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
DENND4B	9909	hgsc.bcm.edu	hg19	1	153916546	153916546	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DENND4B	NM_014856	exon2	c.T305C	p.L102P	TCAACGAGGGGGG	.	72.0	17.0	109.0	0.0	.	210	.	.	.	none	.	.	PASS	Atlas-SNP
THBS3	7059	hgsc.bcm.edu	hg19	1	155175049	155175049	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	THBS3	NM_007112	exon3	c.G345A	p.A115A	CAGGCCCGCTTGC	.	55.0	13.0	66.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
SHCBP1L	81626	hgsc.bcm.edu	hg19	1	182922005	182922005	+	Silent	SNP	C	C	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SHCBP1L	NM_030933	exon1	c.G264C	p.A88A	CTCCGCCGCCGCC	.	43.0	18.0	35.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	hg19	1	197020002	197020002	+	Silent	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.,1	F13B	NM_001994	exon10	c.A1563G	p.K521K	CATTCCTTTAGAT	.	68.0	27.0	102.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R15B	84919	hgsc.bcm.edu	hg19	1	204379052	204379052	+	Silent	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PPP1R15B	NM_032833	exon1	c.T1488C	p.I496I	AGTCTGAATTGTT	.	72.0	23.0	81.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
PARP1	142	hgsc.bcm.edu	hg19	1	226570817	226570817	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PARP1	NM_001618	exon8	c.A1079T	p.E360V	CTGGTTTCTGGGG	.	96.0	40.0	142.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
ARID4B	51742	hgsc.bcm.edu	hg19	1	235345203	235345203	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ARID4B	NM_016374	exon20	c.T3031A	p.F1011I	TTGGAAATTCTGC	.	77.0	24.0	104.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240371139	240371139	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FMN2	NM_020066	exon5	c.C3027T	p.P1009P	CATACCCCCTCCT	.	81.0	5.0	87.0	0.0	.	451	.	.	.	none	.	.	PASS	Atlas-SNP
ARID5A	10865	hgsc.bcm.edu	hg19	2	97215160	97215160	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ARID5A	NM_212481	exon3	c.C223A	p.P75T	CACACGCCCATCG	.	127.0	72.0	111.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179431535	179431535	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	TTN	NM_001267550	exon326	c.A79324G	p.T26442A	AATCTGTAATGCG	.	60.0	42.0	58.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	hg19	3	12447397	12447397	+	Silent	SNP	G	G	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PPARG	NM_015869	exon5	c.G636C	p.R212R	TGGGCGGATGCCA	.	83.0	5.0	62.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
DAG1	1605	hgsc.bcm.edu	hg19	3	49547996	49547996	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DAG1	NM_001177642	exon3	c.T29C	p.L10P	CGCTGCTGCTGCC	.	60.0	13.0	48.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
MBNL1	4154	hgsc.bcm.edu	hg19	3	152163262	152163262	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	MBNL1	NM_207292	exon5	c.C741T	p.I247I	CAAGATCAAGGCT	.	145.0	37.0	118.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
USP13	8975	hgsc.bcm.edu	hg19	3	179462840	179462840	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	USP13	NM_003940	exon13	c.T1544A	p.I515N	AACTGATCGCTTA	.	158.0	65.0	117.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
DLG1	1739	hgsc.bcm.edu	hg19	3	196888577	196888577	+	Silent	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DLG1	NM_001098424	exon6	c.T516A	p.T172T	AGGGACAGTGGGA	.	398.0	99.0	381.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
CLNK	116449	hgsc.bcm.edu	hg19	4	10522421	10522421	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	CLNK	NM_052964	exon15	c.A766C	p.N256H	CTCTGTTTTGCAC	.	104.0	35.0	137.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
USP46	64854	hgsc.bcm.edu	hg19	4	53492228	53492228	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	USP46	NM_022832	exon4	c.A518G	p.Q173R	GTTCCCTGAAAAA	.	202.0	64.0	224.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
EXOC1	55763	hgsc.bcm.edu	hg19	4	56759888	56759888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	EXOC1	NM_018261	exon15	c.T1895C	p.L632P	CTTTCCTAAGTAC	.	121.0	40.0	141.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
