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
FMO4	2329	hgsc.bcm.edu	hg19	1	171303821	171303821	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	FMO4	NM_002022	exon8	c.A1099G	p.I367V	TTAGCCATCATCG	.	138.0	43.0	176.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
FMO4	2329	hgsc.bcm.edu	hg19	1	171303822	171303822	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	FMO4	NM_002022	exon8	c.T1100C	p.I367T	TAGCCATCATCGG	.	136.0	43.0	171.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR1	55127	hgsc.bcm.edu	hg19	1	236738095	236738095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	HEATR1	NM_018072	exon23	c.G3193A	p.G1065R	ACTTTCCCAGAGT	.	108.0	43.0	117.0	0.0	.	197	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR1	55127	hgsc.bcm.edu	hg19	1	236749736	236749736	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	HEATR1	NM_018072	exon15	c.A1732G	p.I578V	CGGCTATCTTAAG	.	156.0	50.0	170.0	0.0	.	197	.	.	.	none	.	.	PASS	Atlas-SNP
CAD	790	hgsc.bcm.edu	hg19	2	27440797	27440797	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CAD	NM_004341	exon2	c.C135A	p.Y45X	CTCCTACAAGGCA	.	143.0	54.0	189.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
RTN4	57142	hgsc.bcm.edu	hg19	2	55253513	55253513	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	RTN4	NM_020532	exon3	c.A1722T	p.E574D	TTTTGTTTCATAA	.	130.0	32.0	165.0	0.0	.	189	.	.	.	none	.	.	PASS	Atlas-SNP
RTN4	57142	hgsc.bcm.edu	hg19	2	55253514	55253514	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	RTN4	NM_020532	exon3	c.A1721C	p.E574A	TTTGTTTCATAAG	.	132.0	33.0	165.0	0.0	.	189	.	.	.	none	.	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73680677	73680677	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ALMS1	NM_015120	exon8	c.T7020C	p.N2340N	GACGAATTTGAAA	.	71.0	14.0	80.0	0.0	.	384	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA4F	10505	hgsc.bcm.edu	hg19	2	74902749	74902749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	SEMA4F,rectum,carcinoma,0,1	SEMA4F	NM_004263	exon11	c.G1470A	p.M490I	GAACATGAAATTG	.	134.0	40.0	123.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	hg19	2	101670697	101670697	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TBC1D8	NM_001102426	exon4	c.C459T	p.F153F	CTCGGGGAAGTTG	.	18.0	12.0	20.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM177	80775	hgsc.bcm.edu	hg19	2	120439354	120439354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TMEM177	NM_030577	exon2	c.G925A	p.G309S	AATCCGGGCCGCT	.	129.0	44.0	139.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141819633	141819633	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	LRP1B	NM_018557	exon8	c.T1223A	p.I408N	CCTTGAATGACAG	.	212.0	76.0	201.0	0.0	.	1315	.	.	.	none	.	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	hg19	2	170083080	170083080	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	LRP2	NM_004525	exon32	c.T5246C	p.I1749T	ACAGTTATTAAGA	.	119.0	26.0	105.0	0.0	.	751	.	.	.	none	.	.	PASS	Atlas-SNP
CUL3	8452	hgsc.bcm.edu	hg19	2	225422516	225422516	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CUL3	NM_001257198	exon2	c.C142T	p.Q48X	TTTCTTGAATTGC	.	99.0	53.0	81.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
USP40	55230	hgsc.bcm.edu	hg19	2	234449396	234449396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	USP40_ENST00000450966,NS,carcinoma,0,4	USP40	NM_018218	exon9	c.C1115A	p.P372H	TCAACAGGAATTA	.	248.0	111.0	254.0	2.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM8	79054	hgsc.bcm.edu	hg19	2	234847784	234847784	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TRPM8	NM_024080	exon5	c.T491A	p.I164N	GCAAGATCTTCAG	.	82.0	32.0	64.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	hg19	3	10387742	10387742	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ATP2B2	NM_001001331	exon17	c.C2484T	p.L828L	CTTCTTGAGTGCA	.	67.0	17.0	72.0	0.0	.	304	.	.	.	none	.	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	hg19	3	46009968	46009968	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	FYCO1	NM_024513	exon8	c.G858A	p.E286E	GTTGTCCTCCGCT	.	91.0	20.0	115.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
