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
THRAP3	9967	hgsc.bcm.edu	hg19	1	36757042	36757042	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	THRAP3	NM_005119	exon6	c.C1813T	p.Q605X	AAGGAACAGGAGT	.	213.0	67.0	267.0	0.0	.	93	.	.	Atlas-SNP
NASP	4678	hgsc.bcm.edu	hg19	1	46083194	46083194	+	Silent	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NASP	NM_002482	exon14	c.G2217A	p.P739P	AGAGCCGGAGGTG	.	35.0	12.0	47.0	0.0	.	77	.	.	Atlas-SNP
BEND5	79656	hgsc.bcm.edu	hg19	1	49242456	49242456	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	BEND5	NM_024603	exon1	c.G48A	p.L16L	CACGGGCAGCGCG	.	61.0	22.0	40.0	0.0	.	93	.	.	Atlas-SNP
FLG	2312	hgsc.bcm.edu	hg19	1	152281525	152281525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	FLG,colon,carcinoma,0,1	FLG	NM_002016	exon3	c.C5837T	p.A1946V	TCCCAAGCAGATC	.	734.0	151.0	683.0	0.0	.	900	.	.	Atlas-SNP
CD1D	912	hgsc.bcm.edu	hg19	1	158151319	158151319	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	CD1D	NM_001766	exon3	c.G136A	p.G46S	ACCGACGGCTTGG	.	104.0	17.0	66.0	0.0	.	60	.	.	Atlas-SNP
OR10X1	128367	hgsc.bcm.edu	hg19	1	158549059	158549059	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	OR10X1	NM_001004477	exon1	c.A631G	p.T211A	ATTCTGTGTGGTT	.	235.0	39.0	159.0	0.0	.	96	.	.	Atlas-SNP
IGSF9	57549	hgsc.bcm.edu	hg19	1	159912756	159912756	+	Missense_Mutation	SNP	C	C	A	rs113355407	bycluster;alternate_allele	TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	IGSF9,colon,carcinoma,+1,1	IGSF9	NM_001135050	exon3	c.G244T	p.V82L	TACCCACGTAATC	.	98.0	20.0	93.0	0.0	.	123	.	C|0.500;T|0.500	Atlas-SNP
C1orf65	164127	hgsc.bcm.edu	hg19	1	223567608	223567608	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	C1orf65	NM_152610	exon1	c.T791C	p.L264P	TGGTGCTGACCCG	.	182.0	26.0	142.0	0.0	.	71	.	.	Atlas-SNP
C1orf65	164127	hgsc.bcm.edu	hg19	1	223567609	223567609	+	Silent	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	C1orf65	NM_152610	exon1	c.G792T	p.L264L	GGTGCTGACCCGT	.	183.0	27.0	141.0	0.0	.	71	.	.	Atlas-SNP
LBR	3930	hgsc.bcm.edu	hg19	1	225609820	225609820	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	LBR	NM_194442	exon3	c.G325T	p.A109S	TCCTTGCTTCCTT	.	76.0	16.0	69.0	0.0	.	54	.	.	Atlas-SNP
KLF11	8462	hgsc.bcm.edu	hg19	2	10188154	10188154	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	KLF11	NM_003597	exon3	c.C690T	p.S230S	GGTGTCCTGTCAG	.	62.0	20.0	58.0	0.0	.	45	.	.	Atlas-SNP
SLC8A1	6546	hgsc.bcm.edu	hg19	2	40656071	40656071	+	Silent	SNP	T	T	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SLC8A1	NM_001252624	exon1	c.A1350T	p.T450T	ATTTGCTGTGCCA	.	70.0	10.0	83.0	0.0	.	221	.	.	Atlas-SNP
IMMT	10989	hgsc.bcm.edu	hg19	2	86408465	86408465	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	IMMT	NM_006839	exon2	c.C76G	p.P26A	GCAATGGACGGAG	.	84.0	18.0	90.0	0.0	.	65	.	.	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	hg19	2	101666978	101666978	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	TBC1D8	NM_001102426	exon5	c.G712C	p.D238H	CCTCATCCAGGTT	.	146.0	55.0	160.0	0.0	.	169	.	.	