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
EMC1	23065	hgsc.bcm.edu	hg19	1	19566346	19566346	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	.	NM_001271427	exon8	c.A920G	p.Y307C	GTTCCATAATGGT	.	81.0	28.0	91.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GFI1	2672	hgsc.bcm.edu	hg19	1	92948601	92948601	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	GFI1	NM_005263	exon3	c.A118G	p.S40G	AAGTGCTGTCTGC	.	55.0	22.0	76.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
DNM3	26052	hgsc.bcm.edu	hg19	1	171810797	171810797	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	DNM3	NM_001136127	exon1	c.A1C	p.M1L	GGCAAGATGGGGA	.	28.0	11.0	16.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
MR1	3140	hgsc.bcm.edu	hg19	1	181019230	181019230	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MR1	NM_001195035	exon4	c.G412T	p.G138W	TATGACGGGCAGG	.	99.0	7.0	112.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
NPL	80896	hgsc.bcm.edu	hg19	1	182775301	182775301	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	NPL	NM_001200052	exon5	c.G164C	p.G55A	GAGAAGGCCTGTC	.	85.0	13.0	77.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	hg19	2	38302357	38302357	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	CYP1B1	NM_000104	exon2	c.C175G	p.L59V	CGATCAGTGGCCA	.	12.0	6.0	18.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
WDR33	55339	hgsc.bcm.edu	hg19	2	128526506	128526506	+	Splice_Site	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	WDR33	NM_018383	exon4	c.273+1G>T	.	TACTTACATCATT	.	126.0	48.0	142.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
PRICKLE2	166336	hgsc.bcm.edu	hg19	3	64084893	64084893	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	PRICKLE2	NM_198859	exon8	c.T2369C	p.F790S	CCTAGGAAATAGC	.	84.0	39.0	82.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
PLD1	5337	hgsc.bcm.edu	hg19	3	171394619	171394619	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	PLD1	NM_002662	exon18	c.C2001T	p.F667F	GTCAATGAAATCT	.	47.0	19.0	39.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
SEL1L3	23231	hgsc.bcm.edu	hg19	4	25806261	25806261	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	SEL1L3	NM_015187	exon10	c.T1678A	p.F560I	TCAGAAAGGGGAC	.	55.0	23.0	55.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
FAM218A	152756	hgsc.bcm.edu	hg19	4	165878576	165878576	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	C4orf39,right_upper_lobe,carcinoma,0,1	.	NM_153027	exon1	c.T402C	p.P134P	CCAGCCTCTTTTT	.	93.0	4.0	79.0	1.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CTNND2	1501	hgsc.bcm.edu	hg19	5	11117619	11117619	+	Silent	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	CTNND2,caecum,carcinoma,0,1	CTNND2	NM_001332	exon13	c.G2220T	p.T740T	GGCATCCGTAAGC	.	198.0	9.0	205.0	1.0	.	289	.	.	.	none	.	.	PASS	Atlas-SNP
TNPO1	3842	hgsc.bcm.edu	hg19	5	72151675	72151675	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	TNPO1,colon,carcinoma,0,1	TNPO1	NM_002270	exon4	c.G280A	p.G94S	CCAAATGGTGTAA	.	81.0	20.0	95.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
FGF1	2246	hgsc.bcm.edu	hg19	5	141974869	141974869	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	FGF1	NM_001257209	exon4	c.G454T	p.V152F	AAGAGACTGGCAG	.	105.0	36.0	104.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
XPO5	57510	hgsc.bcm.edu	hg19	6	43541219	43541219	+	Silent	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	XPO5	NM_020750	exon2	c.C225G	p.V75V	TTACTTGACAACG	.	433.0	223.0	84.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	hg19	6	150005370	150005370	+	Silent	SNP	G	G	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	LATS1	NM_001270519	exon4	c.C855A	p.I285I	TCGGGAGATTACG	.	172.0	77.0	179.0	0.0	.	241	.	.	.	none	.	.	PASS	Atlas-SNP
