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
SPEN	23013	hgsc.bcm.edu	hg19	1	16265370	16265370	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	SPEN	NM_015001	exon14	c.A10862G	p.Q3621R	CCAATCAGGTCGG	.	13.0	10.0	34.0	0.0	.	374	.	.	.	none	.	.	PASS	Atlas-SNP
CDCA8	55143	hgsc.bcm.edu	hg19	1	38158699	38158699	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CDCA8	NM_001256875	exon2	c.T217C	p.Y73H	CTTGACTACTTCG	.	129.0	56.0	144.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP29	9411	hgsc.bcm.edu	hg19	1	94639617	94639617	+	Silent	SNP	G	G	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ARHGAP29	NM_004815	exon23	c.C3594A	p.P1198P	ACCGTGGGGATCG	.	105.0	40.0	77.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
BNIPL	149428	hgsc.bcm.edu	hg19	1	151011013	151011013	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	BNIPL	NM_138278	exon3	c.T171C	p.D57D	TGAAGATCCTGAA	.	149.0	60.0	128.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
CLK2	1196	hgsc.bcm.edu	hg19	1	155238100	155238100	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CLK2	NM_003993	exon5	c.T535C	p.C179R	CAACACATTGTAC	.	224.0	81.0	206.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32702603	32702603	+	Silent	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	BIRC6	NM_016252	exon35	c.C7020A	p.L2340L	TCTTCTCTCCATG	.	149.0	56.0	121.0	0.0	.	838	.	.	.	none	.	.	PASS	Atlas-SNP
TCF7L1	83439	hgsc.bcm.edu	hg19	2	85533645	85533645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	TCF7L1	NM_031283	exon10	c.C1220T	p.S407L	TTCACTCGCAGCT	.	157.0	64.0	183.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
CUL3	8452	hgsc.bcm.edu	hg19	2	225378239	225378239	+	Splice_Site	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CUL3	NM_003590	exon6	c.654+2T>C	.	CGGATTACCTGAA	.	120.0	71.0	179.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
RBM15B	29890	hgsc.bcm.edu	hg19	3	51430385	51430385	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	RBM15B	NM_013286	exon1	c.C1555G	p.R519G	TACACCCGGCACC	.	34.0	25.0	63.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52437846	52437846	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	BAP1	NM_004656	exon13	c.G1315T	p.V439L	GCAGCACTGACAG	.	27.0	15.0	40.0	0.0	.	371	.	.	.	none	.	.	PASS	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	hg19	3	78680444	78680444	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ROBO1	NM_002941	exon25	c.C3493A	p.H1165N	TCTTGTGCCCCTG	.	36.0	24.0	70.0	0.0	.	833	.	.	.	none	.	.	PASS	Atlas-SNP
FOXL2	668	hgsc.bcm.edu	hg19	3	138664642	138664642	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	FOXL2	NM_023067	exon1	c.C923G	p.A308G	GGTGGGGCAGGCG	.	19.0	10.0	35.0	0.0	.	408	.	.	.	none	.	.	PASS	Atlas-SNP
UVSSA	57654	hgsc.bcm.edu	hg19	4	1379721	1379721	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	.	NM_020894	exon14	c.C2102A	p.S701X	AGTTTTCAAACCA	.	91.0	32.0	111.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
RAP1GDS1	5910	hgsc.bcm.edu	hg19	4	99342409	99342409	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	RAP1GDS1	NM_001100426	exon12	c.A1307G	p.E436G	TAGCAGAAGCTGC	.	74.0	34.0	84.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123255556	123255556	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	KIAA1109	NM_015312	exon67	c.T11704C	p.S3902P	GGATCTTCCTTGC	.	271.0	105.0	283.0	0.0	.	424	.	.	.	none	.	.	PASS	Atlas-SNP
STOX2	56977	hgsc.bcm.edu	hg19	4	184930877	184930877	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	STOX2	NM_020225	exon3	c.C886G	p.P296A	GAGTGGCCCCTGC	.	96.0	32.0	99.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
ZFR	51663	hgsc.bcm.edu	hg19	5	32364329	32364329	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ZFR	NM_016107	exon18	c.G2888T	p.S963I	CCAGGGCTCTGAG	.	241.0	96.0	245.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
C9	735	hgsc.bcm.edu	hg19	5	39364500	39364500	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	C9	NM_001737	exon1	c.T67C	p.Y23H	TCGTGTACTGTGC	.	68.0	32.0	54.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
FOXF2	2295	hgsc.bcm.edu	hg19	6	1390659	1390659	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	FOXF2	NM_001452	exon1	c.C477G	p.I159M	CTTCATCAAGCTG	.	158.0	58.0	142.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
CFB	629	hgsc.bcm.edu	hg19	6	31916623	31916623	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CFB	NM_001710	exon8	c.A1053G	p.S351S	GAAGTCAGGGACT	.	69.0	36.0	56.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
TAF8	129685	hgsc.bcm.edu	hg19	6	42044861	42044861	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	TAF8	NM_138572	exon8	c.G804C	p.E268D	GAAGGAGAACACC	.	146.0	51.0	146.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