CCR5	1234	hgsc.bcm.edu	hg19	3	46415150	46415150	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CCR5	NM_000579	exon3	c.A757T	p.I253F	TACAACATTGTCC	.	556.0	164.0	688.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
QTRTD1	79691	hgsc.bcm.edu	hg19	3	113798773	113798773	+	Missense_Mutation	SNP	G	G	A	rs199551955		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	QTRTD1	NM_001256835	exon7	c.G803A	p.R268Q	TTAGTCGGCCAGA	.	280.0	111.0	320.0	0.0	.	29	.	.	.	weak	.	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	hg19	3	167083714	167083714	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ZBBX	NM_024687	exon6	c.A233C	p.Q78P	TATGATTGATTGA	.	108.0	39.0	134.0	0.0	.	299	.	.	.	none	.	.	PASS	Atlas-SNP
TNFSF10	8743	hgsc.bcm.edu	hg19	3	172224404	172224404	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TNFSF10	NM_003810	exon5	c.A724T	p.I242F	GATAGATGGAATA	.	176.0	60.0	171.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
OTOP1	133060	hgsc.bcm.edu	hg19	4	4199006	4199006	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	OTOP1	NM_177998	exon5	c.A1555G	p.S519G	AGCTGCTCTCCTC	.	94.0	25.0	119.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
OTOP1	133060	hgsc.bcm.edu	hg19	4	4199007	4199007	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	OTOP1	NM_177998	exon5	c.G1554A	p.E518E	GCTGCTCTCCTCC	.	96.0	27.0	117.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
SDAD1	55153	hgsc.bcm.edu	hg19	4	76877179	76877179	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SDAD1	NM_018115	exon21	c.G1965A	p.R655R	GCTATACCGCATC	.	311.0	101.0	392.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
ADAD1	132612	hgsc.bcm.edu	hg19	4	123336554	123336554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	ADAD1,colon,carcinoma,0,1	ADAD1	NM_139243	exon11	c.A1270G	p.T424A	AGTGATACCAGAG	.	125.0	10.0	171.0	1.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
PLK4	10733	hgsc.bcm.edu	hg19	4	128804442	128804442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PLK4	NM_014264	exon3	c.C152T	p.A51V	ACAAAGCAGGAAT	.	48.0	13.0	53.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	hg19	4	151829520	151829520	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	LRBA	NM_006726	exon11	c.C1459T	p.Q487X	AATATTGCCTGTA	.	93.0	31.0	115.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
GOLPH3	64083	hgsc.bcm.edu	hg19	5	32126417	32126417	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	GOLPH3	NM_022130	exon4	c.G798T	p.K266N	CACTCTCTTGGTA	.	142.0	33.0	155.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
GPBP1	65056	hgsc.bcm.edu	hg19	5	56545332	56545332	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	GPBP1	NM_001127236	exon8	c.T922G	p.F308V	AGTGAATTTTTGA	.	107.0	32.0	95.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
CD180	4064	hgsc.bcm.edu	hg19	5	66478708	66478708	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CD180	NM_005582	exon3	c.A1963C	p.R655R	TCCACCTGAGAAG	.	51.0	18.0	84.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
LNPEP	4012	hgsc.bcm.edu	hg19	5	96328816	96328816	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	LNPEP	NM_005575	exon5	c.T1229A	p.I410N	TTGAAATTCAGTA	.	112.0	46.0	130.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHA9	9752	hgsc.bcm.edu	hg19	5	140228538	140228538	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PCDHA9	NM_031857	exon1	c.C458A	p.P153Q	GGTTTCCACTAGA	.	194.0	45.0	189.0	0.0	.	373	.	.	.	none	.	.	PASS	Atlas-SNP
DDX39B	7919	hgsc.bcm.edu	hg19	6	31507042	31507042	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DDX39B	NM_004640	exon3	c.A221G	p.E74G	ATGCACTCATGCT	.	114.0	48.0	146.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	hg19	6	56347659	56347659	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DST	NM_015548	exon70	c.T13355C	p.L4452S	TTCCCCAACTCTT	.	63.0	22.0	79.0	0.0	.	1427	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35D3	340146	hgsc.bcm.edu	hg19	6	137243696	137243696	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SLC35D3	NM_001008783	exon1	c.G130C	p.V44L	ACCCTGGTGCAGT	.	50.0	17.0	61.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
