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
CSMD2	114784	hgsc.bcm.edu	hg19	1	34052133	34052133	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	CSMD2_ENST00000373381,NS,carcinoma,0,2	CSMD2	NM_052896	exon47	c.A7028T	p.Q2343L	TCAAACTGCAGGT	.	230.0	98.0	180.0	0.0	.	946	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	hg19	1	39878312	39878312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	KIAA0754	NM_015038	exon1	c.C2375T	p.S792L	CATCATCAGAGGG	.	57.0	17.0	45.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	hg19	1	109338856	109338856	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	STXBP3	NM_007269	exon14	c.G1111C	p.D371H	ATTAAGGACCTGG	.	205.0	53.0	156.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
RGSL1	353299	hgsc.bcm.edu	hg19	1	182520235	182520235	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	RGSL1	NM_001137669	exon18	c.G2934T	p.R978S	CCACAGGTTTTGT	.	81.0	4.0	78.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
ATP6V1B1	525	hgsc.bcm.edu	hg19	2	71188132	71188132	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ATP6V1B1	NM_001692	exon7	c.A667T	p.I223F	TTCGCCATCGTCT	.	279.0	158.0	219.0	1.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC74A	90557	hgsc.bcm.edu	hg19	2	132290624	132290624	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	CCDC74A	NM_138770	exon7	c.A989G	p.K330R	CCACCAAGAGCCT	.	473.0	177.0	456.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRN	5798	hgsc.bcm.edu	hg19	2	220161482	220161482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	PTPRN	NM_002846	exon16	c.G2299A	p.A767T	GGCTGGCGTTGAT	.	199.0	46.0	125.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
DOCK10	55619	hgsc.bcm.edu	hg19	2	225688235	225688235	+	Missense_Mutation	SNP	C	C	T	rs371861682		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	DOCK10,NS,carcinoma,0,1	DOCK10	NM_014689	exon28	c.G3166A	p.V1056I	TGGCAACGCTGTG	.	224.0	121.0	191.0	0.0	.	308	.	.	.	weak	.	.	PASS	Atlas-SNP
SP140L	93349	hgsc.bcm.edu	hg19	2	231264856	231264856	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SP140L	NM_138402	exon15	c.T1212A	p.D404E	CTTGGATGAGTGT	.	389.0	213.0	237.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
OXTR	5021	hgsc.bcm.edu	hg19	3	8809352	8809352	+	Silent	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	OXTR	NM_000916	exon3	c.C522A	p.I174I	AGAGAAGATGTGC	.	187.0	101.0	86.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
WDR1	9948	hgsc.bcm.edu	hg19	4	10099338	10099338	+	Silent	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	WDR1	NM_017491	exon5	c.T555C	p.I185I	TACGCCAATTGTG	.	124.0	48.0	150.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	hg19	4	114277121	114277121	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ANK2	NM_001148	exon38	c.C7347A	p.H2449Q	TTCACACAAAACC	.	80.0	28.0	87.0	0.0	.	576	.	.	.	none	.	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	hg19	5	353963	353963	+	Silent	SNP	C	C	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	AHRR,NS,carcinoma,0,1	AHRR	NM_001242412	exon3	c.C193T	p.L65L	TCCAAGCTGGACA	.	193.0	67.0	147.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
LIX1	167410	hgsc.bcm.edu	hg19	5	96443096	96443096	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	LIX1	NM_153234	exon3	c.G355T	p.E119X	CACTTTCCATAAT	.	137.0	38.0	131.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H2BN	8341	hgsc.bcm.edu	hg19	6	27806755	27806755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	HIST1H2BN	NM_003520	exon1	c.G316A	p.E106K	CCAGGGGAGCTGG	.	62.0	23.0	51.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R10	5514	hgsc.bcm.edu	hg19	6	30572781	30572781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	PPP1R10	NM_002714	exon11	c.C944T	p.T315M	GCAGCCGTAGGTG	.	89.0	29.0	73.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