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	hg19	2	101666979	101666979	+	Silent	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	TBC1D8	NM_001102426	exon5	c.G711T	p.L237L	CTCATCCAGGTTC	.	147.0	56.0	163.0	0.0	.	169	.	.	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141598619	141598619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	LRP1B	NM_018557	exon30	c.G4982A	p.R1661H	AAATTACGTGACA	.	170.0	45.0	193.0	0.0	.	1315	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179440745	179440745	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	TTN	NM_001267550	exon326	c.C70114G	p.P23372A	GAGCAGGACGACC	.	56.0	13.0	68.0	0.0	.	18412	.	.	Atlas-SNP
BSN	8927	hgsc.bcm.edu	hg19	3	49688366	49688366	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	BSN	NM_003458	exon4	c.A1840G	p.T614A	GTCCCCACTAAAG	.	53.0	15.0	95.0	0.0	.	272	.	.	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52440295	52440295	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	BAP1,colon,carcinoma,0,3	BAP1	NM_004656	exon9	c.C757T	p.Q253X	CTGTCTGACGGTT	.	110.0	65.0	156.0	1.0	.	371	.	.	Atlas-SNP
ITIH3	3699	hgsc.bcm.edu	hg19	3	52835121	52835121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ITIH3	NM_002217	exon11	c.C1342T	p.R448W	TTTGCCCGGCGCA	.	60.0	26.0	79.0	0.0	.	132	.	.	Atlas-SNP
CD47	961	hgsc.bcm.edu	hg19	3	107799113	107799113	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	CD47	NM_198793	exon2	c.T125G	p.F42C	GTAACAAAGCATG	.	152.0	40.0	181.0	0.0	.	37	.	.	Atlas-SNP
CHCHD6	84303	hgsc.bcm.edu	hg19	3	126445955	126445955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	CHCHD6	NM_032343	exon2	c.C122T	p.P41L	AGGAGCCCAGCTC	.	205.0	51.0	222.0	0.0	.	18	.	.	Atlas-SNP
ZCCHC4	29063	hgsc.bcm.edu	hg19	4	25351159	25351159	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZCCHC4	NM_024936	exon7	c.G805T	p.E269X	AAAGGCGAAGGAA	.	321.0	41.0	228.0	0.0	.	34	.	.	Atlas-SNP
NMU	10874	hgsc.bcm.edu	hg19	4	56475318	56475318	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NMU	NM_006681	exon4	c.T248G	p.F83C	ATCATAAAGCAAA	.	194.0	33.0	131.0	0.0	.	17	.	.	Atlas-SNP
ENAM	10117	hgsc.bcm.edu	hg19	4	71508293	71508293	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ENAM	NM_031889	exon9	c.C1150G	p.P384A	GCTTACCCTCCTA	.	305.0	53.0	239.0	0.0	.	140	.	.	Atlas-SNP
EPGN	255324	hgsc.bcm.edu	hg19	4	75174267	75174267	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	EPGN	NM_001270993	exon1	c.C17T	p.P6L	GAGTTCCAATATC	.	343.0	43.0	391.0	0.0	.	14	.	.	Atlas-SNP
NPY5R	4889	hgsc.bcm.edu	hg19	4	164271533	164271533	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NPY5R	NM_006174	exon4	c.T108G	p.S36R	AAGCAGTGTAGAT	.	374.0	89.0	335.0	0.0	.	101	.	.	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	hg19	5	55272094	55272094	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	IL6ST	NM_175767	exon3	c.C13T	p.Q5X	AAGTCTGCAACGT	.	336.0	89.0	299.0	0.0	.	75	.	.	Atlas-SNP
BHMT2	23743	hgsc.bcm.edu	hg19	5	78376532	78376532	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	BHMT2	NM_017614	exon4	c.C281T	p.A94V	CTGCTGCCTGTGA	.	249.0	18.0	209.0	0.0	.	44	.	.	Atlas-SNP