TAX1BP1	8887	hgsc.bcm.edu	hg19	7	27856087	27856087	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TAX1BP1	NM_006024	exon14	c.T1884C	p.N628N	GTCAAATGCACAA	.	298.0	100.0	347.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF679	168417	hgsc.bcm.edu	hg19	7	63721262	63721262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ZNF679	NM_153363	exon4	c.G217A	p.E73K	AATAAAGAGCCTT	.	60.0	24.0	73.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	hg19	7	91631868	91631868	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	AKAP9	NM_005751	exon8	c.A2637G	p.E879E	TTTAGAAGACAGT	.	75.0	21.0	98.0	0.0	.	788	.	.	.	none	.	.	PASS	Atlas-SNP
PEX1	5189	hgsc.bcm.edu	hg19	7	92119227	92119227	+	Splice_Site	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PEX1	NM_000466	exon23	c.3439-2A>G	.	GAGCTCTGCATGG	.	48.0	21.0	63.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	hg19	8	17401959	17401959	+	Splice_Site	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SLC7A2	NM_001008539	exon3	c.377-1G>T	.	TGGGAAGGTACAT	.	127.0	41.0	142.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
EBF2	64641	hgsc.bcm.edu	hg19	8	25715868	25715868	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	EBF2	NM_022659	exon14	c.C1495T	p.L499L	CATTTAGAAATCC	.	74.0	24.0	120.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
PHF20L1	51105	hgsc.bcm.edu	hg19	8	133854952	133854952	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PHF20L1	NM_016018	exon19	c.G2580C	p.E860D	AAGTGAGCATAGC	.	104.0	49.0	86.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	hg19	8	144944250	144944250	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	EPPK1	NM_031308	exon1	c.C3172A	p.L1058I	TGGGGAGGTGGTG	.	22.0	6.0	20.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP39	80728	hgsc.bcm.edu	hg19	8	145806407	145806407	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ARHGAP39	NM_025251	exon4	c.A335G	p.N112S	TCCGTGTTCTGCT	.	16.0	7.0	9.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	hg19	9	72901129	72901129	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SMC5	NM_015110	exon8	c.A995T	p.K332M	ATATTAAGGAGGC	.	104.0	37.0	167.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	hg19	9	118997553	118997553	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PAPPA	NM_002581	exon7	c.C2369G	p.P790R	TCTACCCCTTGGT	.	85.0	31.0	110.0	0.0	.	243	.	.	.	none	.	.	PASS	Atlas-SNP
USP54	159195	hgsc.bcm.edu	hg19	10	75294429	75294429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	USP54	NM_152586	exon10	c.C1244T	p.S415F	TCAGAAGAGAAGT	.	89.0	31.0	100.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
GBF1	8729	hgsc.bcm.edu	hg19	10	104130513	104130513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	GBF1	NM_001199378	exon29	c.C3556A	p.L1186I	TACCACCTCTGTG	.	179.0	62.0	239.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
CNNM2	54805	hgsc.bcm.edu	hg19	10	104679308	104679308	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CNNM2	NM_199076	exon1	c.G1071T	p.E357D	CGGAGAGATCGTG	.	125.0	42.0	129.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	hg19	10	108412294	108412294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SORCS1	NM_001206572	exon18	c.C2321T	p.S774F	TTATTGGAAACCA	.	116.0	37.0	137.0	0.0	.	534	.	.	.	none	.	.	PASS	Atlas-SNP
MMP21	118856	hgsc.bcm.edu	hg19	10	127455494	127455494	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	MMP21	NM_147191	exon7	c.A1447C	p.N483H	AAGAATTAAGTAC	.	98.0	27.0	120.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
PHRF1	57661	hgsc.bcm.edu	hg19	11	601639	601639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PHRF1	NM_020901	exon10	c.T1090C	p.S364P	AAGAGCTCAGCGA	.	59.0	29.0	70.0	0.0	.	188	.	.	.	none	.	.	PASS	Atlas-SNP
FAU	2197	hgsc.bcm.edu	hg19	11	64888258	64888258	+	Missense_Mutation	SNP	C	C	A	rs3202210	alternate_allele	TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	FAU	NM_001997	exon5	c.G297T	p.K99N	CTTCTTCTTCTTC	.	220.0	80.0	254.0	0.0	.	17	.	.	.	alt	.	.	PASS	Atlas-SNP
DPP3	10072	hgsc.bcm.edu	hg19	11	66260242	66260242	+	Silent	SNP	G	G	A	rs200674271		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DPP3	NM_130443	exon10	c.G1044A	p.A348A	GGTGGCGAGCGCA	.	149.0	64.0	145.0	0.0	.	61	.	.	.	weak	.	.	PASS	Atlas-SNP
