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
SYDE2	84144	hgsc.bcm.edu	hg19	1	85648788	85648788	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SYDE2	NM_032184	exon3	c.A1537G	p.N513D	ACCAATTAATTGA	.	156.0	9.0	154.0	0.0	.	135	.	.	.	none	.	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	hg19	1	209800244	209800244	+	Missense_Mutation	SNP	C	C	T	rs144249951		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	LAMB3	NM_000228	exon13	c.G1565A	p.R522Q	TAGGTCCGGTCTG	.	73.0	15.0	68.0	0.0	.	136	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	hg19	2	44207047	44207047	+	Silent	SNP	A	A	G	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	LRPPRC	NM_133259	exon3	c.T387C	p.S129S	ACCACAACTACGT	.	75.0	23.0	50.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	hg19	2	167284362	167284362	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SCN7A	NM_002976	exon17	c.T2789A	p.I930N	TCTACAATCTTGC	.	46.0	15.0	30.0	0.0	.	410	.	.	.	none	.	.	PASS	Atlas-SNP
SHISA5	51246	hgsc.bcm.edu	hg19	3	48510782	48510782	+	Silent	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SHISA5	NM_016479	exon5	c.G621A	p.P207P	GTAGGCCGGTGGG	.	135.0	30.0	148.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
KPNA4	3840	hgsc.bcm.edu	hg19	3	160249310	160249310	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	KPNA4	NM_002268	exon6	c.A323G	p.D108G	AAGTCATCAATTG	.	139.0	31.0	153.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	hg19	4	42037333	42037333	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	SLC30A9,NS,carcinoma,0,1	SLC30A9	NM_006345	exon7	c.T652G	p.F218V	AGAGATTTCTTGG	.	139.0	33.0	123.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ZCCHC9	84240	hgsc.bcm.edu	hg19	5	80600585	80600585	+	Silent	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	ZCCHC9,NS,carcinoma,0,1	ZCCHC9	NM_001131036	exon2	c.G9A	p.R3R	GACCAGGTGGGCC	.	124.0	34.0	83.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA6	56109	hgsc.bcm.edu	hg19	5	140753888	140753888	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	PCDHGA6	NM_018919	exon1	c.C238T	p.R80X	AATCCGCGAAACG	.	103.0	36.0	84.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
PWWP2A	114825	hgsc.bcm.edu	hg19	5	159520919	159520919	+	Silent	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	PWWP2A	NM_052927	exon2	c.C738T	p.V246V	ATGCGGGACAGGA	.	116.0	33.0	111.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS1A	23294	hgsc.bcm.edu	hg19	6	35047314	35047314	+	Missense_Mutation	SNP	G	G	T	rs370130506	alternate_allele	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	ANKS1A	NM_015245	exon15	c.G2305T	p.G769W	TATGACGGGAACA	.	93.0	4.0	92.0	0.0	.	123	.	.	.	alt	.	.	PASS	Atlas-SNP
TNFAIP3	7128	hgsc.bcm.edu	hg19	6	138200108	138200108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TNFAIP3	NM_001270507	exon7	c.C1526T	p.A509V	GCCACGCCCCAGA	.	73.0	17.0	74.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
CBX3	11335	hgsc.bcm.edu	hg19	7	26251700	26251700	+	Splice_Site	SNP	A	A	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	CBX3	NM_007276	exon6	c.426-2A>T	.	TAAAACAGGAAAG	.	68.0	5.0	58.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
FAM91A1	157769	hgsc.bcm.edu	hg19	8	124787418	124787418	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	FAM91A1	NM_144963	exon3	c.C189A	p.Y63X	CAGATACTATGAG	.	74.0	33.0	56.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
SUSD1	64420	hgsc.bcm.edu	hg19	9	114820888	114820888	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SUSD1	NM_022486	exon14	c.T1929A	p.F643L	GTTGCTAAAGAAG	.	146.0	36.0	134.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
SBF2	81846	hgsc.bcm.edu	hg19	11	10011061	10011061	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SBF2	NM_030962	exon13	c.G1378A	p.E460K	GTTGCTCAGCAAG	.	61.0	15.0	56.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
SLCO2B1	11309	hgsc.bcm.edu	hg19	11	74880776	74880776	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	SLCO2B1,rectum,carcinoma,0,1	SLCO2B1	NM_007256	exon6	c.C748A	p.R250S	ATGCTGCGCCTTT	.	155.0	43.0	158.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	hg19	12	57005874	57005874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	BAZ2A	NM_013449	exon6	c.C1298T	p.T433I	GGGGAGGTTGTTG	.	73.0	55.0	37.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	hg19	12	122618012	122618012	+	Silent	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	MLXIP	NM_014938	exon9	c.C1210A	p.R404R	ACCTCCCGGACTG	.	77.0	4.0	39.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