PCDHA7	56141	hgsc.bcm.edu	hg19	5	140216086	140216086	+	Silent	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	PCDHA7	NM_031852	exon1	c.G2118T	p.A706A	CTGCGCGGTGTCC	.	490.0	280.0	364.0	0.0	.	367	.	.	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	hg19	5	140222188	140222188	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	PCDHA8	NM_031856	exon1	c.C1282T	p.R428W	ACCGCGCGGGACG	.	339.0	58.0	322.0	0.0	.	366	.	.	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	hg19	5	150932949	150932949	+	Splice_Site	SNP	C	C	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	FAT2	NM_001447	exon6	c.3946-1G>C	.	CTTGATCTGAAAG	.	99.0	17.0	85.0	0.0	.	465	.	.	Atlas-SNP
HIST1H4B	8366	hgsc.bcm.edu	hg19	6	26027241	26027241	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	HIST1H4B,NS,carcinoma,0,1	HIST1H4B	NM_003544	exon1	c.G240T	p.K80N	GACAGTCTTGCGC	.	198.0	30.0	168.0	1.0	.	27	.	.	Atlas-SNP
HIST1H4E	8367	hgsc.bcm.edu	hg19	6	26204899	26204899	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	HIST1H4E	NM_003545	exon1	c.G27C	p.K9N	CGGAAAGGGACTG	.	159.0	35.0	139.0	0.0	.	22	.	.	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	hg19	6	32181471	32181471	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NOTCH4	NM_004557	exon14	c.G2314T	p.V772L	CAGACACACAGTA	.	115.0	20.0	87.0	0.0	.	201	.	.	Atlas-SNP
EYS	346007	hgsc.bcm.edu	hg19	6	65303132	65303132	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	EYS	NM_001142800	exon25	c.G3755T	p.R1252I	TCTGTTCTTTGAA	.	320.0	49.0	258.0	0.0	.	527	.	.	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	hg19	6	90371908	90371908	+	Silent	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MDN1	NM_014611	exon87	c.A14463G	p.S4821S	TTTGTTTGAATTG	.	565.0	146.0	735.0	0.0	.	478	.	.	Atlas-SNP
GPR63	81491	hgsc.bcm.edu	hg19	6	97246895	97246895	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	GPR63	NM_030784	exon2	c.G713T	p.G238V	TGGTAGCCTGGAT	.	71.0	21.0	149.0	0.0	.	60	.	.	Atlas-SNP
AKAP12	9590	hgsc.bcm.edu	hg19	6	151670985	151670985	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	AKAP12	NM_005100	exon4	c.A1459T	p.K487X	GATGAGAAGGTGC	.	50.0	29.0	60.0	0.0	.	170	.	.	Atlas-SNP
GTF2IRD1	9569	hgsc.bcm.edu	hg19	7	73944105	73944105	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	GTF2IRD1,rectum,carcinoma,0,3	GTF2IRD1	NM_001199207	exon9	c.C1228T	p.R410W	CCCTACCGGAAGA	.	121.0	27.0	91.0	0.0	.	91	.	.	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	hg19	7	88964869	88964869	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZNF804B	NM_181646	exon4	c.C2573A	p.S858X	CTTACTCAATAGA	.	152.0	21.0	130.0	0.0	.	322	.	.	Atlas-SNP
ATXN7L1	222255	hgsc.bcm.edu	hg19	7	105278897	105278897	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ATXN7L1	NM_020725	exon7	c.G1105A	p.A369T	CCTGTGCCGGCCC	.	350.0	125.0	288.0	1.0	.	56	.	.	Atlas-SNP
ASB10	136371	hgsc.bcm.edu	hg19	7	150883617	150883617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ASB10	NM_001142459	exon2	c.G446A	p.R149H	GCGGTGCGGCCCC	.	59.0	10.0	58.0	0.0	.	99	.	.	Atlas-SNP
ACTR3B	57180	hgsc.bcm.edu	hg19	7	152549222	152549222	+	Silent	SNP	C	C	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ACTR3B	NM_020445	exon10	c.C963G	p.L321L	CGTACTCTCAGGA	.	225.0	62.0	217.0	0.0	.	50	.	.	Atlas-SNP
