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
PLOD1	5351	hgsc.bcm.edu	hg19	1	12030830	12030830	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PLOD1	NM_000302	exon17	c.T1859G	p.I620S	AGTACATTGCGCC	.	70.0	13.0	151.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRU	10076	hgsc.bcm.edu	hg19	1	29585229	29585229	+	Missense_Mutation	SNP	G	G	T	rs145487041	bycluster;by1000genomes;alternate_allele	TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PTPRU	NM_001195001	exon3	c.G418T	p.G140C	TCCCACGGCCGTC	.	107.0	6.0	130.0	0.0	.	374	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
B4GALT2	8704	hgsc.bcm.edu	hg19	1	44447485	44447485	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	B4GALT2,pharynx,carcinoma,0,1	B4GALT2	NM_030587	exon3	c.G525T	p.A175A	GGTGGCGGTCATC	.	139.0	31.0	235.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
DOCK7	85440	hgsc.bcm.edu	hg19	1	63096983	63096983	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DOCK7	NM_001271999	exon11	c.C1210A	p.H404N	TTAAATGGATTGC	.	259.0	66.0	344.0	0.0	.	184	.	.	.	none	.	.	PASS	Atlas-SNP
RBM8A	9939	hgsc.bcm.edu	hg19	1	145507671	145507671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	RBM8A	NM_005105	exon1	c.C5T	p.A2V	AGATGGCGGACGT	.	81.0	20.0	140.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	hg19	1	181727893	181727893	+	Splice_Site	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CACNA1E	NM_001205293	exon32	c.4495-1G>T	.	CTGGCAGTATTAT	.	56.0	4.0	85.0	0.0	.	778	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF648	127665	hgsc.bcm.edu	hg19	1	182027010	182027010	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ZNF648	NM_001009992	exon2	c.G136C	p.E46Q	TGCCCTCTTTTTC	.	85.0	22.0	142.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	hg19	1	186276990	186276990	+	Silent	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PRG4	NM_005807	exon7	c.T2139A	p.A713A	GACTGCTCCAACT	.	96.0	29.0	114.0	0.0	.	259	.	.	.	none	.	.	PASS	Atlas-SNP
SLC30A10	55532	hgsc.bcm.edu	hg19	1	220101416	220101416	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SLC30A10	NM_018713	exon1	c.G367C	p.G123R	ACAGCCCCAGGAC	.	207.0	50.0	378.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	hg19	1	243329104	243329104	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CEP170	NM_014812	exon13	c.C2158T	p.L720F	AGTGAAGTAGGGT	.	97.0	18.0	33.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
CGREF1	10669	hgsc.bcm.edu	hg19	2	27324530	27324530	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CGREF1	NM_001166239	exon6	c.A569C	p.E190A	TTTGCTTCTTCTC	.	48.0	8.0	76.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
SULT1C4	27233	hgsc.bcm.edu	hg19	2	108998295	108998295	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SULT1C4	NM_006588	exon2	c.C247T	p.H83Y	CCGACTCATCAAC	.	166.0	38.0	192.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	hg19	2	125192134	125192134	+	Silent	SNP	C	C	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CNTNAP5	NM_130773	exon5	c.C603G	p.L201L	TACTCTCAAAGAT	.	92.0	25.0	121.0	0.0	.	405	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC115	84317	hgsc.bcm.edu	hg19	2	131099478	131099478	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CCDC115	NM_032357	exon2	c.G151A	p.A51T	ACTTGGCGCCCAT	.	94.0	4.0	131.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
XRN1	54464	hgsc.bcm.edu	hg19	3	142137718	142137718	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	XRN1	NM_001042604	exon11	c.G1179A	p.Q393Q	ATTTTCCTGGCCC	.	155.0	25.0	189.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
PPARGC1A	10891	hgsc.bcm.edu	hg19	4	23886468	23886468	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PPARGC1A	NM_013261	exon2	c.T141C	p.D47D	GTCTGTATCCAAG	.	84.0	19.0	68.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
TMPRSS11D	9407	hgsc.bcm.edu	hg19	4	68699085	68699085	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TMPRSS11D	NM_004262	exon7	c.C529G	p.P177A	GGTCTGGACCGGC	.	56.0	10.0	78.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