CDKL2	8999	hgsc.bcm.edu	hg19	4	76521462	76521462	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	CDKL2	NM_003948	exon10	c.C1385A	p.S462X	ATGCCTGATGGGG	.	101.0	5.0	132.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF474	133923	hgsc.bcm.edu	hg19	5	121487756	121487756	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZNF474	NM_207317	exon2	c.C71A	p.T24N	AACCCACTTTCCT	.	98.0	25.0	140.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
NKX2-5	1482	hgsc.bcm.edu	hg19	5	172660100	172660100	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	NKX2-5	NM_004387	exon2	c.G447T	p.Q149H	ATAGACCTGCGCC	.	74.0	22.0	60.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	hg19	5	176520385	176520385	+	Silent	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FGFR4	NM_022963	exon8	c.A1110G	p.R370R	AGGCAGAACCAAG	.	87.0	37.0	97.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38863980	38863980	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DNAH8	NM_001206927	exon60	c.A8919C	p.E2973D	GTTTGAAGTACCC	.	100.0	23.0	143.0	0.0	.	1239	.	.	.	none	.	.	PASS	Atlas-SNP
GCLC	2729	hgsc.bcm.edu	hg19	6	53380907	53380907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	GCLC	NM_001498	exon4	c.G560A	p.S187N	ACTCACCTGAAGC	.	65.0	15.0	88.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
GCLC	2729	hgsc.bcm.edu	hg19	6	53380911	53380911	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	GCLC	NM_001498	exon4	c.T556C	p.F186L	ACCTGAAGCGAGG	.	67.0	16.0	89.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	hg19	6	71236101	71236101	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FAM135A	NM_001162529	exon13	c.A3314G	p.Y1105C	CAGATTATTCAGC	.	159.0	48.0	186.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
FAM20C	56975	hgsc.bcm.edu	hg19	7	193541	193541	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FAM20C	NM_020223	exon1	c.C342T	p.A114A	CGCGGCCGAGCCG	.	40.0	23.0	21.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
FAM20C	56975	hgsc.bcm.edu	hg19	7	193561	193561	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FAM20C	NM_020223	exon1	c.T362A	p.L121X	GCGCCTTGCGGGG	.	26.0	14.0	13.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF853	54753	hgsc.bcm.edu	hg19	7	6661545	6661545	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZNF853	NM_017560	exon3	c.A923T	p.Q308L	AACTGCAGCCTCC	.	93.0	23.0	65.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	hg19	7	11582721	11582721	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	THSD7A	NM_015204	exon5	c.T1477G	p.L493V	TGCATAATTTTAA	.	166.0	75.0	170.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
TMED4	222068	hgsc.bcm.edu	hg19	7	44621390	44621390	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	TMED4	NM_182547	exon2	c.A193C	p.K65Q	CCTCCTTCTGCTT	.	115.0	49.0	108.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
XRCC2	7516	hgsc.bcm.edu	hg19	7	152345944	152345944	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	XRCC2	NM_005431	exon3	c.C626A	p.P209H	TGAGAAGGTTCTT	.	90.0	17.0	78.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
WDR67	93594	hgsc.bcm.edu	hg19	8	124154514	124154514	+	Missense_Mutation	SNP	A	A	T	rs144810574	bycluster;byfrequency;alternate_allele	TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	WDR67	NM_145647	exon19	c.A2653T	p.N885Y	AAAGAAAATTTGG	.	349.0	107.0	405.0	1.0	.	97	.	.	.	alt	A|0.999;C|0.001	.	PASS	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	hg19	8	139707081	139707081	+	Silent	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	COL22A1	NM_152888	exon33	c.G2634T	p.L878L	CCCAGGCAGGCCT	.	54.0	16.0	69.0	0.0	.	390	.	.	.	none	.	.	PASS	Atlas-SNP
SCRIB	23513	hgsc.bcm.edu	hg19	8	144892982	144892982	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SCRIB	NM_015356	exon12	c.T1278A	p.D426E	CCCAGCATCCTCT	.	21.0	6.0	28.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