UNC5CL	222643	hgsc.bcm.edu	hg19	6	40999454	40999454	+	Missense_Mutation	SNP	T	T	A	rs145811250	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	UNC5CL,NS,carcinoma,0,1	UNC5CL	NM_173561	exon6	c.A1085T	p.N362I	ATCTCATTGGTTA	.	170.0	64.0	199.0	0.0	.	52	.	.	.	alt	T|0.998;C|0.002	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	hg19	7	5567473	5567473	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ACTB	NM_001101	exon6	c.T1034C	p.I345T	GCCAGGATGGAGC	.	407.0	193.0	230.0	1.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
AGK	55750	hgsc.bcm.edu	hg19	7	141352597	141352597	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	AGK	NM_018238	exon16	c.G1142C	p.G381A	CAGGGGGCTCTTT	.	189.0	89.0	102.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	hg19	8	27913490	27913490	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	.	NM_001010906	exon10	c.A1198C	p.K400Q	TCAGTTTTTCCTT	.	37.0	13.0	62.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	hg19	8	27913492	27913492	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	.	NM_001010906	exon10	c.A1196G	p.E399G	AGTTTTTCCTTGA	.	36.0	13.0	62.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	hg19	9	131735460	131735460	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	NUP188	NM_015354	exon12	c.A1135G	p.M379V	GCATGCATGTGTG	.	57.0	16.0	66.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
AIFM2	84883	hgsc.bcm.edu	hg19	10	71874678	71874678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	AIFM2	NM_001198696	exon8	c.C968T	p.P323L	TTACCCGGCTTGT	.	60.0	16.0	88.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
FERMT3	83706	hgsc.bcm.edu	hg19	11	63990576	63990576	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	FERMT3	NM_178443	exon14	c.G1739T	p.R580L	TGATCCGCATCGA	.	170.0	65.0	222.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
C11orf53	341032	hgsc.bcm.edu	hg19	11	111154999	111154999	+	Missense_Mutation	SNP	G	G	A	rs146857088		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	C11orf53,NS,carcinoma,0,1	C11orf53	NM_198498	exon3	c.G206A	p.R69Q	ACTACCGGCCTCC	.	85.0	4.0	73.0	2.0	.	17	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	hg19	12	56814422	56814422	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TIMELESS	NM_003920	exon26	c.A3159C	p.E1053D	CATGGCTTCCTCA	.	270.0	135.0	203.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
SLC6A15	55117	hgsc.bcm.edu	hg19	12	85279278	85279278	+	Silent	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SLC6A15	NM_018057	exon4	c.T510C	p.S170S	AGACTGAGAAAAA	.	232.0	62.0	193.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
VWA8	23078	hgsc.bcm.edu	hg19	13	42185853	42185853	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	.	NM_015058	exon39	c.C4736G	p.A1579G	AGGCCTGCCGTGT	.	108.0	33.0	94.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TUBGCP3	10426	hgsc.bcm.edu	hg19	13	113140459	113140459	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TUBGCP3	NM_006322	exon22	c.G2572C	p.V858L	GCTGCACGATACC	.	281.0	103.0	343.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	hg19	16	18849889	18849889	+	Silent	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SMG1	NM_015092	exon43	c.T7068C	p.N2356N	GCAAACATTGTAA	.	177.0	42.0	113.0	0.0	.	401	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC113	29070	hgsc.bcm.edu	hg19	16	58292369	58292369	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	CCDC113	NM_014157	exon4	c.G488C	p.G163A	AGAAAGGGAGTAT	.	128.0	55.0	138.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC113	29070	hgsc.bcm.edu	hg19	16	58292370	58292370	+	Silent	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	CCDC113	NM_014157	exon4	c.G489T	p.G163G	GAAAGGGAGTATT	.	128.0	53.0	138.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
CAMTA2	23125	hgsc.bcm.edu	hg19	17	4872081	4872081	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	CAMTA2	NM_001171167	exon23	c.A3646T	p.R1216W	AAGCCCTTCCAGC	.	88.0	24.0	81.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
