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
KIAA1522	57648	hgsc.bcm.edu	hg19	1	33236795	33236795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KIAA1522	NM_020888	exon6	c.C2015A	p.P672Q	TCTCCCCACCTCC	.	141.0	46.0	134.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A9	200010	hgsc.bcm.edu	hg19	1	48708165	48708165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	SLC5A9	NM_001135181	exon14	c.C1789T	p.L597F	TGCCCCCTCTCTG	.	162.0	9.0	129.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
CTH	1491	hgsc.bcm.edu	hg19	1	70895506	70895506	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CTH	NM_001902	exon6	c.T618C	p.S206S	TATTTCTATGTAT	.	79.0	26.0	76.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	hg19	1	94528186	94528186	+	Silent	SNP	A	A	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ABCA4	NM_000350	exon13	c.T1884A	p.A628A	AACTGGAGCCTCC	.	59.0	16.0	63.0	0.0	.	275	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA6C	10500	hgsc.bcm.edu	hg19	1	151112138	151112138	+	Silent	SNP	T	T	C	rs200312578	alternate_allele	TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	SEMA6C	NM_001178061	exon5	c.A273G	p.E91E	CTCCCCTTCTTCT	.	62.0	4.0	50.0	0.0	.	70	.	.	.	alt	T|0.999;G|0.001	.	PASS	Atlas-SNP
ADD2	119	hgsc.bcm.edu	hg19	2	70900055	70900055	+	Missense_Mutation	SNP	C	C	A	rs138503054	alternate_allele	TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ADD2	NM_017488	exon16	c.G1911T	p.R637S	TCTCTGCCTCCTT	.	52.0	17.0	41.0	0.0	.	261	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
PLEKHB2	55041	hgsc.bcm.edu	hg19	2	131904284	131904284	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PLEKHB2	NM_001267062	exon9	c.C649G	p.L217V	CTGGCACTGGGCA	.	310.0	84.0	305.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
HTR2B	3357	hgsc.bcm.edu	hg19	2	231988374	231988374	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	HTR2B	NM_000867	exon2	c.G105T	p.Q35H	TTCTGTCTGTAAT	.	144.0	48.0	132.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
CRTAP	10491	hgsc.bcm.edu	hg19	3	33156008	33156008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CRTAP	NM_006371	exon1	c.C439T	p.P147S	CGCGAGCCCTACA	.	42.0	14.0	20.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	hg19	3	49148708	49148708	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	USP19	NM_001199161	exon22	c.A3308T	p.E1103V	CGCTGCTCTCGGT	.	117.0	58.0	87.0	0.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	hg19	3	49148709	49148709	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	USP19	NM_001199161	exon22	c.G3307A	p.E1103K	GCTGCTCTCGGTT	.	115.0	58.0	88.0	0.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	hg19	3	137805834	137805834	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	DZIP1L	NM_001170538	exon8	c.T1031C	p.L344P	TCATGCAGTTCCT	.	133.0	31.0	102.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	hg19	3	184041746	184041746	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	EIF4G1	NM_001194946	exon17	c.T2474C	p.M825T	CCAACATGTGCCG	.	124.0	33.0	104.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
LAP3	51056	hgsc.bcm.edu	hg19	4	17590497	17590497	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	LAP3	NM_015907	exon7	c.G760A	p.G254R	GCCAAAGGATCTG	.	134.0	50.0	121.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
PRKG2	5593	hgsc.bcm.edu	hg19	4	82074809	82074809	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PRKG2	NM_006259	exon6	c.G979T	p.A327S	CTTTTGCCAAAAT	.	55.0	10.0	57.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
OSTC	58505	hgsc.bcm.edu	hg19	4	109571838	109571838	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	OSTC,NS,carcinoma,0,1	OSTC	NM_001267818	exon1	c.C27T	p.F9F	CCCGTTCTTAGTG	.	131.0	42.0	90.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFS6	4726	hgsc.bcm.edu	hg19	5	1801592	1801592	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	NDUFS6	NM_004553	exon1	c.C61A	p.L21M	CGGAGCCTGCCCC	.	44.0	21.0	32.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