C4orf3	401152	hgsc.bcm.edu	hg19	4	120221611	120221611	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	C4orf3	NM_001170330	exon2	c.A479C	p.N160T	TCGAAGTTCTGCC	.	85.0	19.0	130.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	hg19	5	95768715	95768715	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PCSK1	NM_000439	exon1	c.C32T	p.T11I	AAAGCAGTGCACT	.	136.0	39.0	241.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	hg19	5	122682287	122682287	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CEP120	NM_153223	exon21	c.C2887T	p.H963Y	CCTCGTGATTATA	.	95.0	19.0	57.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	hg19	5	169463523	169463523	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DOCK2	NM_004946	exon36	c.T3629A	p.F1210Y	AGAATTTCTACAA	.	72.0	32.0	97.0	0.0	.	389	.	.	.	none	.	.	PASS	Atlas-SNP
GPR116	221395	hgsc.bcm.edu	hg19	6	46836697	46836697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	GPR116,colon,carcinoma,0,2	GPR116	NM_015234	exon12	c.G1544T	p.R515I	TAAAATCTTTGGT	.	72.0	16.0	76.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
KATNA1	11104	hgsc.bcm.edu	hg19	6	149922828	149922828	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	KATNA1	NM_007044	exon7	c.A790T	p.T264S	ATTCTGTAGCTAC	.	97.0	25.0	138.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	hg19	6	155572110	155572110	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	TIAM2,mouth,carcinoma,0,1	TIAM2	NM_012454	exon21	c.C4015A	p.L1339M	CCATTTCTGTCTC	.	90.0	29.0	97.0	0.0	.	161	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM106B	54664	hgsc.bcm.edu	hg19	7	12254528	12254528	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TMEM106B	NM_001134232	exon2	c.T92G	p.V31G	GACTGGTTAATAG	.	85.0	16.0	66.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	hg19	8	8747815	8747815	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	MFHAS1	NM_004225	exon1	c.C2754T	p.A918A	TCTATAGGCAAAG	.	120.0	29.0	118.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
PDLIM2	64236	hgsc.bcm.edu	hg19	8	22442384	22442384	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PDLIM2	NM_021630	exon4	c.T1046C	p.V349A	TGGAAGTGCTGGC	.	67.0	7.0	106.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	hg19	8	55538963	55538963	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	RP1	NM_006269	exon4	c.G2521A	p.E841K	CAAGCAGAAGTGG	.	181.0	60.0	115.0	0.0	.	429	.	.	.	none	.	.	PASS	Atlas-SNP
LAPTM4B	55353	hgsc.bcm.edu	hg19	8	98788210	98788210	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	LAPTM4B	NM_018407	exon1	c.G246A	p.A82A	TTGCGCGCGCGCT	.	38.0	10.0	63.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
SMC2	10592	hgsc.bcm.edu	hg19	9	106882315	106882315	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SMC2	NM_006444	exon16	c.A2004T	p.R668R	TGCTCGATCCCAG	.	84.0	17.0	75.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
SH2D3C	10044	hgsc.bcm.edu	hg19	9	130511796	130511796	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SH2D3C	NM_170600	exon5	c.A833G	p.Y278C	TGTGTGTAGCTCT	.	73.0	25.0	89.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
HERC4	26091	hgsc.bcm.edu	hg19	10	69749982	69749982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	HERC4	NM_022079	exon14	c.C1619T	p.P540L	TTCAGTGGTGCCT	.	47.0	11.0	30.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
PPA1	5464	hgsc.bcm.edu	hg19	10	71974287	71974287	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PPA1	NM_021129	exon5	c.A353G	p.D118G	ATTGGGTCATTGT	.	46.0	11.0	65.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	hg19	10	73572275	73572275	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CDH23	NM_022124	exon65	c.T9419A	p.L3140Q	GGAACCTGGAGCT	.	57.0	20.0	101.0	0.0	.	365	.	.	.	none	.	.	PASS	Atlas-SNP
TNKS2	80351	hgsc.bcm.edu	hg19	10	93588096	93588096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	TNKS2,rectum,carcinoma,0,1	TNKS2	NM_025235	exon9	c.G1037A	p.R346Q	TTACTCGAATCAA	.	213.0	53.0	132.0	2.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
LCOR	84458	hgsc.bcm.edu	hg19	10	98715299	98715299	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	LCOR	NM_001170766	exon8	c.G922C	p.G308R	GATGCTGGACCCG	.	142.0	33.0	116.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM8	81603	hgsc.bcm.edu	hg19	10	104404444	104404444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TRIM8	NM_030912	exon1	c.G70A	p.E24K	TTCGTGGAGCCAG	.	153.0	33.0	231.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