TAF8	129685	hgsc.bcm.edu	hg19	6	42044862	42044862	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	TAF8	NM_138572	exon8	c.A805T	p.N269Y	AAGGAGAACACCT	.	146.0	51.0	146.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	hg19	6	144806574	144806574	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	UTRN	NM_007124	exon27	c.C3741T	p.T1247T	AACTACCTGGTTA	.	160.0	63.0	131.0	0.0	.	327	.	.	.	none	.	.	PASS	Atlas-SNP
STXBP5	134957	hgsc.bcm.edu	hg19	6	147636834	147636834	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	STXBP5	NM_139244	exon15	c.G1586A	p.R529K	TTTATAGATTCAG	.	207.0	74.0	196.0	0.0	.	163	.	.	.	none	.	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	hg19	7	4051838	4051838	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	SDK1	NM_152744	exon16	c.C2391A	p.H797Q	AGAGCACAACGGG	.	57.0	17.0	58.0	0.0	.	361	.	.	.	none	.	.	PASS	Atlas-SNP
ELMO1	9844	hgsc.bcm.edu	hg19	7	36895202	36895202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ELMO1	NM_014800	exon22	c.T2138C	p.I713T	TTGGGAATCGGCG	.	115.0	44.0	117.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
IQUB	154865	hgsc.bcm.edu	hg19	7	123143385	123143385	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	IQUB	NM_178827	exon4	c.C565T	p.Q189X	CATGTTGTACTAG	.	132.0	49.0	102.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF212	7988	hgsc.bcm.edu	hg19	7	148947628	148947628	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ZNF212	NM_012256	exon2	c.G403C	p.E135Q	AAGGGGGAGGCCC	.	59.0	20.0	53.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF212	7988	hgsc.bcm.edu	hg19	7	148947629	148947629	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ZNF212	NM_012256	exon2	c.A404C	p.E135A	AGGGGGAGGCCCC	.	58.0	19.0	53.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
NOM1	64434	hgsc.bcm.edu	hg19	7	156759786	156759786	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	NOM1	NM_138400	exon9	c.G2298C	p.K766N	CTTAAAGGTTCGT	.	64.0	17.0	65.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
GBA2	57704	hgsc.bcm.edu	hg19	9	35740323	35740323	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	GBA2	NM_020944	exon7	c.C1166T	p.A389V	GCTCCAGCAATGC	.	55.0	16.0	54.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
NUP214	8021	hgsc.bcm.edu	hg19	9	134003841	134003841	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	NUP214	NM_005085	exon3	c.T364A	p.F122I	ATTGCTTTTTTTG	.	78.0	32.0	50.0	0.0	.	166	.	.	.	none	.	.	PASS	Atlas-SNP
GDF10	2662	hgsc.bcm.edu	hg19	10	48426591	48426591	+	Silent	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	GDF10	NM_004962	exon3	c.G1416T	p.V472V	GGTGTCCACGGAC	.	79.0	30.0	75.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
OR5D16	390144	hgsc.bcm.edu	hg19	11	55606280	55606280	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	OR5D16	NM_001005496	exon1	c.G53C	p.G18A	TCTTGGGCTTCTC	.	159.0	49.0	120.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM179B	374395	hgsc.bcm.edu	hg19	11	62556681	62556681	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	TMEM179B	NM_199337	exon2	c.A283T	p.R95X	TCCCACAGGTGAC	.	72.0	28.0	64.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
LRP5	4041	hgsc.bcm.edu	hg19	11	68154171	68154171	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	LRP5	NM_002335	exon6	c.C1403T	p.P468L	TGCACCCCGTGAT	.	90.0	35.0	81.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
PPP6R3	55291	hgsc.bcm.edu	hg19	11	68377430	68377430	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	PPP6R3	NM_001164160	exon24	c.C2527A	p.P843T	GAGTGTCCCGAGA	.	91.0	49.0	69.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	hg19	12	18699304	18699304	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	PIK3C2G	NM_004570	exon25	c.A3405T	p.K1135N	CCTGAAATATGTG	.	125.0	56.0	129.0	0.0	.	315	.	.	.	none	.	.	PASS	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	hg19	12	31633023	31633023	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	DENND5B	NM_144973	exon3	c.T404C	p.L135P	TGGTAAAGTGTCT	.	103.0	44.0	101.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
PDE1B	5153	hgsc.bcm.edu	hg19	12	54964116	54964116	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	PDE1B	NM_000924	exon6	c.G569C	p.R190P	TGACTCGGCATAA	.	72.0	19.0	50.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
DCTN2	10540	hgsc.bcm.edu	hg19	12	57925883	57925883	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	DCTN2	NM_001261412	exon13	c.A1040C	p.Q347P	CCAAACTGCATGG	.	127.0	49.0	169.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