KBTBD7	84078	hgsc.bcm.edu	hg19	13	41767953	41767953	+	Silent	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	KBTBD7	NM_032138	exon1	c.C441T	p.A147A	GTCGGAGGCCGCG	.	105.0	31.0	115.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
TDRD3	81550	hgsc.bcm.edu	hg19	13	61103190	61103190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TDRD3	NM_001146070	exon11	c.G1831A	p.A611T	GTCACAGCTGTAC	.	84.0	32.0	57.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
FANCM	57697	hgsc.bcm.edu	hg19	14	45650876	45650876	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	FANCM	NM_020937	exon16	c.G4354A	p.A1452T	CTTCATGCTGTCA	.	50.0	13.0	48.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
TBPL2	387332	hgsc.bcm.edu	hg19	14	55890942	55890942	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TBPL2	NM_199047	exon6	c.T986G	p.I329S	CTATAAATAAGAC	.	142.0	40.0	151.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	hg19	14	63447722	63447722	+	Missense_Mutation	SNP	G	G	T	rs376391048	alternate_allele	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	KCNH5	NM_172375	exon6	c.C810A	p.F270L	CCCCACGAAAGTC	.	81.0	35.0	62.0	0.0	.	320	.	.	.	alt	.	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	hg19	15	33603296	33603296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	RYR3	NM_001243996	exon1	c.C50T	p.T17I	TGAGGACTGTGAG	.	47.0	16.0	48.0	0.0	.	760	.	.	.	none	.	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	hg19	15	63097949	63097949	+	Silent	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TLN2	NM_015059	exon48	c.C6628A	p.R2210R	CTGAGCCGGAAAG	.	83.0	4.0	87.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
ADPGK	83440	hgsc.bcm.edu	hg19	15	73045222	73045222	+	Silent	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	ADPGK	NM_031284	exon7	c.G951T	p.A317A	AGTCACCGCGGGA	.	71.0	4.0	66.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	hg19	16	716291	716291	+	Missense_Mutation	SNP	C	C	A	rs143767432	bycluster;by1000genomes;alternate_allele	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	WDR90,NS,carcinoma,0,2	WDR90	NM_145294	exon37	c.C4681A	p.R1561S	ACCTTCCGTGTGC	.	98.0	27.0	105.0	0.0	.	107	.	.	.	alt	C|0.996;T|0.004	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	hg19	16	19498618	19498618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TMC5	NM_001105249	exon17	c.T2543C	p.V848A	CCGGGGTCTTGTG	.	77.0	4.0	63.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
GTF3C1	2975	hgsc.bcm.edu	hg19	16	27519910	27519910	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	GTF3C1	NM_001520	exon8	c.T1193C	p.L398P	GCTTCTAGTTTTC	.	118.0	36.0	91.0	0.0	.	210	.	.	.	none	.	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	hg19	17	4575082	4575082	+	Silent	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	PELP1	NM_014389	exon16	c.G3204A	p.E1068E	CTCAGTCTCCTCT	.	67.0	12.0	49.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
SOX15	6665	hgsc.bcm.edu	hg19	17	7492754	7492754	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SOX15	NM_006942	exon1	c.A241G	p.K81E	GGCGCTTGGAGAT	.	58.0	22.0	52.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
TLCD1	116238	hgsc.bcm.edu	hg19	17	27052951	27052951	+	Silent	SNP	G	G	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	TLCD1	NM_138463	exon1	c.C165A	p.S55S	CACAATGGAGTGA	.	82.0	31.0	63.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	hg19	17	36003445	36003445	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	DDX52	NM_007010	exon1	c.A5G	p.D2G	TGGACGTCCATCT	.	85.0	17.0	77.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
KRT27	342574	hgsc.bcm.edu	hg19	17	38933310	38933310	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	KRT27	NM_181537	exon8	c.A1321G	p.T441A	CCACAGTGTGAAC	.	133.0	28.0	120.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	hg19	17	39296291	39296291	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	KRTAP4-6	NM_030976	exon1	c.G449T	p.C150F	GGGCGGCAGCAGC	.	65.0	7.0	40.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
FOXJ1	2302	hgsc.bcm.edu	hg19	17	74134123	74134123	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	FOXJ1	NM_001454	exon3	c.G577T	p.G193C	AGAAGCCCCCCTT	.	58.0	19.0	70.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
ARID3A	1820	hgsc.bcm.edu	hg19	19	971936	971936	+	Silent	SNP	C	C	G	rs138086881	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	ARID3A,NS,carcinoma,0,1	ARID3A	NM_005224	exon9	c.C1653G	p.G551G	AGGAGGCGGCGGC	.	89.0	5.0	67.0	0.0	.	35	.	.	.	alt	C|0.999;T|0.001	.	PASS	Atlas-SNP