C6orf195	154386	hgsc.bcm.edu	hg19	6	2623684	2623684	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	C6orf195	NM_152554	exon3	c.G373T	p.E125X	AAGCTTCATTGCT	.	75.0	27.0	64.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
C6orf223	221416	hgsc.bcm.edu	hg19	6	43970795	43970795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	C6orf223	NM_153246	exon4	c.C661T	p.R221C	CTAATGCGCTCTA	.	88.0	37.0	88.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1919	91749	hgsc.bcm.edu	hg19	6	111587895	111587895	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KIAA1919	NM_153369	exon4	c.A1130T	p.Q377L	TTCTTCAAGGAAA	.	220.0	67.0	205.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	hg19	6	169622311	169622311	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	THBS2,NS,carcinoma,+1,1	THBS2	NM_003247	exon20	c.C3254A	p.T1085K	TTCCCCGTGTGCC	.	102.0	25.0	150.0	0.0	.	230	.	.	.	none	.	.	PASS	Atlas-SNP
CCM2	83605	hgsc.bcm.edu	hg19	7	45104062	45104062	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CCM2	NM_001029835	exon4	c.A352G	p.R118G	TTCCAGAGAGCCC	.	75.0	11.0	41.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82532016	82532016	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PCLO	NM_014510	exon9	c.T13479C	p.P4493P	TGCGTGAGGAAAG	.	111.0	63.0	89.0	0.0	.	1506	.	.	.	none	.	.	PASS	Atlas-SNP
CHCHD3	54927	hgsc.bcm.edu	hg19	7	132523165	132523165	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CHCHD3	NM_017812	exon6	c.A518C	p.K173T	TTGAACTTTGCTT	.	75.0	39.0	69.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
KCNV1	27012	hgsc.bcm.edu	hg19	8	110986410	110986410	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KCNV1	NM_014379	exon1	c.G208T	p.V70L	CCACCACGGCCAG	.	15.0	8.0	18.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
GOLGA2	2801	hgsc.bcm.edu	hg19	9	131028577	131028577	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	GOLGA2	NM_004486	exon8	c.C589T	p.Q197X	CCAACTGATCCGT	.	107.0	39.0	124.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
UBAC1	10422	hgsc.bcm.edu	hg19	9	138839743	138839743	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	UBAC1	NM_016172	exon4	c.A342G	p.Q114Q	CTGGTCTTGTTTT	.	34.0	15.0	30.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	hg19	11	55322355	55322355	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	OR4C15	NM_001001920	exon1	c.G573C	p.R191S	GAACAGGAGGCTC	.	175.0	53.0	138.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
LRIG3	121227	hgsc.bcm.edu	hg19	12	59283874	59283874	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	LRIG3	NM_153377	exon5	c.A563T	p.D188V	AAATTGTCAAAAT	.	257.0	80.0	253.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
GPC6	10082	hgsc.bcm.edu	hg19	13	94482740	94482740	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	GPC6	NM_005708	exon3	c.C653G	p.A218G	TTGCTGCCAGGAC	.	53.0	18.0	85.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
RAP2A	5911	hgsc.bcm.edu	hg19	13	98086836	98086836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	RAP2A	NM_021033	exon1	c.G112A	p.D38N	ATCGAGGACTTCT	.	174.0	57.0	149.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
GPR18	2841	hgsc.bcm.edu	hg19	13	99907879	99907879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	GPR18	NM_001098200	exon2	c.C248T	p.A83V	TCTTTTGCATAAT	.	69.0	18.0	79.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
SNX6	58533	hgsc.bcm.edu	hg19	14	35062276	35062276	+	Silent	SNP	A	A	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	SNX6	NM_152233	exon8	c.T729A	p.S243S	TCTATCAGATTTA	.	61.0	18.0	96.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC14A	161198	hgsc.bcm.edu	hg19	14	38724316	38724316	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CLEC14A	NM_175060	exon1	c.G912A	p.R304R	CGGGCGCCTGGTG	.	139.0	50.0	135.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