UBC	7316	hgsc.bcm.edu	hg19	12	125398244	125398244	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	UBC	NM_021009	exon2	c.A74G	p.N25S	TTGACATTCTCGA	.	105.0	39.0	136.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	hg19	12	133252404	133252404	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	POLE	NM_006231	exon11	c.T1023C	p.A341A	CAGATGAGCCTGA	.	80.0	23.0	87.0	0.0	.	416	.	.	.	none	.	.	PASS	Atlas-SNP
INTS6	26512	hgsc.bcm.edu	hg19	13	51952382	51952382	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	INTS6	NM_012141	exon12	c.T1595C	p.L532P	TTATTCAGCAAAG	.	110.0	38.0	86.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
SCFD1	23256	hgsc.bcm.edu	hg19	14	31164021	31164021	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	SCFD1	NM_016106	exon15	c.A1285T	p.M429L	AAAATAATGAGCA	.	347.0	129.0	339.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	hg19	15	86122543	86122543	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	AKAP13	NM_007200	exon7	c.T1244C	p.L415P	AAGGCCTTTCGTC	.	140.0	42.0	152.0	0.0	.	394	.	.	.	none	.	.	PASS	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	hg19	16	57984325	57984325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CNGB1	NM_001297	exon13	c.G994A	p.A332T	CATAAGCTGGAAC	.	88.0	37.0	74.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	hg19	17	29527522	29527522	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	NF1	NM_001128147	exon9	c.G971C	p.C324S	TTGCCTGTGTCAA	.	98.0	35.0	86.0	0.0	.	1586	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	hg19	17	48738388	48738388	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ABCC3	NM_003786	exon8	c.T911A	p.L304Q	CCCTGCTGGCCAC	.	65.0	27.0	43.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
SMURF2	64750	hgsc.bcm.edu	hg19	17	62542409	62542409	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	SMURF2	NM_022739	exon18	c.A2119G	p.T707A	TGTTAGTGCAGGC	.	91.0	38.0	86.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
HGS	9146	hgsc.bcm.edu	hg19	17	79660684	79660684	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	HGS	NM_004712	exon10	c.C742T	p.L248L	CCTCAGCTGCCCC	.	115.0	5.0	117.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
APCDD1	147495	hgsc.bcm.edu	hg19	18	10471923	10471923	+	Silent	SNP	G	G	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	APCDD1	NM_153000	exon3	c.G639C	p.R213R	CATCCGGGTGGAG	.	110.0	39.0	91.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
KANK3	256949	hgsc.bcm.edu	hg19	19	8389663	8389663	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	KANK3	NM_198471	exon9	c.G2134A	p.V712M	TTGCCACCATGTC	.	68.0	25.0	42.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
TMED1	11018	hgsc.bcm.edu	hg19	19	10945667	10945667	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	TMED1	NM_006858	exon3	c.A408G	p.G136G	TGCCCATCCTTCG	.	88.0	37.0	69.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	hg19	19	57642200	57642200	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	USP29,caecum,carcinoma,0,2	USP29	NM_020903	exon4	c.A2157G	p.K719K	CTGTAAAGAAAAC	.	236.0	95.0	231.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF544	27300	hgsc.bcm.edu	hg19	19	58772847	58772847	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	ZNF544	NM_014480	exon7	c.A875C	p.H292P	CAGTGCATTTTGG	.	122.0	51.0	137.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK2	5126	hgsc.bcm.edu	hg19	20	17462589	17462589	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	PCSK2	NM_002594	exon12	c.C1791T	p.A597A	GAGTGCCCCGTAC	.	105.0	46.0	122.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
MAGEA4	4103	hgsc.bcm.edu	hg19	X	151092151	151092151	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	MAGEA4	NM_001011548	exon3	c.G15A	p.Q5Q	TGAGCAGAAGAGT	.	95.0	54.0	114.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
CLCN7	1186	hgsc.bcm.edu	hg19	16	1505758	1505760	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	CLCN7	NM_001287	exon11	c.954_956del	p.318_319del	.	.	70.0	25.0	70.0	0.0	.	53	.	0.357143	0	none	.	.	PASS	Atlas-Indel,Pindel
NPR2	4882	hgsc.bcm.edu	hg19	9	35808792	35808794	+	In_Frame_Del	DEL	TTA	TTA	-	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	TTA	TTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	NPR2	NM_003995	exon20	c.2927_2929del	p.976_977del	.	.	100.0	41.0	127.0	0.0	.	162	.	0.41	0	none	.	.	PASS	Atlas-Indel,Pindel
GCSAM	257144	hgsc.bcm.edu	hg19	3	111849299	111849306	+	Frame_Shift_Del	DEL	TTCTCTGT	TTCTCTGT	-	novel		TCGA-Y8-A8RZ-01A-11D-A36X-10	TCGA-Y8-A8RZ-10A-01D-A370-10	TTCTCTGT	TTCTCTGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	63f0d3c3-071e-44c7-863d-72f0242c5b93	2a0d89df-334c-4d21-ad1d-0040556032a0	.	.	NM_001190259	exon2	c.91_98del	p.31_33del	.	.	47.0	10.0	61.0	0.0	.	.	.	0.213	.	none	.	.	PASS	Pindel