RABL6	55684	hgsc.bcm.edu	hg19	9	139734263	139734263	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	.	NM_001173988	exon13	c.G1879A	p.D627N	GACTCGGACCTCT	.	49.0	18.0	33.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	hg19	10	135372389	135372389	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SYCE1	NM_001143763	exon4	c.T263A	p.L88Q	GAGTCCAGTTCCT	.	72.0	21.0	59.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	hg19	10	135372390	135372390	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SYCE1	NM_001143763	exon4	c.C262A	p.L88M	AGTCCAGTTCCTT	.	72.0	22.0	60.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
DAK	26007	hgsc.bcm.edu	hg19	11	61111339	61111339	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DAK	NM_015533	exon12	c.A994G	p.T332A	GAAACCACTGCAG	.	53.0	16.0	44.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC87	55231	hgsc.bcm.edu	hg19	11	66359427	66359427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	CCDC87	NM_018219	exon1	c.G1060A	p.A354T	CCTCAGCCACGAT	.	69.0	29.0	54.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD13D	338692	hgsc.bcm.edu	hg19	11	67058950	67058950	+	Missense_Mutation	SNP	C	C	A	rs373999660	alternate_allele	TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ANKRD13D	NM_207354	exon4	c.C355A	p.P119T	TAGGCCCCCGATT	.	36.0	10.0	54.0	0.0	.	71	.	.	.	alt	.	.	PASS	Atlas-SNP
PITPNM1	9600	hgsc.bcm.edu	hg19	11	67267651	67267651	+	Silent	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PITPNM1	NM_001130848	exon6	c.C882T	p.P294P	GCCTGGGGGGGCC	.	23.0	11.0	13.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
CERS5	91012	hgsc.bcm.edu	hg19	12	50529605	50529605	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	.	NM_147190	exon8	c.A782G	p.N261S	GCATAATTGGCCA	.	87.0	20.0	107.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GSX1	219409	hgsc.bcm.edu	hg19	13	28367053	28367053	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	GSX1	NM_145657	exon1	c.C226T	p.L76L	CCCGCGCTGCCTC	.	16.0	4.0	11.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
NBEA	26960	hgsc.bcm.edu	hg19	13	35758158	35758158	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	NBEA	NM_015678	exon30	c.T4877G	p.F1626C	ATGGATTCCTTGC	.	102.0	32.0	89.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
FARP1	10160	hgsc.bcm.edu	hg19	13	98865472	98865472	+	Splice_Site	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FARP1	.	.	.	.	TCCTGCAGATATT	.	68.0	20.0	60.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
IRS2	8660	hgsc.bcm.edu	hg19	13	110436093	110436093	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	IRS2,colon,carcinoma,0,1	IRS2	NM_003749	exon1	c.T2308C	p.S770P	TGGGGGACACGTT	.	49.0	2.0	33.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
GPR137C	283554	hgsc.bcm.edu	hg19	14	53099007	53099007	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	GPR137C	NM_001099652	exon4	c.T847A	p.W283R	TATGGCTGGGATA	.	126.0	24.0	166.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
SRP14	6727	hgsc.bcm.edu	hg19	15	40331316	40331316	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SRP14	NM_003134	exon1	c.T2C	p.M1T	AACACCATCGCGG	.	71.0	8.0	68.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE19	84936	hgsc.bcm.edu	hg19	15	41099608	41099608	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZFYVE19	NM_032850	exon1	c.A122G	p.Y41C	GCGCGTACAGGTC	.	155.0	43.0	127.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
MFAP1	4236	hgsc.bcm.edu	hg19	15	44105507	44105507	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	MFAP1	NM_005926	exon5	c.G666A	p.Q222Q	CTCCTTCTGTTTC	.	74.0	23.0	74.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
PIF1	80119	hgsc.bcm.edu	hg19	15	65114469	65114469	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PIF1	NM_025049	exon4	c.T813A	p.F271L	ACCTGCAAAGGCA	.	45.0	10.0	48.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73581573	73581573	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	NEO1	NM_001172623	exon25	c.C3736A	p.P1246T	CAGCCACCCCAGC	.	73.0	32.0	70.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