OR51E2	81285	hgsc.bcm.edu	hg19	11	4703309	4703309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	OR51E2	NM_030774	exon2	c.G633A	p.M211I	GATGAACATTACG	.	88.0	18.0	140.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
TUT1	64852	hgsc.bcm.edu	hg19	11	62346467	62346467	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TUT1	NM_022830	exon5	c.C840A	p.D280E	GGCCGAGTCCAGC	.	108.0	23.0	135.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
CTSF	8722	hgsc.bcm.edu	hg19	11	66332038	66332038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CTSF	NM_003793	exon11	c.T1312C	p.Y438H	TGCCGTAGCCCAC	.	104.0	19.0	148.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	hg19	11	108178695	108178695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	ATM_ENST00000278616,colon,carcinoma,0,4	ATM	NM_000051	exon38	c.A5746G	p.M1916V	GACTACATGAGAA	.	57.0	4.0	70.0	0.0	.	1657	.	.	.	none	.	.	PASS	Atlas-SNP
ALG9	79796	hgsc.bcm.edu	hg19	11	111707006	111707006	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ALG9	NM_024740	exon14	c.A1484T	p.Q495L	ATGAACTGAAGCT	.	51.0	10.0	70.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	hg19	12	2602503	2602503	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CACNA1C	NM_001129831	exon7	c.C1064T	p.T355M	TGCTCACGGTGTT	.	96.0	21.0	137.0	0.0	.	1023	.	.	.	none	.	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	hg19	12	11183487	11183487	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TAS2R31	NM_176885	exon1	c.A448G	p.K150E	TCTCTTTCATGTT	.	173.0	37.0	174.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	hg19	12	40757356	40757356	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	LRRK2	NM_198578	exon48	c.G7181T	p.R2394M	TTTTAAGGTAAAT	.	73.0	4.0	38.0	0.0	.	763	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY6	112	hgsc.bcm.edu	hg19	12	49171000	49171000	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ADCY6	NM_020983	exon6	c.G1263A	p.L421L	GATCCTCAGGCAG	.	37.0	6.0	68.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
XPOT	11260	hgsc.bcm.edu	hg19	12	64825465	64825465	+	Silent	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	XPOT	NM_007235	exon18	c.T2124A	p.L708L	TTTCCTTCATCGA	.	108.0	27.0	90.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
TPH2	121278	hgsc.bcm.edu	hg19	12	72335374	72335374	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TPH2	NM_173353	exon2	c.C116G	p.P39R	ATAAACCTAACTC	.	62.0	16.0	43.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	hg19	14	24651547	24651547	+	Silent	SNP	C	C	A	rs374946858	alternate_allele	TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	IPO4	NM_024658	exon25	c.G2535T	p.A845A	CCCAGCCGCGGCT	.	135.0	35.0	229.0	0.0	.	74	.	.	.	alt	.	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	hg19	16	3778974	3778974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CREBBP	NM_004380	exon31	c.C6074A	p.P2025H	GGAAGGGGCGCCT	.	32.0	8.0	67.0	0.0	.	546	.	.	.	none	.	.	PASS	Atlas-SNP
MARVELD3	91862	hgsc.bcm.edu	hg19	16	71668183	71668183	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	MARVELD3_ENST00000268485,lower_third,carcinoma,0,1	MARVELD3	NM_052858	exon3	c.G683C	p.G228A	ACACGGGCATCAC	.	59.0	16.0	87.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD11	29123	hgsc.bcm.edu	hg19	16	89341269	89341269	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ANKRD11	NM_001256183	exon11	c.A7666G	p.T2556A	GCATCGTGCAGGC	.	65.0	12.0	94.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	hg19	17	1687738	1687738	+	Silent	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SMYD4	NM_052928	exon8	c.C1902G	p.R634R	GCCACAGCGCAGC	.	62.0	14.0	88.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
PAFAH1B1	5048	hgsc.bcm.edu	hg19	17	2577395	2577395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	PAFAH1B1	NM_000430	exon8	c.G713A	p.R238H	GGGTACGTATGGT	.	267.0	20.0	373.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
