTAC	.	138.0	38.0	144.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf84	158401	hgsc.bcm.edu	hg19	9	114500784	114500784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	C9orf84	NM_173521	exon10	c.C1001T	p.P334L	CTGTGGGGCTCTT	.	56.0	12.0	52.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
HSDL2	84263	hgsc.bcm.edu	hg19	9	115179215	115179215	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	HSDL2	NM_032303	exon5	c.C490T	p.Q164X	TTCAAACAGCACT	.	57.0	19.0	70.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	hg19	9	126144822	126144822	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DENND1A	NM_020946	exon22	c.G1919C	p.S640T	CCCAGGCTCCAGA	.	53.0	13.0	85.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	hg19	9	139409835	139409835	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	NOTCH1	NM_017617	exon12	c.A1921T	p.N641Y	CCAGGTTGATCTC	.	82.0	18.0	81.0	0.0	.	1980	.	.	.	none	.	.	PASS	Atlas-SNP
ITGA8	8516	hgsc.bcm.edu	hg19	10	15688924	15688924	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	ITGA8,colon,carcinoma,0,1	ITGA8	NM_003638	exon12	c.C1128T	p.I376I	AGTGAGGATCTGG	.	126.0	29.0	123.0	0.0	.	230	.	.	.	none	.	.	PASS	Atlas-SNP
FZD8	8325	hgsc.bcm.edu	hg19	10	35929628	35929628	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FZD8	NM_031866	exon1	c.G730T	p.E244X	GGCGCTCGCTGGA	.	39.0	12.0	45.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	hg19	10	76789888	76789888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	.	NM_012330	exon18	c.G5306A	p.C1769Y	CTCAGTGCAGCAT	.	69.0	13.0	86.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	hg19	10	99656744	99656744	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CRTAC1	NM_001206528	exon9	c.A1138C	p.I380L	TACGGATGACGCT	.	33.0	10.0	54.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
OR51I2	390064	hgsc.bcm.edu	hg19	11	5475536	5475536	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	OR51I2	NM_001004754	exon1	c.A818G	p.H273R	ACATACATGTCCT	.	47.0	14.0	77.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	hg19	11	6588531	6588531	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DNHD1	NM_144666	exon36	c.T11792A	p.V3931E	CCCAAGTACCCTT	.	76.0	21.0	78.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
CKAP5	9793	hgsc.bcm.edu	hg19	11	46832664	46832664	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CKAP5	NM_001008938	exon5	c.T523C	p.S175P	CTCGAGACTCAAA	.	120.0	39.0	128.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1CA	5499	hgsc.bcm.edu	hg19	11	67168588	67168588	+	Silent	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PPP1CA	NM_001008709	exon2	c.T171C	p.F57F	GCTCAGAAAAATC	.	100.0	26.0	102.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	hg19	11	73022203	73022203	+	Silent	SNP	T	T	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ARHGEF17	NM_014786	exon1	c.T2520A	p.P840P	TGGGCCTGGATTC	.	121.0	47.0	146.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
TXNRD1	7296	hgsc.bcm.edu	hg19	12	104681125	104681125	+	Splice_Site	SNP	G	G	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TXNRD1	NM_003330	exon1	c.10+1G>T	.	CATGTGGTAGGTG	.	53.0	14.0	65.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	hg19	12	122389412	122389412	+	Silent	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	WDR66	NM_001178003	exon9	c.C1296T	p.H432H	GGCTCACAGTGCC	.	97.0	24.0	102.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
DIAPH3	81624	hgsc.bcm.edu	hg19	13	60384950	60384950	+	Silent	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	DIAPH3,right_lower_lobe,carcinoma,0,1	DIAPH3	NM_001042517	exon25	c.G3135A	p.K1045K	CTTTTTCTTTTGT	.	69.0	16.0	73.0	0.0	.	139	.	.	.	none	.	.	PASS	Atlas-SNP
BCL2L2-PABPN1	100529063	hgsc.bcm.edu	hg19	14	23792661	23792661	+	Missense_Mutation	SNP	C	C	A	rs145369012	alternate_allele	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	.	NM_001199864	exon6	c.C691A	p.L231M	ACCATACTGTGTG	.	58.0	12.0	47.0	0.0	.	.	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
DOC2A	8448	hgsc.bcm.edu	hg19	16	30021517	30021517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DOC2A	NM_003586	exon2	c.G27A	p.M9I	GATGGTCATGCGA	.	70.0	8.0	113.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A2	6524	hgsc.bcm.edu	hg19	16	31500225	31500225	+	Silent	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SLC5A2	NM_003041	exon11	c.A1305T	p.V435V	CGTGGTAGTGTCG	.	40.0	11.0	46.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