CACNG7	59284	hgsc.bcm.edu	hg19	19	54418709	54418709	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	CACNG7,colon,carcinoma,0,1	CACNG7	NM_031896	exon3	c.C374A	p.P125Q	TCCGCCCGCAGAG	.	103.0	5.0	98.0	1.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF497	162968	hgsc.bcm.edu	hg19	19	58867603	58867603	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	ZNF497	NM_001207009	exon2	c.G1399T	p.E467X	GCCTCTCGCCCGT	.	30.0	9.0	17.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	hg19	20	56090837	56090837	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	CTCFL	NM_001269044	exon5	c.G1113C	p.Q371H	GCAACACTGAAAG	.	296.0	139.0	247.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	hg19	22	18293564	18293564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	MICAL3	NM_015241	exon28	c.G5461A	p.E1821K	CCTCCTCCGTGTA	.	93.0	21.0	91.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
MEI1	150365	hgsc.bcm.edu	hg19	22	42154472	42154472	+	Silent	SNP	A	A	C	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	MEI1	NM_152513	exon18	c.A2055C	p.G685G	GGAGGGAGCTGCT	.	36.0	12.0	36.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
POLDIP3	84271	hgsc.bcm.edu	hg19	22	43010826	43010826	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	POLDIP3	NM_178136	exon1	c.G38A	p.R13H	GCCCCGCGCTTCC	.	110.0	26.0	125.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
MCAT	27349	hgsc.bcm.edu	hg19	22	43533107	43533107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	MCAT	NM_173467	exon3	c.G709A	p.V237M	AAATCACCCTGCA	.	245.0	62.0	211.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	hg19	10	105793785	105793785	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	COL17A1	NM_000494	exon52	c.4075delA	p.N1359fs	.	.	99.0	17.0	104.0	0.0	.	149	.	0.171717	0	none	.	.	PASS	Atlas-INDEL
PIPOX	51268	hgsc.bcm.edu	hg19	17	27380072	27380083	+	In_Frame_Del	DEL	GGTTGCCCAGGG	GGTTGCCCAGGG	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	GGTTGCCCAGGG	GGTTGCCCAGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	PIPOX	NM_016518	exon3	c.397_408del	p.133_136del	.	.	126.0	27.0	148.0	0.0	.	42	.	0.214286	0	none	.	.	PASS	Atlas-INDEL
C17orf70	80233	hgsc.bcm.edu	hg19	17	79514289	79514299	+	Frame_Shift_Del	DEL	TGAGACTGTAG	TGAGACTGTAG	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	TGAGACTGTAG	TGAGACTGTAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	C17orf70	NM_025161	exon5	c.1810_1820del	p.604_607del	.	.	92.0	30.0	90.0	0.0	.	79	.	0.326087	0	none	.	.	PASS	Atlas-INDEL
ACVR2A	92	hgsc.bcm.edu	hg19	2	148684830	148684834	+	Frame_Shift_Del	DEL	AATCT	AATCT	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	AATCT	AATCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	ACVR2A,NS,carcinoma,0,2	ACVR2A	NM_001616	exon11	c.1528_1532del	p.510_511del	.	.	80.0	17.0	49.0	0.0	.	125	.	0.2125	0	none	.	.	PASS	Atlas-INDEL
ERRFI1	54206	hgsc.bcm.edu	hg19	1	8075366	8075383	+	In_Frame_Del	DEL	AGAATACATACCAAGTGG	AGAATACATACCAAGTGG	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	AGAATACATACCAAGTGG	AGAATACATACCAAGTGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	ERRFI1	NM_018948	exon3	c.197_202del	p.66_68del	.	.	80.0	12.0	89.0	0.0	.	42	.	0.15	0	none	.	.	PASS	Atlas-INDEL
SEC14L2	23541	hgsc.bcm.edu	hg19	22	30805476	30805477	+	Splice_Site	INS	-	-	T	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SEC14L2	NM_033382	exon7	c.580+1->T	.	.	.	122.0	33.0	136.0	0.0	.	24	.	0.270492	0	none	.	.	PASS	Atlas-INDEL
PDE9A	5152	hgsc.bcm.edu	hg19	21	44185564	44185565	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	PDE9A	NM_002606	exon15	c.1316_1317insG	p.M439fs	.	.	41.0	16.0	53.0	0.0	.	69	.	0.390244	0	none	.	.	PASS	Atlas-INDEL
ADAM9	8754	hgsc.bcm.edu	hg19	8	38880710	38880711	+	Frame_Shift_Ins	INS	-	-	GG	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	ADAM9	NM_003816	exon9	c.780_781insGG	p.V260fs	.	.	80.0	26.0	84.0	0.0	.	66	.	0.325	0	none	.	.	PASS	Atlas-INDEL
SLC35A5	55032	hgsc.bcm.edu	hg19	3	112282282	112282290	+	In_Frame_Del	DEL	TATGCTCCT	TATGCTCCT	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	TATGCTCCT	TATGCTCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SLC35A5	NM_017945	exon2	c.31_39del	p.11_13del	.	.	89.0	19.0	98.0	0.0	.	40	.	0.213483	0	none	.	.	PASS	Atlas-INDEL
SUSD1	64420	hgsc.bcm.edu	hg19	9	114820886	114820886	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	.	SUSD1	NM_022486	exon14	c.1932delC	p.S644fs	.	.	144.0	34.0	135.0	0.0	.	51	.	0.236111	0	none	.	.	PASS	Atlas-INDEL