PML	5371	hgsc.bcm.edu	hg19	15	74325643	74325643	+	Silent	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PML	NM_033244	exon6	c.G1545A	p.K515K	CTCCAAGGCAGTC	.	85.0	21.0	92.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	hg19	15	85476453	85476453	+	Silent	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SLC28A1	NM_004213	exon13	c.G1161A	p.P387P	CTACCCGGAGGTG	.	56.0	17.0	76.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF597	146434	hgsc.bcm.edu	hg19	16	3487293	3487293	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZNF597	NM_152457	exon4	c.T406A	p.L136I	TTCCTAAATATTC	.	208.0	123.0	201.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF646	9726	hgsc.bcm.edu	hg19	16	31092685	31092685	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZNF646	NM_014699	exon2	c.C5040T	p.T1680T	CTGCACCCAGTGC	.	112.0	19.0	92.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAM	3684	hgsc.bcm.edu	hg19	16	31335987	31335987	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ITGAM	NM_001145808	exon18	c.C2176A	p.P726T	GAGGACCCAGTGA	.	140.0	17.0	109.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC18A	348174	hgsc.bcm.edu	hg19	16	69988283	69988283	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	CLEC18A	NM_001271197	exon4	c.T263C	p.L88P	CAGCCCTCTGTGG	.	396.0	181.0	309.0	1.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72984405	72984405	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ZFHX3	NM_006885	exon3	c.T3179G	p.V1060G	GAGTTGACCGTGT	.	72.0	37.0	59.0	0.0	.	404	.	.	.	none	.	.	PASS	Atlas-SNP
JPH3	57338	hgsc.bcm.edu	hg19	16	87678517	87678517	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	JPH3	NM_020655	exon2	c.G1036A	p.G346S	GTCGGCGGCAAGC	.	71.0	29.0	47.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL11	55175	hgsc.bcm.edu	hg19	17	40010765	40010765	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	KLHL11	NM_018143	exon2	c.A1354G	p.K452E	TCCCTTTGACTTC	.	214.0	96.0	206.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
KIF18B	146909	hgsc.bcm.edu	hg19	17	43009571	43009571	+	Silent	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	KIF18B	NM_001264573	exon10	c.G1278A	p.Q426Q	GCAGGGCTGGCTG	.	51.0	8.0	33.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
TLK2	11011	hgsc.bcm.edu	hg19	17	60663585	60663585	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	TLK2	NM_006852	exon16	c.C1458A	p.H486Q	TTACCACAAGTAA	.	639.0	311.0	737.0	1.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
CBX4	8535	hgsc.bcm.edu	hg19	17	77807927	77807927	+	Missense_Mutation	SNP	A	A	G	rs200965379		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	CBX4,uveal_tract,malignant_melanoma,0,1	CBX4	NM_003655	exon5	c.T1514C	p.V505A	GCCGCCACCGCCA	.	45.0	6.0	25.0	1.0	.	40	.	.	.	weak	.	.	PASS	Atlas-SNP
LPIN2	9663	hgsc.bcm.edu	hg19	18	2939488	2939488	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	LPIN2	NM_014646	exon6	c.A812G	p.E271G	GTGGACTCTGGGA	.	42.0	16.0	42.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC178	374864	hgsc.bcm.edu	hg19	18	30992013	30992013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	.	NM_001105528	exon2	c.G40A	p.D14N	GATCATCTCTAGT	.	432.0	150.0	552.0	1.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	hg19	19	8183905	8183905	+	Silent	SNP	G	G	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FBN3	NM_032447	exon25	c.C3213T	p.D1071D	GTCCACGTCTGAA	.	28.0	12.0	32.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
PRDX2	7001	hgsc.bcm.edu	hg19	19	12911694	12911694	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PRDX2	NM_181738	exon3	c.A293G	p.K98R	GTGAGCTTAGCTG	.	76.0	22.0	99.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
FBXO46	23403	hgsc.bcm.edu	hg19	19	46215777	46215777	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	FBXO46	NM_001080469	exon2	c.T977C	p.L326P	GCCAGCAGGAACT	.	96.0	27.0	74.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
DEFB118	117285	hgsc.bcm.edu	hg19	20	29960794	29960794	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DEFB118	NM_054112	exon2	c.G193T	p.V65F	AGGCGAGTTCCTG	.	109.0	30.0	144.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
TPX2	22974	hgsc.bcm.edu	hg19	20	30388879	30388879	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	TPX2	NM_012112	exon18	c.G2240T	p.C747F	TCCACTGCTAAAC	.	67.0	23.0	103.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