ESR1	2099	hgsc.bcm.edu	hg19	6	152201893	152201893	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ESR1	NM_000125	exon3	c.A747G	p.G249G	AGTGGGAATGATG	.	41.0	13.0	52.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MYCT1	80177	hgsc.bcm.edu	hg19	6	153043198	153043198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MYCT1	NM_025107	exon2	c.G518T	p.C173F	TGCAATGTCCACC	.	103.0	46.0	117.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	hg19	6	167755036	167755036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	TTLL2	NM_031949	exon3	c.G1648T	p.D550Y	GCTCCAGATCCCC	.	135.0	51.0	142.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
FOXK1	221937	hgsc.bcm.edu	hg19	7	4780549	4780549	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	KIAA0415_ENST00000450194,colon,carcinoma,0,2	FOXK1	NM_001037165	exon2	c.C641A	p.P214Q	CCTCCCCGCTGCG	.	174.0	10.0	199.0	1.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
TBL2	26608	hgsc.bcm.edu	hg19	7	72988278	72988278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	TBL2	NM_012453	exon3	c.C436T	p.P146S	AGTCAGGGCTGAA	.	89.0	27.0	110.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	hg19	8	8750559	8750559	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MFHAS1	NM_004225	exon1	c.A10G	p.M4V	TGTCCATCCCAGC	.	15.0	5.0	3.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	hg19	8	17581310	17581310	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MTUS1	NM_001001924	exon4	c.T2320C	p.S774P	CCCATGACGACTG	.	137.0	59.0	235.0	1.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
TGFBR1	7046	hgsc.bcm.edu	hg19	9	101894937	101894937	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	TGFBR1	NM_004612	exon3	c.C490G	p.P164A	GAGGACCCTTCAT	.	137.0	43.0	161.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61829643	61829643	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ANK3	NM_020987	exon37	c.A10996G	p.T3666A	CTACAGTGGTGTC	.	69.0	32.0	70.0	0.0	.	703	.	.	.	none	.	.	PASS	Atlas-SNP
SFTPD	6441	hgsc.bcm.edu	hg19	10	81702148	81702148	+	Silent	SNP	G	G	C	rs2077117	alternate_allele	TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	SFTPD	NM_003019	exon4	c.C429G	p.P143P	ACCTTTGGGCCCA	.	59.0	22.0	74.0	0.0	.	43	.	.	.	alt	.	.	PASS	Atlas-SNP
CALHM2	51063	hgsc.bcm.edu	hg19	10	105209181	105209181	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	CALHM2,NS,carcinoma,0,1	CALHM2	NM_015916	exon3	c.G518T	p.R173L	TCCTCCCGGAAGT	.	111.0	8.0	110.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
ADD3	120	hgsc.bcm.edu	hg19	10	111878343	111878343	+	Splice_Site	SNP	A	A	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ADD3	NM_019903	exon6	c.568-2A>G	.	TTTTCCAGGTGAA	.	82.0	35.0	102.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	hg19	11	12316190	12316190	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MICALCL	NM_032867	exon3	c.C1212T	p.D404D	CAAAGACAAATCT	.	181.0	65.0	238.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	hg19	11	56143937	56143937	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	OR8U1	NM_001005204	exon1	c.G838C	p.V280L	TACACAGTGATCA	.	303.0	13.0	337.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
C1QTNF5	114902	hgsc.bcm.edu	hg19	11	119210071	119210071	+	Silent	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	C1QTNF5	NM_015645	exon15	c.C702G	p.S234S	CCAGTCGGAGTAC	.	75.0	26.0	79.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	hg19	12	12302076	12302076	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	LRP6	NM_002336	exon14	c.G3006A	p.V1002V	CACAACCACAGTA	.	262.0	115.0	282.0	0.0	.	170	.	.	.	none	.	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	hg19	12	48888593	48888593	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	C12orf54	NM_152319	exon8	c.T255C	p.P85P	AAGGCCTCCAGAT	.	183.0	75.0	186.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49437679	49437679	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MLL2	NM_003482	exon22	c.T5291C	p.L1764P	TCCTCCAGTTTGC	.	119.0	38.0	147.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
KLHDC1	122773	hgsc.bcm.edu	hg19	14	50196254	50196254	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	KLHDC1	NM_172193	exon8	c.C698G	p.T233S	CCTGGACTTGGTC	.	61.0	24.0	80.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	hg19	15	27777965	27777965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	GABRG3,right_upper_lobe,carcinoma,0,1	GABRG3	NM_033223	exon10	c.T1342C	p.F448L	CGGGTCTTTTTCC	.	62.0	3.0	65.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