RBM33	155435	hgsc.bcm.edu	hg19	7	155556582	155556582	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	RBM33	NM_053043	exon15	c.A3056T	p.Q1019L	GACCACAGCCTGC	.	106.0	26.0	101.0	0.0	.	157	.	.	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77765482	77765482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZFHX4	NM_024721	exon10	c.C6325T	p.L2109F	GCAGACCTCACCC	.	158.0	37.0	135.0	0.0	.	878	.	.	Atlas-SNP
RPP30	10556	hgsc.bcm.edu	hg19	10	92638835	92638835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	RPP30	NM_006413	exon5	c.A286G	p.R96G	TCTTCAAGGGCCC	.	81.0	21.0	129.0	0.0	.	45	.	.	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	hg19	10	108339122	108339122	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SORCS1	NM_001206571	exon25	c.G3376A	p.V1126M	GGGACACGCACCT	.	105.0	7.0	118.0	0.0	.	534	.	.	Atlas-SNP
DMBT1	1755	hgsc.bcm.edu	hg19	10	124329720	124329720	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DMBT1	NM_007329	exon3	c.C134T	p.A45V	CTGTAGCAGAAGG	.	175.0	47.0	173.0	0.0	.	677	.	.	Atlas-SNP
OR52M1	119772	hgsc.bcm.edu	hg19	11	4567048	4567048	+	Silent	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	OR52M1	NM_001004137	exon1	c.T628C	p.L210L	CTGGTGTTGATCC	.	374.0	78.0	324.0	0.0	.	53	.	.	Atlas-SNP
SLC17A6	57084	hgsc.bcm.edu	hg19	11	22398984	22398984	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SLC17A6	NM_020346	exon12	c.G1447A	p.A483T	CTGATCGCTGCCC	.	319.0	62.0	342.0	0.0	.	135	.	.	Atlas-SNP
ZDHHC5	25921	hgsc.bcm.edu	hg19	11	57466174	57466174	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZDHHC5	NM_015457	exon11	c.C1266T	p.S422S	ACTATCCAGTGGC	.	117.0	19.0	111.0	0.0	.	49	.	.	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	hg19	11	65315205	65315205	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	LTBP3,colon,carcinoma,0,1	LTBP3	NM_001130144	exon13	c.G1934C	p.R645P	TAGCCGCGGTTGC	.	54.0	8.0	30.0	2.0	.	55	.	.	Atlas-SNP
LRRC32	2615	hgsc.bcm.edu	hg19	11	76371941	76371941	+	Silent	SNP	G	G	T	rs180783243	bycluster;by1000genomes;alternate_allele	TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	LRRC32	NM_005512	exon3	c.C696A	p.A232A	CTGAAAGGCCTCG	.	80.0	20.0	85.0	0.0	.	74	.	G|0.999;C|0.001	Atlas-SNP
ATM	472	hgsc.bcm.edu	hg19	11	108218075	108218075	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ATM	NM_000051	exon59	c.T8654A	p.L2885H	CAGAACTTGTACA	.	257.0	125.0	247.0	0.0	.	1657	.	.	Atlas-SNP
ERBB3	2065	hgsc.bcm.edu	hg19	12	56487230	56487230	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ERBB3	NM_001982	exon12	c.A1376G	p.N459S	GTGCCAATAGGCA	.	94.0	24.0	142.0	0.0	.	350	.	.	Atlas-SNP
ZDHHC17	23390	hgsc.bcm.edu	hg19	12	77203532	77203532	+	Silent	SNP	T	T	C	rs376206630		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZDHHC17	NM_015336	exon5	c.T438C	p.Y146Y	GAAATATGGTGCA	.	90.0	26.0	71.0	0.0	.	45	.	.	Atlas-SNP
DUSP6	1848	hgsc.bcm.edu	hg19	12	89743032	89743032	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DUSP6	NM_001946	exon3	c.G1145T	p.X382L	GTCTTTCACGTAG	.	80.0	20.0	83.0	0.0	.	30	.	.	Atlas-SNP