BRD7	29117	hgsc.bcm.edu	hg19	16	50373920	50373920	+	Silent	SNP	C	C	T	rs150219867		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	BRD7	NM_013263	exon6	c.G669A	p.K223K	CAACAGCTTCTTT	.	165.0	45.0	156.0	0.0	.	61	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
IST1	9798	hgsc.bcm.edu	hg19	16	71950997	71950997	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	.	NM_001270976	exon5	c.C356A	p.A119D	TCTGGGCTGCTCC	.	50.0	11.0	56.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf46	123775	hgsc.bcm.edu	hg19	16	81094893	81094893	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	C16orf46	NM_001100873	exon3	c.T1061A	p.V354D	GGGAGAACATGCT	.	94.0	26.0	87.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
MED11	400569	hgsc.bcm.edu	hg19	17	4636405	4636405	+	Missense_Mutation	SNP	G	G	A	rs376931968		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MED11	NM_001001683	exon3	c.G277A	p.A93T	CAGATGGCTCTGA	.	69.0	31.0	92.0	0.0	.	5	.	.	.	weak	.	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	hg19	17	5461748	5461748	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	NLRP1	NM_033007	exon4	c.C2268T	p.F756F	AATGCAGAAAGTG	.	65.0	24.0	134.0	0.0	.	358	.	.	.	none	.	.	PASS	Atlas-SNP
FLCN	201163	hgsc.bcm.edu	hg19	17	17117172	17117172	+	Splice_Site	SNP	T	T	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FLCN	NM_144997	exon15	c.1539-2A>C	.	CTTTGCTGAAGAA	.	33.0	10.0	37.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
MED1	5469	hgsc.bcm.edu	hg19	17	37566430	37566430	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MED1	NM_004774	exon17	c.T2044A	p.S682T	TCCCCGAGCATAT	.	122.0	69.0	122.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
KRT24	192666	hgsc.bcm.edu	hg19	17	38858105	38858105	+	Silent	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	KRT24	NM_019016	exon2	c.G696T	p.L232L	TTACTTCAGTCTG	.	524.0	88.0	381.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
CCR10	2826	hgsc.bcm.edu	hg19	17	40831918	40831918	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CCR10	NM_016602	exon2	c.G742C	p.V248L	CCACGACGCGCAG	.	67.0	32.0	42.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
LGALS3BP	3959	hgsc.bcm.edu	hg19	17	76972059	76972059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	LGALS3BP	NM_005567	exon3	c.G232T	p.A78S	CGAAGGCAGCTCT	.	115.0	25.0	109.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
ILVBL	10994	hgsc.bcm.edu	hg19	19	15230035	15230035	+	Silent	SNP	G	G	C	rs372631950	alternate_allele	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ILVBL	NM_006844	exon9	c.C993G	p.L331L	GATGTGGAGGGGG	.	95.0	24.0	114.0	0.0	.	54	.	.	.	alt	.	.	PASS	Atlas-SNP
OCEL1	79629	hgsc.bcm.edu	hg19	19	17338767	17338767	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	OCEL1	NM_024578	exon4	c.A571G	p.R191G	AAGCTCAGGCAGC	.	66.0	16.0	90.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF302	55900	hgsc.bcm.edu	hg19	19	35175271	35175271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ZNF302	NM_018443	exon5	c.C329T	p.S110L	AATTTTCAAATTC	.	579.0	137.0	638.0	1.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
DBP	1628	hgsc.bcm.edu	hg19	19	49136816	49136816	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	DBP	NM_001352	exon3	c.G647A	p.S216N	GGAATGCTTGATA	.	71.0	20.0	69.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	hg19	19	52496921	52496921	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	ZNF615	NM_001199324	exon7	c.G1441C	p.D481H	TGAGGTCACTCTT	.	117.0	35.0	104.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
GPCPD1	56261	hgsc.bcm.edu	hg19	20	5528358	5528358	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	GPCPD1	NM_019593	exon20	c.G1968T	p.E656D	ATCAGACTCCCCA	.	200.0	88.0	173.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
MYT1	4661	hgsc.bcm.edu	hg19	20	62839660	62839660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MYT1	NM_004535	exon7	c.G1111A	p.D371N	ATGCAGGACATGA	.	219.0	92.0	197.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL39	54148	hgsc.bcm.edu	hg19	21	26979768	26979768	+	Missense_Mutation	SNP	C	C	T	rs115649519	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MRPL39	NM_017446	exon1	c.G20A	p.G7D	CGGGAACCCATGG	.	27.0	5.0	33.0	0.0	.	61	.	.	.	alt	C|0.999;A|0.001	.	PASS	Atlas-SNP