GLP2R	9340	hgsc.bcm.edu	hg19	17	9792980	9792980	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	GLP2R	NM_004246	exon13	c.G1620A	p.M540I	CACCATGGCCAAC	.	73.0	31.0	96.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
MYO18A	399687	hgsc.bcm.edu	hg19	17	27437065	27437065	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	MYO18A	NM_078471	exon19	c.C3142G	p.L1048V	CAGGCAGGAAGCA	.	66.0	19.0	85.0	0.0	.	217	.	.	.	none	.	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	hg19	17	78321044	78321044	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	RNF213	NM_001256071	exon29	c.C8909T	p.S2970L	AGGCTTCAAATAG	.	84.0	17.0	86.0	0.0	.	766	.	.	.	none	.	.	PASS	Atlas-SNP
ZCCHC2	54877	hgsc.bcm.edu	hg19	18	60241523	60241523	+	Missense_Mutation	SNP	G	G	A	rs377112503		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ZCCHC2	NM_017742	exon13	c.G2209A	p.V737I	GTTGTCGTTCCTG	.	117.0	25.0	121.0	0.0	.	64	.	.	.	weak	.	.	PASS	Atlas-SNP
CD226	10666	hgsc.bcm.edu	hg19	18	67614032	67614032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CD226	NM_006566	exon3	c.C320T	p.S107F	GAGCAGGAATAGT	.	167.0	39.0	192.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	hg19	18	76753052	76753052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SALL3	NM_171999	exon2	c.C1061T	p.A354V	TGGGTGCGGCGCC	.	54.0	11.0	84.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF823	55552	hgsc.bcm.edu	hg19	19	11833714	11833714	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ZNF823	NM_001080493	exon4	c.G635T	p.R212I	TGTGTTCTTTCGT	.	95.0	25.0	80.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF546	339327	hgsc.bcm.edu	hg19	19	40521590	40521590	+	Missense_Mutation	SNP	T	T	C	rs371824172	alternate_allele	TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ZNF546	NM_178544	exon7	c.T2413C	p.Y805H	AAACCCTATCAAT	.	172.0	43.0	180.0	0.0	.	93	.	.	.	alt	.	.	PASS	Atlas-SNP
ZNF534	147658	hgsc.bcm.edu	hg19	19	52941686	52941686	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	ZNF534_ENST00000332323,NS,carcinoma,0,1	ZNF534	NM_001143939	exon4	c.C1012T	p.P338S	GAGAAACCTTATG	.	79.0	28.0	72.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	hg19	20	34091233	34091233	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CEP250	NM_007186	exon30	c.A5036T	p.K1679M	AGACCAAGATCCT	.	111.0	20.0	171.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	hg19	20	61528138	61528138	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DIDO1	NM_080797	exon7	c.T1799A	p.L600H	GCGGAGAGCCATG	.	82.0	15.0	120.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	hg19	20	62191860	62191860	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	.	NM_001037335	exon17	c.A7472T	p.K2491M	TTGGCCTTGGAGT	.	28.0	7.0	49.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	hg19	20	62202151	62202151	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	.	NM_001037335	exon3	c.C349T	p.R117W	TGCGCCGGACCCA	.	101.0	20.0	162.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
YWHAH	7533	hgsc.bcm.edu	hg19	22	32352566	32352566	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	YWHAH	NM_003405	exon2	c.C528T	p.A176A	CCTGGCCCTCAAC	.	61.0	18.0	90.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
DDX17	10521	hgsc.bcm.edu	hg19	22	38897263	38897263	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DDX17	NM_006386	exon2	c.G310T	p.G104C	GAAGGCCACCACC	.	108.0	28.0	85.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
LDOC1L	84247	hgsc.bcm.edu	hg19	22	44892956	44892956	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	LDOC1L	NM_032287	exon2	c.C481G	p.P161A	GCAAGGGGCTGTC	.	63.0	17.0	114.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
TAF7L	54457	hgsc.bcm.edu	hg19	X	100533091	100533091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	TAF7L	NM_024885	exon8	c.G781A	p.V261M	TTTCCACGTCTGG	.	26.0	6.0	32.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
GLRA4	441509	hgsc.bcm.edu	hg19	X	102979831	102979831	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	GLRA4	NM_001024452	exon2	c.T197C	p.F66S	CCTTTAAAATTGG	.	46.0	23.0	53.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