OAS1	4938	hgsc.bcm.edu	hg19	12	113344971	113344971	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	OAS1	NM_001032409	exon1	c.G127T	p.E43X	CTGAAGGAAAGGT	.	305.0	92.0	332.0	0.0	.	128	.	.	Atlas-SNP
PIWIL1	9271	hgsc.bcm.edu	hg19	12	130830386	130830386	+	Silent	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	PIWIL1	NM_004764	exon4	c.A279G	p.T93T	GAATACAAGGCAG	.	161.0	28.0	153.0	0.0	.	157	.	.	Atlas-SNP
POLE	5426	hgsc.bcm.edu	hg19	12	133240672	133240672	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	POLE	NM_006231	exon23	c.A2624C	p.N875T	ACAAAATTTTCTG	.	214.0	59.0	244.0	0.0	.	416	.	.	Atlas-SNP
REC8	9985	hgsc.bcm.edu	hg19	14	24646590	24646590	+	Splice_Site	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	REC8	NM_005132	exon10	c.734+1G>T	.	TGCAGAGTAAGGG	.	220.0	51.0	249.0	0.0	.	47	.	.	Atlas-SNP
NFATC4	4776	hgsc.bcm.edu	hg19	14	24845640	24845640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NFATC4	NM_001198967	exon10	c.G2386A	p.E796K	GCTTGCGAAACTC	.	108.0	23.0	147.0	0.0	.	115	.	.	Atlas-SNP
C14orf39	317761	hgsc.bcm.edu	hg19	14	60945061	60945061	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	C14orf39	NM_174978	exon5	c.C280G	p.Q94E	GGTCCTGCATATA	.	252.0	63.0	311.0	0.0	.	79	.	.	Atlas-SNP
BNIP2	663	hgsc.bcm.edu	hg19	15	59972472	59972472	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	BNIP2,caecum,carcinoma,0,1	BNIP2	NM_004330	exon3	c.T449C	p.I150T	GCTAGTATATCTG	.	49.0	28.0	56.0	0.0	.	27	.	.	Atlas-SNP
PDE8A	5151	hgsc.bcm.edu	hg19	15	85660890	85660890	+	Silent	SNP	T	T	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	PDE8A	NM_002605	exon17	c.T1554A	p.G518G	TCTTGGTCTCAAA	.	406.0	92.0	343.0	0.0	.	50	.	.	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	hg19	16	57734093	57734093	+	Missense_Mutation	SNP	C	C	A	rs376601948	alternate_allele	TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	CCDC135	NM_032269	exon4	c.C415A	p.P139T	CTGATGCCCTACC	.	104.0	17.0	119.0	0.0	.	97	.	.	Atlas-SNP
MMP15	4324	hgsc.bcm.edu	hg19	16	58079051	58079051	+	Missense_Mutation	SNP	G	G	A	rs372389085		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MMP15	NM_002428	exon10	c.G1711A	p.D571N	TGGCCCGACGTGG	.	70.0	32.0	28.0	0.0	.	58	.	.	Atlas-SNP
VAT1L	57687	hgsc.bcm.edu	hg19	16	77896666	77896666	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	VAT1L	NM_020927	exon4	c.T601A	p.C201S	CAGCTGTGTTCCA	.	137.0	39.0	133.0	0.0	.	68	.	.	Atlas-SNP
B9D1	27077	hgsc.bcm.edu	hg19	17	19261177	19261177	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	B9D1	NM_015681	exon3	c.T220A	p.F74I	TTTTAAAGGTGAC	.	60.0	24.0	83.0	0.0	.	8	.	.	Atlas-SNP
NOS2	4843	hgsc.bcm.edu	hg19	17	26088234	26088234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NOS2	NM_000625	exon23	c.G2824A	p.G942S	AGACGCCGTGGTG	.	133.0	38.0	182.0	0.0	.	113	.	.	Atlas-SNP
GH1	2688	hgsc.bcm.edu	hg19	17	61995228	61995228	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	GH1	NM_000515	exon4	c.G348A	p.V116V	GAACTGCACGGGC	.	99.0	28.0	111.0	0.0	.	39	.	.	Atlas-SNP
GPR142	350383	hgsc.bcm.edu	hg19	17	72368126	72368126	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	GPR142	NM_181790	exon4	c.C776T	p.A259V	ACACTGCCCTGTG	.	61.0	13.0	76.0	0.0	.	74	.	.	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	hg19	19	1109390	1109390	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SBNO2	NM_014963	exon29	c.G3249A	p.A1083A	CTGCTCCGCCAGC	.	27.0	13.0	12.0	0.0	.	112	.	.	Atlas-SNP