DGAT2	84649	hgsc.bcm.edu	hg19	11	75509461	75509461	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DGAT2	NM_032564	exon7	c.C999T	p.P333P	CAAGCCCATCACC	.	51.0	17.0	58.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
CNTN5	53942	hgsc.bcm.edu	hg19	11	99690367	99690367	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	CNTN5	NM_001243270	exon3	c.A148C	p.T50P	TCCAAAACCAGAC	.	107.0	13.0	164.0	0.0	.	324	.	.	.	none	.	.	PASS	Atlas-SNP
BCL9L	283149	hgsc.bcm.edu	hg19	11	118771686	118771686	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	BCL9L	NM_182557	exon6	c.T2766G	p.N922K	CATCTGATTAATA	.	70.0	19.0	92.0	0.0	.	254	.	.	.	none	.	.	PASS	Atlas-SNP
OR8B8	26493	hgsc.bcm.edu	hg19	11	124310919	124310919	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	OR8B8	NM_012378	exon1	c.G63A	p.P21P	GACTCCCGGTTGG	.	76.0	28.0	113.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
C3AR1	719	hgsc.bcm.edu	hg19	12	8212439	8212439	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	C3AR1	NM_004054	exon2	c.G343A	p.A115T	TAATGGCAGTAAG	.	80.0	22.0	73.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
KRT77	374454	hgsc.bcm.edu	hg19	12	53086340	53086340	+	Missense_Mutation	SNP	A	A	C	rs200694410		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.,1	KRT77	NM_175078	exon7	c.T1292G	p.L431R	TCCTCCAGGTCCT	.	44.0	4.0	41.0	1.0	.	58	.	.	.	weak	.	.	PASS	Atlas-SNP
ATF7	11016	hgsc.bcm.edu	hg19	12	53931334	53931334	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ATF7	NM_001130060	exon5	c.T267A	p.A89A	AGCAGCAGCCTGT	.	49.0	16.0	59.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
SRGAP1	57522	hgsc.bcm.edu	hg19	12	64521913	64521913	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	SRGAP1,NS,carcinoma,0,1	SRGAP1	NM_020762	exon21	c.C2813A	p.S938Y	GAAGGTCCACGTC	.	43.0	12.0	46.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
EID3	493861	hgsc.bcm.edu	hg19	12	104698219	104698219	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	EID3	NM_001008394	exon1	c.T507A	p.H169Q	ATTCCATTTTGTT	.	282.0	113.0	355.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF7	8874	hgsc.bcm.edu	hg19	13	111885553	111885553	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ARHGEF7	NM_001113511	exon7	c.G735A	p.E245E	TTCAGAGAAGCCT	.	132.0	76.0	192.0	1.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	hg19	16	18841597	18841597	+	Missense_Mutation	SNP	C	C	T	rs371226711	alternate_allele	TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SMG1	NM_015092	exon52	c.G8887A	p.A2963T	CGAATGCTACCAA	.	47.0	21.0	49.0	0.0	.	401	.	.	.	alt	.	.	PASS	Atlas-SNP
NKD1	85407	hgsc.bcm.edu	hg19	16	50667463	50667463	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	NKD1	NM_033119	exon10	c.C1184G	p.A395G	CCCTAGCCCCCCT	.	32.0	11.0	34.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
TRPV3	162514	hgsc.bcm.edu	hg19	17	3458126	3458126	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TRPV3	NM_001258205	exon2	c.G19A	p.E7K	CCATCTCCTTGGG	.	80.0	25.0	73.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
COX10	1352	hgsc.bcm.edu	hg19	17	13977738	13977738	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	COX10	NM_001303	exon2	c.A142C	p.I48L	CAGTGGATTACAT	.	324.0	115.0	383.0	1.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
TEX19	400629	hgsc.bcm.edu	hg19	17	80320426	80320426	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	TEX19	NM_207459	exon2	c.C400A	p.L134M	CTGGGCCTGGGCC	.	202.0	78.0	178.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
PSMA8	143471	hgsc.bcm.edu	hg19	18	23731852	23731852	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PSMA8	NM_144662	exon3	c.A278G	p.N93S	TAATAAACAGAGC	.	116.0	39.0	130.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	hg19	19	2917763	2917763	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ZNF57	NM_173480	exon4	c.C1144T	p.H382Y	AGAGAACATGTGA	.	134.0	52.0	156.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	hg19	19	9868191	9868191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ZNF846	NM_001077624	exon6	c.T1562C	p.L521P	TTAGCAAGTGCTG	.	279.0	100.0	317.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