FERMT2	10979	hgsc.bcm.edu	hg19	14	53386065	53386065	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	FERMT2	NM_001135000	exon3	c.A167T	p.K56I	CAATCTTTTTTTA	.	99.0	27.0	107.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	hg19	14	102466716	102466716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	DYNC1H1	NM_001376	exon18	c.G4054A	p.V1352I	CCCTGGGTTTCAG	.	87.0	28.0	85.0	0.0	.	395	.	.	.	none	.	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	hg19	15	25924510	25924510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ATP10A	NM_024490	exon21	c.C4478T	p.A1493V	GAAGATGCTCCTA	.	100.0	25.0	74.0	0.0	.	270	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF598	90850	hgsc.bcm.edu	hg19	16	2052644	2052644	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ZNF598	NM_178167	exon6	c.G555A	p.G185G	CGGGTGCCCACGG	.	50.0	10.0	40.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
CLUAP1	23059	hgsc.bcm.edu	hg19	16	3554721	3554721	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CLUAP1	NM_015041	exon2	c.T24C	p.N8N	GACAGATTTCACA	.	105.0	21.0	60.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
TIAF1	9220	hgsc.bcm.edu	hg19	17	27400954	27400954	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	TIAF1	NM_004740	exon1	c.G264C	p.R88S	ATCAGCCCTGAAC	.	251.0	129.0	206.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM101	84336	hgsc.bcm.edu	hg19	17	42089524	42089524	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	TMEM101	NM_032376	exon4	c.G546A	p.L182L	GAAGAACAGCTGG	.	122.0	27.0	97.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	hg19	17	56386306	56386306	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	BZRAP1	NM_004758	exon22	c.C4327A	p.L1443M	GGCCCAGTCGTCC	.	149.0	36.0	89.0	0.0	.	287	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH6	81033	hgsc.bcm.edu	hg19	17	61623123	61623123	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	KCNH6,bladder,carcinoma,0,2	KCNH6	NM_030779	exon14	c.C2845T	p.L949L	TCACCTCTACATC	.	169.0	33.0	126.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
THOC1	9984	hgsc.bcm.edu	hg19	18	214909	214909	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	THOC1	NM_005131	exon21	c.G1691T	p.R564L	TCTCGCCGAACAT	.	171.0	8.0	157.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	hg19	18	9257291	9257291	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ANKRD12	NM_015208	exon9	c.T4026C	p.T1342T	AGATACTAGTCCT	.	120.0	43.0	132.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
ASXL3	80816	hgsc.bcm.edu	hg19	18	31263418	31263418	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ASXL3	NM_030632	exon8	c.A765G	p.G255G	CCCAGGATCTATT	.	54.0	14.0	53.0	0.0	.	405	.	.	.	none	.	.	PASS	Atlas-SNP
ELAC1	55520	hgsc.bcm.edu	hg19	18	48513160	48513160	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ELAC1	NM_018696	exon4	c.G797C	p.C266S	AACTGTGCTTTGA	.	48.0	14.0	55.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF763	284390	hgsc.bcm.edu	hg19	19	12089881	12089881	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ZNF763	NM_001012753	exon4	c.T1151C	p.F384S	ATAAGTTTTCAAA	.	143.0	55.0	121.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	hg19	19	13915960	13915960	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ZSWIM4	NM_023072	exon3	c.A710G	p.N237S	TGGTGAATGGTAA	.	64.0	17.0	73.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
JAK3	3718	hgsc.bcm.edu	hg19	19	17946018	17946018	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	JAK3	NM_000215	exon15	c.A1921G	p.K641E	GGCCTTTGTCCTC	.	50.0	13.0	52.0	0.0	.	341	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF566	84924	hgsc.bcm.edu	hg19	19	36940231	36940231	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ZNF566	NM_001145343	exon5	c.A908G	p.Q303R	ATTCTCTGATGTT	.	119.0	5.0	92.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF787	126208	hgsc.bcm.edu	hg19	19	56599455	56599455	+	Missense_Mutation	SNP	C	C	G	rs202243737		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	ZNF787	NM_001002836	exon3	c.G1086C	p.E362D	GTCGTCCTCCTCC	.	26.0	14.0	11.0	0.0	.	20	.	.	.	weak	C|0.996;G|0.004	0.004	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	hg19	20	50405586	50405586	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	SALL4	NM_020436	exon3	c.C2556T	p.S852S	CCCTGGGGACAAT	.	59.0	19.0	73.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP13-1	140258	hgsc.bcm.edu	hg19	21	31768620	31768620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KRTAP13-1	NM_181599	exon1	c.G216T	p.E72D	TGTGGAGTCCAGC	.	83.0	26.0	89.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFV3	4731	hgsc.bcm.edu	hg19	21	44317078	44317078	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	NDUFV3	NM_001001503	exon2	c.T90C	p.S30S	TGCTTCTACGGTT	.	94.0	27.0	121.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