GNA15	2769	hgsc.bcm.edu	hg19	19	3162793	3162793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	GNA15,NS,malignant_melanoma,0,1	GNA15	NM_002068	exon7	c.C901T	p.P301S	CCAGGCCCTAAGC	.	42.0	11.0	54.0	0.0	.	40	.	.	Atlas-SNP
ARHGEF18	23370	hgsc.bcm.edu	hg19	19	7516109	7516109	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ARHGEF18	NM_001130955	exon6	c.C1248T	p.T416T	CATAACCAAATAC	.	130.0	25.0	107.0	0.0	.	129	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9087246	9087246	+	Silent	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MUC16	NM_024690	exon1	c.C4569A	p.I1523I	ACTCCTGATTCCT	.	298.0	54.0	210.0	0.0	.	4315	.	.	Atlas-SNP
DNASE2	1777	hgsc.bcm.edu	hg19	19	12987092	12987092	+	Silent	SNP	A	A	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DNASE2	NM_001375	exon6	c.T795G	p.S265S	GCAGTTAGAGGGC	.	135.0	21.0	121.0	0.0	.	23	.	.	Atlas-SNP
DNASE2	1777	hgsc.bcm.edu	hg19	19	12991796	12991796	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DNASE2	NM_001375	exon2	c.A257G	p.N86S	CTGGTGTTGCTCC	.	82.0	16.0	91.0	0.0	.	23	.	.	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	hg19	19	22155549	22155549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZNF208	NM_007153	exon4	c.A2287G	p.T763A	TAAGGGTTGAGGA	.	46.0	16.0	47.0	0.0	.	817	.	.	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	hg19	19	22156821	22156821	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZNF208	NM_007153	exon4	c.A1015G	p.K339E	AGGGCTTCTCTCC	.	131.0	24.0	96.0	0.0	.	817	.	.	Atlas-SNP
ZNF540	163255	hgsc.bcm.edu	hg19	19	38102620	38102620	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.,3	ZNF540	NM_152606	exon5	c.A439G	p.K147E	GTCTCTAAAAAAA	.	183.0	73.0	168.0	0.0	.	75	.	.	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	hg19	19	46319169	46319169	+	Silent	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SYMPK	NM_004819	exon26	c.C3627T	p.D1209D	CGAGTCGTCATCC	.	113.0	17.0	104.0	0.0	.	104	.	.	Atlas-SNP
NFS1	9054	hgsc.bcm.edu	hg19	20	34286442	34286442	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NFS1	NM_021100	exon2	c.G168A	p.L56L	AGGTCGCAGCACT	.	337.0	51.0	260.0	0.0	.	43	.	.	Atlas-SNP
GNAS	2778	hgsc.bcm.edu	hg19	20	57484420	57484420	+	Missense_Mutation	SNP	C	C	T	rs11554273	bycluster	TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	GNAS_ENST00000371100,NS,adenocarcinoma,0,338	GNAS	NM_080425	exon8	c.C2530T	p.R844C	CGCTGCCGTGTCC	.	213.0	35.0	163.0	0.0	.	867	.	C|1.000	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	hg19	22	26695027	26695027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SEZ6L	NM_001184777	exon5	c.G1240A	p.V414M	GGTGGGGTGGCCC	.	142.0	25.0	95.0	0.0	.	174	.	.	Atlas-SNP
MTMR3	8897	hgsc.bcm.edu	hg19	22	30415674	30415674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MTMR3	NM_021090	exon17	c.G2026A	p.A676T	GGGGGTGCCGAGC	.	70.0	18.0	71.0	0.0	.	106	.	.	Atlas-SNP