GATAD2A	54815	hgsc.bcm.edu	hg19	19	19603133	19603133	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	GATAD2A	NM_017660	exon3	c.G288T	p.R96S	CGAGAGGAGACCC	.	17.0	9.0	15.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
PAK4	10298	hgsc.bcm.edu	hg19	19	39667267	39667267	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	PAK4	NM_001014832	exon7	c.G1397T	p.S466I	AGGTGAGCAAGGA	.	225.0	94.0	367.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SIRPB1	10326	hgsc.bcm.edu	hg19	20	1551504	1551504	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SIRPB1	NM_006065	exon4	c.A1031T	p.Y344F	AGGGCATAGCTTT	.	201.0	78.0	274.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
SF3A1	10291	hgsc.bcm.edu	hg19	22	30737847	30737847	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	SF3A1	NM_005877	exon7	c.A905T	p.E302V	AGCTCCTCTGGCG	.	104.0	31.0	113.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
APOBEC3G	60489	hgsc.bcm.edu	hg19	22	39482535	39482535	+	Silent	SNP	C	C	G	rs138907659	alternate_allele	TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	APOBEC3G	NM_021822	exon6	c.C987G	p.A329A	CCTGGCCGAGGCT	.	206.0	59.0	319.0	0.0	.	69	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
AGTR2	186	hgsc.bcm.edu	hg19	X	115303624	115303624	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	AGTR2	NM_000686	exon3	c.T91G	p.S31A	AATGAGTCTACCT	.	98.0	63.0	104.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
ATP8	0	hgsc.bcm.edu	hg19	MT	8538	8538	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	.	ENST00000361851	exon1	c.T173C	p.I58T	CGAAAATCTGTTC	.	19.0	4.0	32.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	hg19	2	61505306	61505306	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	USP34	NM_014709	exon41	c.5428delG	p.G1810fs	.	.	38.0	12.0	69.0	0.0	.	334	.	0.315789	0	none	.	.	PASS	Atlas-INDEL
EPHA4	2043	hgsc.bcm.edu	hg19	2	222365873	222365873	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	EPHA4	NM_004438	exon4	c.844delA	p.K282fs	.	.	92.0	57.0	65.0	0.0	.	263	.	0.619565	0	none	.	.	PASS	Atlas-INDEL
SYBU	55638	hgsc.bcm.edu	hg19	8	110587763	110587763	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	SYBU,NS,carcinoma,0,1	SYBU	NM_001099752	exon8	c.1365delC	p.D455fs	.	.	122.0	40.0	109.0	0.0	.	71	.	0.327869	0	none	.	.	PASS	Atlas-INDEL
DENND5B	160518	hgsc.bcm.edu	hg19	12	31586129	31586130	+	In_Frame_Ins	INS	-	-	GGCGAA	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DENND5B	NM_144973	exon8	c.2066_2067insTTCGCC	p.Q689delinsLRQ	.	.	188.0	25.0	254.0	0.0	.	114	.	0.132979	0	none	.	.	PASS	Atlas-INDEL
ZNF502	91392	hgsc.bcm.edu	hg19	3	44762384	44762384	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	ZNF502	NM_033210	exon4	c.74delA	p.K25fs	.	.	115.0	33.0	142.0	0.0	.	58	.	0.286957	0	none	.	.	PASS	Atlas-INDEL
ADAMDEC1	27299	hgsc.bcm.edu	hg19	8	24256052	24256052	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	ADAMDEC1_ENST00000256412,NS,malignant_melanoma,0,1	ADAMDEC1	NM_014479	exon8	c.749delA	p.N250fs	.	.	165.0	55.0	186.0	0.0	.	69	.	0.333333	0	none	.	.	PASS	Atlas-INDEL
JMJD1C	221037	hgsc.bcm.edu	hg19	10	64960365	64960365	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	JMJD1C	NM_032776	exon11	c.5148delA	p.L1716fs	.	.	89.0	32.0	91.0	0.0	.	347	.	0.359551	0	none	.	.	PASS	Atlas-INDEL
FAT1	2195	hgsc.bcm.edu	hg19	4	187540288	187540291	+	Frame_Shift_Del	DEL	TCCA	TCCA	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	TCCA	TCCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	FAT1	NM_005245	exon10	c.7450_7453del	p.2484_2485del	.	.	385.0	90.0	443.0	0.0	.	500	.	0.233766	0	none	.	.	PASS	Atlas-INDEL
DMTF1	9988	hgsc.bcm.edu	hg19	7	86802963	86802966	+	Frame_Shift_Del	DEL	AAGG	AAGG	-	novel		TCGA-BQ-5885-01A-11D-1589-08	TCGA-BQ-5885-11A-01D-1589-08	AAGG	AAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fefc32ae-2b8e-46c8-8a7b-d536f9c71568	762ffc49-9149-4ea9-9dce-33e726dee43d	.	DMTF1	NM_001142327	exon6	c.439_442del	p.147_148del	.	.	53.0	12.0	74.0	0.0	.	48	.	0.226415	0	none	.	.	PASS	Atlas-INDEL