SSH2	85464	hgsc.bcm.edu	hg19	17	27958364	27958364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SSH2	NM_033389	exon15	c.G3767A	p.R1256H	GCTGAGCGCCTCA	.	136.0	81.0	93.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	hg19	17	33772567	33772567	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SLFN13	NM_144682	exon3	c.A133G	p.R45G	TAACTCTCGCCCT	.	88.0	46.0	73.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
LASP1	3927	hgsc.bcm.edu	hg19	17	37070728	37070728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	LASP1	NM_006148	exon5	c.G508A	p.V170I	GCCCCGGGTGAGT	.	100.0	50.0	50.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
KRT13	3860	hgsc.bcm.edu	hg19	17	39661375	39661375	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	KRT13	NM_002274	exon1	c.A428T	p.Q143L	GGGCTCTGCTTCA	.	248.0	155.0	171.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	hg19	17	45214536	45214536	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	CDC27	NM_001114091	exon14	c.C1913A	p.P638H	TGTCTAGGATTGA	.	50.0	4.0	28.0	0.0	.	337	.	.	.	none	.	.	PASS	Atlas-SNP
SCRN2	90507	hgsc.bcm.edu	hg19	17	45918192	45918192	+	Silent	SNP	A	A	G	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	SCRN2	NM_138355	exon2	c.T18C	p.P6P	GGAGTCAGGGCTC	.	243.0	48.0	188.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833454	56833454	+	Silent	SNP	G	G	A	rs77856248		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	PPM1E,colon,carcinoma,0,1	PPM1E	NM_014906	exon1	c.G96A	p.E32E	GCCGGAGCCGGAA	.	42.0	9.0	31.0	0.0	.	97	.	.	.	weak	.	.	PASS	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833457	56833457	+	Silent	SNP	G	G	C	rs74256772		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	PPM1E,colon,carcinoma,0,1	PPM1E	NM_014906	exon1	c.G99C	p.P33P	GGAGCCGGAACCC	.	42.0	14.0	31.0	0.0	.	97	.	.	.	weak	.	.	PASS	Atlas-SNP
AP3D1	8943	hgsc.bcm.edu	hg19	19	2130440	2130440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	AP3D1	NM_001261826	exon6	c.C559T	p.R187W	TCAGCCGGGGAAA	.	106.0	6.0	123.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF564	163050	hgsc.bcm.edu	hg19	19	12639471	12639471	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ZNF564	NM_144976	exon2	c.C43A	p.L15I	CCTCAAGTGTGAA	.	86.0	18.0	94.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF493	284443	hgsc.bcm.edu	hg19	19	21606232	21606232	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ZNF493	NM_001076678	exon4	c.A771C	p.R257S	TAAGAGAATTCAT	.	72.0	38.0	91.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
TTI1	9675	hgsc.bcm.edu	hg19	20	36641648	36641648	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TTI1	NM_014657	exon3	c.C571G	p.P191A	ACCTTGGATGGTC	.	64.0	20.0	65.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
TSHZ2	128553	hgsc.bcm.edu	hg19	20	51871576	51871576	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TSHZ2	NM_173485	exon2	c.G1579A	p.A527T	ACCACAGCCATCA	.	67.0	24.0	66.0	0.0	.	209	.	.	.	none	.	.	PASS	Atlas-SNP
IFNAR1	3454	hgsc.bcm.edu	hg19	21	34725063	34725063	+	Splice_Site	SNP	G	G	A	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	IFNAR1	NM_000629	exon9	c.1144-1G>A	.	TTTCTAGAGAAAA	.	18.0	14.0	16.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	hg19	22	38119757	38119757	+	Missense_Mutation	SNP	A	A	T	rs199535040		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TRIOBP	NM_001039141	exon7	c.A1194T	p.Q398H	CACTCAACGAGAG	.	13.0	6.0	1.0	0.0	.	262	.	.	.	weak	.	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	hg19	22	45748333	45748333	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	SMC1B_ENST00000357450,colon,carcinoma,-1,1	SMC1B	NM_148674	exon22	c.C3423A	p.H1141Q	TTACCTGTGCACA	.	113.0	32.0	116.0	0.0	.	215	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM17B	10245	hgsc.bcm.edu	hg19	X	48751030	48751030	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TIMM17B	NM_001167947	exon8	c.C651G	p.S217R	CTGATAGCTGGGG	.	