LARGE	9215	hgsc.bcm.edu	hg19	22	33670547	33670547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	LARGE	NM_004737	exon16	c.G2137A	p.D713N	TAATGTCGAAGCT	.	187.0	41.0	148.0	0.0	.	98	.	.	Atlas-SNP
ZBED1	9189	hgsc.bcm.edu	hg19	X	2407376	2407376	+	Missense_Mutation	SNP	G	G	A	rs199678782	bycluster	TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZBED1	NM_001171135	exon2	c.C1385T	p.T462M	TCGGGCGTCTCCT	.	387.0	84.0	319.0	0.0	.	64	.	G|0.999;A|0.001	Atlas-SNP
ARSD	414	hgsc.bcm.edu	hg19	X	2835844	2835844	+	Splice_Site	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ARSD	NM_001669	exon6	c.863+1G>A	.	TGCTTACCTTTCA	.	143.0	37.0	110.0	0.0	.	47	.	.	Atlas-SNP
NLGN4X	57502	hgsc.bcm.edu	hg19	X	5811323	5811323	+	Silent	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	NLGN4X	NM_181332	exon6	c.T1986C	p.T662T	GAGGACAGTTGTG	.	897.0	334.0	739.0	1.0	.	191	.	.	Atlas-SNP
RAB9A	9367	hgsc.bcm.edu	hg19	X	13727290	13727290	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	RAB9A	NM_004251	exon3	c.G425A	p.C142Y	CTTGGTGCAGGGA	.	102.0	20.0	83.0	0.0	.	17	.	.	Atlas-SNP
EFHC2	80258	hgsc.bcm.edu	hg19	X	44091923	44091923	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	EFHC2	NM_025184	exon10	c.G1424A	p.G475E	GCAATTCCTATAA	.	154.0	66.0	98.0	0.0	.	81	.	.	Atlas-SNP
IQSEC2	23096	hgsc.bcm.edu	hg19	X	53279675	53279675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	IQSEC2	NM_001111125	exon5	c.G2083A	p.D695N	CGTTATCTCCACC	.	214.0	49.0	175.0	0.0	.	195	.	.	Atlas-SNP
MSN	4478	hgsc.bcm.edu	hg19	X	64957171	64957171	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MSN	NM_002444	exon10	c.C1222T	p.R408W	GCCTCCCGGGACC	.	324.0	46.0	275.0	0.0	.	89	.	.	Atlas-SNP
CSTF2	1478	hgsc.bcm.edu	hg19	X	100078295	100078295	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	CSTF2	NM_001325	exon4	c.G322T	p.A108S	ACTGGTGCCCCTG	.	163.0	25.0	123.0	0.0	.	47	.	.	Atlas-SNP
BHLHB9	80823	hgsc.bcm.edu	hg19	X	102005369	102005369	+	Silent	SNP	C	C	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	BHLHB9	NM_001142530	exon2	c.C1446A	p.I482I	CATGATCAATATG	.	566.0	231.0	452.0	1.0	.	60	.	.	Atlas-SNP
TCEAL4	79921	hgsc.bcm.edu	hg19	X	102842040	102842040	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	TCEAL4	NM_001006935	exon3	c.A437T	p.H146L	CCATACATGATAT	.	227.0	90.0	185.0	0.0	.	18	.	.	Atlas-SNP
DOCK11	139818	hgsc.bcm.edu	hg19	X	117788710	117788710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DOCK11	NM_144658	exon43	c.C4841T	p.T1614I	CAAGCACCCCAGA	.	267.0	99.0	240.0	0.0	.	185	.	.	Atlas-SNP
GRIA3	2892	hgsc.bcm.edu	hg19	X	122538727	122538727	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	GRIA3	NM_000828	exon10	c.A1462G	p.K488E	GAGACTAAAATAT	.	529.0	102.0	461.0	0.0	.	386	.	.	Atlas-SNP
ZNF449	203523	hgsc.bcm.edu	hg19	X	134494230	134494230	+	Silent	SNP	G	G	A	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ZNF449	NM_152695	exon5	c.G786A	p.L262L	CATTTTGCAAAAA	.	476.0	71.0	439.0	0.0	.	68	.	.	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	hg19	X	151806785	151806785	+	Silent	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	GABRQ	NM_018558	exon1	c.C129T	p.V43V	CGAAGTCGTCCTG	.	254.0	48.0	188.0	0.0	.	131	.	.	Atlas-SNP