TUBA8	51807	hgsc.bcm.edu	hg19	22	18609451	18609451	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TUBA8	NM_018943	exon4	c.T706C	p.S236P	ATTGTGTCCTCAA	.	99.0	35.0	87.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	hg19	22	21340180	21340180	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	LZTR1,NS,carcinoma,0,1	LZTR1	NM_006767	exon3	c.G314T	p.W105L	GCTCCTGGTGCAG	.	54.0	19.0	50.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
CACNG2	10369	hgsc.bcm.edu	hg19	22	37098524	37098524	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	CACNG2	NM_006078	exon1	c.G98C	p.W33S	TAGAGCCAATAGT	.	115.0	37.0	135.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
UPK3A	7380	hgsc.bcm.edu	hg19	22	45689097	45689097	+	Missense_Mutation	SNP	C	C	T	rs200899354	by1000genomes;alternate_allele	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	UPK3A	NM_006953	exon5	c.C607T	p.R203W	CCAGGCCGGCGGA	.	63.0	14.0	51.0	0.0	.	14	.	.	.	alt	C|1.000;A|0.000	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	hg19	X	3242168	3242168	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MXRA5	NM_015419	exon5	c.A1558G	p.I520V	TCAGGATGGAGCC	.	167.0	29.0	114.0	0.0	.	815	.	.	.	none	.	.	PASS	Atlas-SNP
P2RY10	27334	hgsc.bcm.edu	hg19	X	78216602	78216602	+	Silent	SNP	G	G	A	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	P2RY10	NM_198333	exon2	c.G585A	p.L195L	TGCGTTGGTCGGG	.	150.0	48.0	94.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
FRMD7	90167	hgsc.bcm.edu	hg19	X	131212370	131212370	+	Missense_Mutation	SNP	C	C	T	rs140383991	bycluster	TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	FRMD7	NM_194277	exon12	c.G1675A	p.G559S	TCCTACCGCTAGT	.	150.0	25.0	126.0	0.0	.	69	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
COX2	5743	hgsc.bcm.edu	hg19	MT	7958	7958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	.	ENST00000361739	exon1	c.C373T	p.P125S	CTTCCCCCATTAT	.	89.0	11.0	29.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TNPO1	3842	hgsc.bcm.edu	hg19	5	72192967	72192968	+	Frame_Shift_Ins	INS	-	-	AG	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	TNPO1	NM_002270	exon20	c.2327_2328insAG	p.L776fs	.	.	226.0	51.0	228.0	0.0	.	90	.	0.225664	0	none	.	.	PASS	Atlas-Indel,Pindel
UGT1A5	54579	hgsc.bcm.edu	hg19	2	234675730	234675741	+	In_Frame_Del	DEL	CTCTTTGGGATC	CTCTTTGGGATC	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	CTCTTTGGGATC	CTCTTTGGGATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	UGT1A5	NM_019078	exon2	c.917_928del	p.306_310del	.	.	109.0	30.0	93.0	0.0	.	66	.	0.275229	0	none	.	.	PASS	Atlas-Indel,Pindel
PRAMEF1	65121	hgsc.bcm.edu	hg19	1	12854245	12854246	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PRAMEF1	NM_023013	exon3	c.469_470insAA	p.E157fs	.	.	168.0	12.0	165.0	0.0	.	78	.	0.0714286	0	none	.	.	PASS	Atlas-Indel,Pindel
MAP3K4	4216	hgsc.bcm.edu	hg19	6	161470102	161470103	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	MAP3K4	NM_006724	exon3	c.797_798del	p.266_266del	.	.	187.0	57.0	233.0	0.0	.	364	.	0.304813	0	none	.	.	PASS	Atlas-Indel,Pindel
PON2	5445	hgsc.bcm.edu	hg19	7	95064242	95064247	+	In_Frame_Del	DEL	CCACAG	CCACAG	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	CCACAG	CCACAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PON2	NM_000305	exon1	c.18_23del	p.6_8del	.	.	101.0	18.0	101.0	0.0	.	32	.	0.178218	0	none	.	.	PASS	Atlas-Indel,Pindel
SCNN1B	6338	hgsc.bcm.edu	hg19	16	23391419	23391421	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	SCNN1B	NM_000336	exon12	c.1470_1472del	p.490_491del	.	.	128.0	38.0	144.0	0.0	.	81	.	0.296875	0	none	.	.	PASS	Atlas-Indel,Pindel
GAPVD1	26130	hgsc.bcm.edu	hg19	9	128104522	128104522	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	GAPVD1	NM_015635	exon18	c.3070delG	p.E1024fs	.	.	66.0	26.0	43.0	0.0	.	124	.	0.393939	0	none	.	.	PASS	Atlas-Indel,Pindel
BIRC6	57448	hgsc.bcm.edu	hg19	2	32740159	32740160	+	Frame_Shift_Ins	INS	-	-	TC	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	BIRC6	NM_016252	exon55	c.10671_10672insTC	p.F3557fs	.	.	74.0	15.0	87.0	0.0	.	838	.	0.202703	0	none	.	.	PASS	Atlas-Indel,Pindel
PRAMEF13	400736	hgsc.bcm.edu	hg19	1	13449601	13449601	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-WN-AB4C-01A-11D-A42J-10	TCGA-WN-AB4C-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742	b00bdf7f-b2b2-4333-add6-643ac5104d48	.	PRAMEF13	NM_001024661	exon3	c.826delT	p.L276X	.	.	135.0	20.0	144.0	0.0	.	10	.	0.148148	0	none	.	.	PASS	Atlas-Indel,Pindel