93.0	29.0	104.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM17B	10245	hgsc.bcm.edu	hg19	X	48751031	48751031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	TIMM17B	NM_001167947	exon8	c.G650A	p.S217N	TGATAGCTGGGGT	.	92.0	29.0	104.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9724	9724	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	.	ENST00000362079	exon1	c.T518C	p.F173S	TCTATTTTACCCT	.	16.0	15.0	16.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61832057	61832061	+	Frame_Shift_Del	DEL	GTGGC	GTGGC	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	GTGGC	GTGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ANK3	NM_020987	exon37	c.8579_8583del	p.2860_2861del	.	.	78.0	13.0	128.0	0.0	.	703	.	0.166667	0	none	.	.	PASS	Atlas-INDEL
UBA6	55236	hgsc.bcm.edu	hg19	4	68536261	68536262	+	Frame_Shift_Ins	INS	-	-	TT	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	UBA6	NM_018227	exon8	c.596_597insAA	p.F199_G200delinsX	.	.	96.0	23.0	104.0	0.0	.	98	.	0.239583	0	none	.	.	PASS	Atlas-INDEL
UBA6	55236	hgsc.bcm.edu	hg19	4	68536260	68536261	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	UBA6,NS,carcinoma,0,1	UBA6	NM_018227	exon8	c.597_598insA	p.F199fs	.	.	96.0	23.0	106.0	0.0	.	98	.	0.239583	0	none	.	.	PASS	Atlas-INDEL
UBR4	23352	hgsc.bcm.edu	hg19	1	19524166	19524172	+	Frame_Shift_Del	DEL	ATTACGA	ATTACGA	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	ATTACGA	ATTACGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	UBR4	NM_020765	exon7	c.886_892del	p.296_298del	.	.	77.0	28.0	100.0	0.0	.	415	.	0.363636	0	none	.	.	PASS	Atlas-Indel,Pindel
ANK3	288	hgsc.bcm.edu	hg19	10	61832051	61832054	+	Frame_Shift_Del	DEL	TTGT	TTGT	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	TTGT	TTGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ANK3	NM_020987	exon37	c.8586_8589del	p.2862_2863del	.	.	85.0	13.0	129.0	0.0	.	703	.	0.152941	0	none	.	.	PASS	Atlas-INDEL
KIAA1751	85452	hgsc.bcm.edu	hg19	1	1891408	1891409	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	KIAA1751	NM_001080484	exon15	c.1756_1757del	p.586_586del	.	.	214.0	77.0	259.0	0.0	.	92	.	0.359813	0	none	.	.	PASS	Atlas-Indel,Pindel
FNDC7	163479	hgsc.bcm.edu	hg19	1	109265207	109265229	+	In_Frame_Del	DEL	GAAAACTGGTATGTAAACAAGAG	GAAAACTGGTATGTAAACAAGAG	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	GAAAACTGGTATGTAAACAAGAG	GAAAACTGGTATGTAAACAAGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	FNDC7	NM_001144937	exon5	c.848_856del	p.283_286del	.	.	54.0	13.0	72.0	0.0	.	113	.	0.241	.	none	.	.	PASS	Pindel
ANK3	288	hgsc.bcm.edu	hg19	10	61832052	61832061	+	Frame_Shift_Del	DEL	TGTTAGTGGC	TGTTAGTGGC	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	TGTTAGTGGC	TGTTAGTGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ANK3	NM_020987	exon37	c.8579_8588del	p.2860_2863del	.	.	87.0	18.0	130.0	0.0	.	703	.	0.207	.	none	.	.	PASS	Pindel
MSS51	118490	hgsc.bcm.edu	hg19	10	75185695	75185695	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	.	NM_001024593	exon5	c.944delC	p.T315fs	.	.	140.0	33.0	151.0	0.0	.	.	.	0.236	.	none	.	.	PASS	Pindel
ACSS1	84532	hgsc.bcm.edu	hg19	20	25028726	25028755	+	In_Frame_Del	DEL	GGTGATCCTCACTTCCGTTCCAGGCTCATC	GGTGATCCTCACTTCCGTTCCAGGCTCATC	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	GGTGATCCTCACTTCCGTTCCAGGCTCATC	GGTGATCCTCACTTCCGTTCCAGGCTCATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	.	ACSS1	NM_001252677	exon2	c.398_427del	p.133_143del	.	.	72.0	10.0	112.0	0.0	.	46	.	0.139	.	none	.	.	PASS	Pindel
UBA6	55236	hgsc.bcm.edu	hg19	4	68536261	68536261	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A4ZT-01A-11D-A26P-10	TCGA-A4-A4ZT-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	483bb781-0179-42e1-bf9c-487b240769b8	3c59a740-98eb-4a0d-8694-ac30ab89b553	UBA6,NS,carcinoma,0,1	UBA6	NM_018227	exon8	c.597delC	p.F199fs	.	.	96.0	21.0	106.0	0.0	.	98	.	0.219	.	none	.	.	PASS	Pindel