TREX2	11219	hgsc.bcm.edu	hg19	X	152710779	152710779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	TREX2	NM_080701	exon2	c.G110A	p.R37H	GAGGAGCGGTGGA	.	177.0	56.0	115.0	0.0	.	36	.	.	Atlas-SNP
ARHGAP4	393	hgsc.bcm.edu	hg19	X	153185069	153185069	+	Silent	SNP	G	G	T	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ARHGAP4	NM_001164741	exon6	c.C753A	p.L251L	GTGCACGAGAAAC	.	201.0	29.0	140.0	0.0	.	103	.	.	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	hg19	9	139907265	139907266	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ABCA2	NM_212533	exon31	c.5070_5071insC	p.P1690fs	.	.	100.0	14.0	95.0	0.0	.	113	.	.	Atlas-INDEL
ACCS	84680	hgsc.bcm.edu	hg19	11	44089261	44089262	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ACCS	NM_032592	exon2	c.84_85insG	p.H28fs	.	.	143.0	16.0	165.0	0.0	.	64	.	.	Atlas-Indel,Pindel
KRT1	3848	hgsc.bcm.edu	hg19	12	53073845	53073846	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	KRT1	NM_006121	exon1	c.288_289insG	p.G96fs	.	.	584.0	38.0	540.0	0.0	.	110	.	.	Atlas-INDEL
DST	667	hgsc.bcm.edu	hg19	6	56417839	56417846	+	Frame_Shift_Del	DEL	TCAGTGAC	TCAGTGAC	-	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	TCAGTGAC	TCAGTGAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	DST	NM_015548	exon42	c.7876_7883del	p.2626_2628del	.	.	128.0	11.0	101.0	0.0	.	1427	.	.	Atlas-INDEL
MPDZ	8777	hgsc.bcm.edu	hg19	9	13108980	13108981	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MPDZ	NM_003829	exon45	c.5934_5935insG	p.S1978fs	.	.	101.0	22.0	106.0	0.0	.	324	.	.	Atlas-INDEL
SH3KBP1	30011	hgsc.bcm.edu	hg19	X	19560246	19560247	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	SH3KBP1	NM_031892	exon16	c.1689_1690insC	p.P563fs	.	.	193.0	15.0	147.0	0.0	.	96	.	.	Atlas-INDEL
MIA3	375056	hgsc.bcm.edu	hg19	1	222802656	222802656	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	MIA3	NM_198551	exon4	c.2093delA	p.Q698fs	.	.	152.0	27.0	146.0	0.0	.	167	.	.	Atlas-Indel,Pindel
FHOD3	80206	hgsc.bcm.edu	hg19	18	34261446	34261446	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	FHOD3	NM_025135	exon12	c.1357delG	p.E453fs	.	.	249.0	139.0	364.0	0.0	.	210	.	.	Atlas-Indel,Pindel
RHOT2	89941	hgsc.bcm.edu	hg19	16	723073	723074	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	RHOT2	NM_138769	exon18	c.1673_1674insC	p.G558fs	.	.	116.0	11.0	130.0	0.0	.	35	.	.	Atlas-INDEL
NFE2L1	4779	hgsc.bcm.edu	hg19	17	46128958	46128959	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.,1	NFE2L1	NM_003204	exon2	c.478_479insC	p.A160fs	.	.	63.0	19.0	65.0	0.0	.	60	.	.	Atlas-Indel,Pindel
ALB	213	hgsc.bcm.edu	hg19	4	74285229	74285286	+	Frame_Shift_Del	DEL	TTGTTGAGCTCGTGAAACACAAGCCCAAGGCAACAAAAGAGCAACTGAAAGCTGTTAT	TTGTTGAGCTCGTGAAACACAAGCCCAAGGCAACAAAAGAGCAACTGAAAGCTGTTAT	-	novel		TCGA-DD-A118-01A-11D-A12Z-10	TCGA-DD-A118-11A-11D-A12Z-10	TTGTTGAGCTCGTGAAACACAAGCCCAAGGCAACAAAAGAGCAACTGAAAGCTGTTAT	TTGTTGAGCTCGTGAAACACAAGCCCAAGGCAACAAAAGAGCAACTGAAAGCTGTTAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	48d84dbb-ab16-4a9d-8a01-2700d8c457d6	c8499913-0f62-4b43-a7d4-49fb5e292768	.	ALB	NM_000477	exon13	c.1657_1714del	p.553_572del	.	.	62.0	12.0	75.0	0.0	.	132	.	.	Pindel