SUSD2	56241	hgsc.bcm.edu	hg19	22	24579518	24579518	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SUSD2	NM_019601	exon3	c.T343A	p.C115S	GTGCACTGTGTGT	.	46.0	19.0	54.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SNX12	29934	hgsc.bcm.edu	hg19	X	70280928	70280928	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SNX12	NM_001256185	exon5	c.C427A	p.H143N	ACATGTGTAGGCA	.	47.0	32.0	47.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	hg19	22	29885593	29885594	+	In_Frame_Ins	INS	-	-	TGAGAAGGCCAAGTCCCC	rs267607533	bycluster;alternate_allele	TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	NEFH	NM_021076	exon4	c.1964_1965insTGAGAAGGCCAAGTCCCC	p.P655delinsPEKAKSP	.	.	307.0	58.0	263.0	0.0	.	178	.	0.188925	0	alt	.	.	PASS	Atlas-INDEL
ANTXR2	118429	hgsc.bcm.edu	hg19	4	80976344	80976344	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	ANTXR2	NM_001145794	exon6	c.516delT	p.S172fs	.	.	127.0	42.0	147.0	0.0	.	97	.	0.330709	0	none	.	.	PASS	Atlas-Indel,Pindel
DLEC1	9940	hgsc.bcm.edu	hg19	3	38101279	38101280	+	In_Frame_Ins	INS	-	-	CAT	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	DLEC1	NM_007335	exon3	c.609_610insCAT	p.K203delinsKH	.	.	91.0	39.0	60.0	0.0	.	278	.	0.428571	0	none	.	.	PASS	Atlas-Indel,Pindel
PTEN	5728	hgsc.bcm.edu	hg19	10	89692845	89692845	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	PTEN,colon,carcinoma,0,6	PTEN	NM_000314	exon5	c.328delC	p.Q110fs	.	.	224.0	59.0	229.0	0.0	.	3652	.	0.263393	0	none	.	.	PASS	Atlas-Indel,Pindel
SHB	6461	hgsc.bcm.edu	hg19	9	37919918	37919918	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SHB	NM_003028	exon6	c.1431delT	p.S477fs	.	.	140.0	35.0	150.0	0.0	.	31	.	0.25	0	none	.	.	PASS	Atlas-Indel,Pindel
CHCHD3	54927	hgsc.bcm.edu	hg19	7	132570441	132570442	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	CHCHD3	NM_017812	exon5	c.434_435insC	p.L145fs	.	.	65.0	15.0	89.0	0.0	.	21	.	0.230769	0	none	.	.	PASS	Atlas-Indel,Pindel
CCSAP	126731	hgsc.bcm.edu	hg19	1	229461075	229461076	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	.	NM_145257	exon4	c.720_721del	p.240_241del	.	.	101.0	28.0	125.0	0.0	.	.	.	0.277228	0	none	.	.	PASS	Atlas-Indel,Pindel
C1orf112	55732	hgsc.bcm.edu	hg19	1	169798424	169798424	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	C1orf112,NS,carcinoma,0,3	C1orf112	NM_018186	exon13	c.1147delG	p.V383fs	.	.	111.0	29.0	143.0	0.0	.	74	.	0.261261	0	none	.	.	PASS	Atlas-Indel,Pindel
SIRT4	23409	hgsc.bcm.edu	hg19	12	120750516	120750517	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SIRT4	NM_012240	exon3	c.754_755del	p.252_252del	.	.	104.0	29.0	146.0	0.0	.	29	.	0.278846	0	none	.	.	PASS	Atlas-INDEL
AMY1C	278	hgsc.bcm.edu	hg19	1	104238120	104238120	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	AMY1C	NM_001008219	exon2	c.143delC	p.A48fs	.	.	639.0	48.0	731.0	0.0	.	11	.	0.0751174	0	none	.	.	PASS	Atlas-INDEL
AMY1C	278	hgsc.bcm.edu	hg19	1	104293229	104293229	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	AMY1C	NM_001008219	exon2	c.137delA	p.Y46fs	.	.	629.0	57.0	784.0	0.0	.	11	.	0.09062	0	none	.	.	PASS	Atlas-INDEL
AMY1C	278	hgsc.bcm.edu	hg19	1	104199090	104199090	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	AMY1C	NM_001008219	exon2	c.137delA	p.Y46fs	.	.	648.0	55.0	774.0	0.0	.	11	.	0.0848765	0	none	.	.	PASS	Atlas-INDEL
PNPLA8	50640	hgsc.bcm.edu	hg19	7	108154603	108154603	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	PNPLA8	NM_001256008	exon3	c.1192delG	p.G398fs	.	.	106.0	23.0	89.0	0.0	.	82	.	0.216981	0	none	.	.	PASS	Atlas-Indel,Pindel
LIMD1	8994	hgsc.bcm.edu	hg19	3	45714309	45714327	+	Frame_Shift_Del	DEL	ACAAGTAAGAAGGGATGGG	ACAAGTAAGAAGGGATGGG	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	ACAAGTAAGAAGGGATGGG	ACAAGTAAGAAGGGATGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	LIMD1	NM_014240	exon5	c.1768_1772del	p.590_591del	.	.	59.0	10.0	54.0	0.0	.	34	.	0.169	.	none	.	.	PASS	Pindel
SIRT4	23409	hgsc.bcm.edu	hg19	12	120750516	120750518	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-B1-A657-01A-11D-A31X-10	TCGA-B1-A657-10A-01D-A31X-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c22d5cb0-397b-480a-97ae-4bf07e07c1f0	86a94d68-d695-416e-a19a-d1f1d0952902	.	SIRT4	NM_012240	exon3	c.754_756del	p.252_252del	.	.	105.0	20.0	149.0	0.0	.	29	.	0.190	.	none	.	.	PASS	Pindel