BCORL1	63035	hgsc.bcm.edu	hg19	X	129189870	129189870	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	BCORL1	NM_021946	exon12	c.T4895G	p.L1632R	AGAGGCTGAAGCT	.	52.0	28.0	70.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13721	13721	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	.	ENST00000361567	exon1	c.T1385C	p.L462P	GAAGCCTATTCGC	.	33.0	5.0	13.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CPSF6	11052	hgsc.bcm.edu	hg19	12	69656194	69656194	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CPSF6	NM_007007	exon9	c.1510delG	p.E504fs	.	.	103.0	35.0	145.0	0.0	.	96	.	0.339806	0	none	.	.	PASS	Atlas-Indel,Pindel
EIF2AK3	9451	hgsc.bcm.edu	hg19	2	88926504	88926505	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	EIF2AK3	NM_004836	exon1	c.289_290insA	p.E97fs	.	.	219.0	50.0	476.0	0.0	.	160	.	0.22831	0	none	.	.	PASS	Atlas-Indel,Pindel
EME1	146956	hgsc.bcm.edu	hg19	17	48452912	48452918	+	Frame_Shift_Del	DEL	TCTAGCT	TCTAGCT	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	TCTAGCT	TCTAGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	EME1	NM_152463	exon2	c.342_348del	p.114_116del	.	.	112.0	19.0	162.0	0.0	.	39	.	0.169643	0	none	.	.	PASS	Atlas-Indel,Pindel
DOCK2	1794	hgsc.bcm.edu	hg19	5	169463521	169463521	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DOCK2	NM_004946	exon36	c.3626delA	p.N1209fs	.	.	70.0	31.0	93.0	0.0	.	389	.	0.442857	0	none	.	.	PASS	Atlas-INDEL
C15orf39	56905	hgsc.bcm.edu	hg19	15	75499492	75499494	+	In_Frame_Del	DEL	CAT	CAT	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	C15orf39,colon,carcinoma,0,1	C15orf39	NM_015492	exon2	c.1102_1104del	p.368_368del	.	.	104.0	34.0	149.0	0.0	.	64	.	0.326923	0	none	.	.	PASS	Atlas-Indel,Pindel
KLHL15	80311	hgsc.bcm.edu	hg19	X	24006241	24006241	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	KLHL15	NM_030624	exon4	c.1613delC	p.T538fs	.	.	137.0	65.0	117.0	0.0	.	50	.	0.474453	0	none	.	.	PASS	Atlas-Indel,Pindel
BAP1	8314	hgsc.bcm.edu	hg19	3	52441229	52441230	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	BAP1	NM_004656	exon7	c.541_542del	p.181_181del	.	.	67.0	23.0	172.0	0.0	.	371	.	0.343284	0	none	.	.	PASS	Atlas-Indel,Pindel
SEMA6A	57556	hgsc.bcm.edu	hg19	5	115803312	115803312	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	SEMA6A	NM_020796	exon18	c.1862delC	p.A621fs	.	.	90.0	12.0	84.0	0.0	.	93	.	0.133333	0	none	.	.	PASS	Atlas-INDEL
CMYA5	202333	hgsc.bcm.edu	hg19	5	79041105	79041106	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	CMYA5	NM_153610	exon4	c.10795_10796insT	p.V3599fs	.	.	348.0	28.0	444.0	0.0	.	643	.	0.0804598	0	none	.	.	PASS	Atlas-Indel,Pindel
ATG14	22863	hgsc.bcm.edu	hg19	14	55836392	55836395	+	Frame_Shift_Del	DEL	GAGA	GAGA	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	GAGA	GAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	ATG14	NM_014924	exon10	c.1422_1425del	p.474_475del	.	.	75.0	29.0	182.0	0.0	.	36	.	0.386667	0	none	.	.	PASS	Atlas-Indel,Pindel
VKORC1L1	154807	hgsc.bcm.edu	hg19	7	65413712	65413713	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	VKORC1L1	NM_173517	exon2	c.248_249del	p.83_83del	.	.	763.0	78.0	894.0	0.0	.	14	.	0.102228	0	none	.	.	PASS	Atlas-INDEL
DOCK2	1794	hgsc.bcm.edu	hg19	5	169463522	169463523	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	DOCK2	NM_004946	exon36	c.3627_3628del	p.1209_1210del	.	.	72.0	26.0	96.0	0.0	.	389	.	0.361	.	none	.	.	PASS	Pindel
MUC4	4585	hgsc.bcm.edu	hg19	3	195510678	195510773	+	In_Frame_Del	DEL	GGTGGTGTCACCTGTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCTGTGGATGCTGCGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTCACCTGTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCTGTGGATGCTGCGGAAGTGTCGGTGACAGGAAGAGA	-	novel		TCGA-2Z-A9JK-01A-11D-A42J-10	TCGA-2Z-A9JK-10A-01D-A42M-10	GGTGGTGTCACCTGTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCTGTGGATGCTGCGGAAGTGTCGGTGACAGGAAGAGA	GGTGGTGTCACCTGTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCTGTGGATGCTGCGGAAGTGTCGGTGACAGGAAGAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3603eaf-6e76-43f5-b87f-ab5d8e0f825f	8d7349a0-4f31-4374-9461-c37dd99f05ed	.	MUC4	NM_018406	exon2	c.7679_7774del	p.2560_2592del	.	.	225.0	12.0	364.0	0.0	.	1505	.	0.053	.	none	.	.	PASS	Pindel