PPM1F	9647	hgsc.bcm.edu	hg19	22	22287929	22287929	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PPM1F	NM_014634	exon5	c.T581C	p.F194S	ACAGCAAAGTAGG	.	57.0	25.0	47.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
SFI1	9814	hgsc.bcm.edu	hg19	22	31924806	31924806	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	SFI1	NM_001007467	exon3	c.C223T	p.H75Y	GGCACACATACTT	.	130.0	41.0	110.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
APOL1	8542	hgsc.bcm.edu	hg19	22	36661665	36661665	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	APOL1	NM_145343	exon7	c.C831T	p.N277N	TGAGAACATATCC	.	60.0	18.0	66.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
RPL10	6134	hgsc.bcm.edu	hg19	X	153627911	153627911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	RPL10	NM_001256577	exon4	c.G166A	p.E56K	TCAGATGAATATG	.	89.0	50.0	91.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
MITF	4286	hgsc.bcm.edu	hg19	3	69988260	69988261	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	MITF,rectum,carcinoma,0,1	MITF	NM_198159	exon4	c.594_595insT	p.K198fs	.	.	75.0	38.0	47.0	0.0	.	156	.	0.506667	0	none	.	.	PASS	Atlas-INDEL
KDR	3791	hgsc.bcm.edu	hg19	4	55981041	55981042	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KDR	NM_002253	exon5	c.658_659insA	p.G220fs	.	.	93.0	27.0	83.0	0.0	.	307	.	0.290323	0	none	.	.	PASS	Atlas-INDEL
PROX1	5629	hgsc.bcm.edu	hg19	1	214170437	214170438	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PROX1	NM_001270616	exon2	c.559_560insAT	p.N187fs	.	.	74.0	21.0	79.0	0.0	.	124	.	0.283784	0	none	.	.	PASS	Atlas-INDEL
C2CD3	26005	hgsc.bcm.edu	hg19	11	73745646	73745646	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	C2CD3	NM_015531	exon31	c.5890delT	p.X1964E	.	.	40.0	10.0	51.0	0.0	.	288	.	0.25	0	none	.	.	PASS	Atlas-INDEL
PLEKHB2	55041	hgsc.bcm.edu	hg19	2	131904282	131904282	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	PLEKHB2	NM_001267062	exon9	c.646delG	p.A216fs	.	.	311.0	83.0	293.0	0.0	.	47	.	0.266881	0	none	.	.	PASS	Atlas-INDEL
GFRAL	389400	hgsc.bcm.edu	hg19	6	55223709	55223709	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	GFRAL	NM_207410	exon6	c.724delT	p.S242fs	.	.	130.0	46.0	112.0	0.0	.	91	.	0.353846	0	none	.	.	PASS	Atlas-INDEL
HAPLN3	145864	hgsc.bcm.edu	hg19	15	89422488	89422488	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	HAPLN3	NM_178232	exon4	c.507delT	p.P169fs	.	.	65.0	19.0	68.0	0.0	.	43	.	0.292308	0	none	.	.	PASS	Atlas-INDEL
DNAJC28	54943	hgsc.bcm.edu	hg19	21	34861049	34861050	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	DNAJC28,right_lower_lobe,carcinoma,0,1	DNAJC28	NM_001040192	exon2	c.652_653insT	p.D218_N219delinsX	.	.	202.0	51.0	202.0	0.0	.	47	.	0.252475	0	none	.	.	PASS	Atlas-INDEL
CISH	1154	hgsc.bcm.edu	hg19	3	50645554	50645554	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	CISH	NM_013324	exon4	c.313delA	p.T105fs	.	.	71.0	10.0	67.0	0.0	.	27	.	0.140845	0	none	.	.	PASS	Atlas-INDEL
AZI2	64343	hgsc.bcm.edu	hg19	3	28382066	28382066	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	AZI2	NM_001134432	exon2	c.44delA	p.E15fs	.	.	127.0	50.0	121.0	0.0	.	33	.	0.393701	0	none	.	.	PASS	Atlas-INDEL
KIAA1211	57482	hgsc.bcm.edu	hg19	4	57182080	57182080	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-7045-01A-31D-1961-08	TCGA-BQ-7045-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	413a9e10-cac7-4b6c-91cd-b58fd4499c07	0ed1c015-2f52-4269-98d4-b78e9323f29c	.	KIAA1211	NM_020722	exon8	c.2411delC	p.P804fs	.	.	65.0	22.0	94.0	0.0	.	178	.	0.338462	0	none	.	.	PASS	Atlas-INDEL