MESDC2	23184	hgsc.bcm.edu	hg19	15	81282037	81282037	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MESDC2	NM_015154	exon1	c.C96T	p.C32C	GGCCGCGCAGGAC	.	68.0	33.0	64.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
RNF157	114804	hgsc.bcm.edu	hg19	17	74158077	74158077	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	RNF157	NM_052916	exon10	c.G799T	p.E267X	CGTCTTCAGCCAC	.	67.0	31.0	89.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
TMC6	11322	hgsc.bcm.edu	hg19	17	76115385	76115385	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	TMC6	NM_001127198	exon14	c.C1804G	p.L602V	AGGTCAGAGTCTG	.	100.0	31.0	130.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
LGI4	163175	hgsc.bcm.edu	hg19	19	35617832	35617832	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	LGI4	NM_139284	exon7	c.C718A	p.P240T	CGAAGGGCTGTGC	.	334.0	26.0	87.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF335	63925	hgsc.bcm.edu	hg19	20	44579218	44579218	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ZNF335	NM_022095	exon21	c.A3206G	p.H1069R	CTTGAGTGCTGTG	.	229.0	25.0	256.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	hg19	20	62421455	62421455	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ZBTB46	NM_025224	exon2	c.G656C	p.G219A	ACGTCTCCAGGCC	.	59.0	23.0	84.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP27-1	643812	hgsc.bcm.edu	hg19	21	31709825	31709825	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	KRTAP27-1	NM_001077711	exon1	c.C162T	p.C54C	TTCATTGCAGGTT	.	145.0	50.0	150.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCB1	6598	hgsc.bcm.edu	hg19	22	24145544	24145544	+	Missense_Mutation	SNP	C	C	T	rs137986695		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	SMARCB1,arm,malignant_melanoma,0,1	SMARCB1	NM_003073	exon5	c.C563T	p.P188L	TGGTCCCCATCCG	.	114.0	10.0	127.0	0.0	.	586	.	.	.	weak	.	.	PASS	Atlas-SNP
ENTPD5	957	hgsc.bcm.edu	hg19	14	74443764	74443765	+	Splice_Site	INS	-	-	A	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	ENTPD5	NM_001249	exon9	c.518-2->T	.	.	.	100.0	38.0	144.0	0.0	.	26	.	0.38	0	none	.	.	PASS	Atlas-INDEL
FNIP1	96459	hgsc.bcm.edu	hg19	5	131007378	131007379	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	FNIP1	NM_133372	exon14	c.2759_2760del	p.920_920del	.	.	144.0	61.0	139.0	0.0	.	104	.	0.423611	0	none	.	.	PASS	Atlas-INDEL
BCL2L11	10018	hgsc.bcm.edu	hg19	2	111921708	111921716	+	In_Frame_Del	DEL	AGGTATTTT	AGGTATTTT	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	AGGTATTTT	AGGTATTTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	BCL2L11	NM_138621	exon4	c.499_504del	p.167_168del	.	.	58.0	13.0	97.0	0.0	.	36	.	0.224138	0	none	.	.	PASS	Atlas-INDEL
CLTA	1211	hgsc.bcm.edu	hg19	9	36211662	36211662	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	CLTA,NS,carcinoma,0,1	CLTA	NM_007096	exon7	c.637delC	p.R213fs	.	.	111.0	41.0	153.0	0.0	.	18	.	0.369369	0	none	.	.	PASS	Atlas-INDEL
KCTD4	386618	hgsc.bcm.edu	hg19	13	45768267	45768269	+	In_Frame_Del	DEL	TTA	TTA	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	TTA	TTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	KCTD4	NM_198404	exon2	c.435_437del	p.145_146del	.	.	162.0	15.0	173.0	0.0	.	18	.	0.0925926	0	none	.	.	PASS	Atlas-INDEL
MKL1	57591	hgsc.bcm.edu	hg19	22	40816560	40816562	+	In_Frame_Del	DEL	CCC	CCC	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	MKL1	NM_020831	exon11	c.901_903del	p.301_301del	.	.	97.0	39.0	139.0	0.0	.	69	.	0.402062	0	none	.	.	PASS	Atlas-INDEL
TRIP12	9320	hgsc.bcm.edu	hg19	2	230701700	230701702	+	Frame_Shift_Del	DEL	ACT	ACT	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	ACT	ACT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	TRIP12,colon,carcinoma,0,1	TRIP12	NM_004238	exon5	c.1008_1009del	p.336_337del	.	.	47.0	23.0	54.0	0.0	.	207	.	0.489362	0	none	.	.	PASS	Atlas-INDEL
AUTS2	26053	hgsc.bcm.edu	hg19	7	70255838	70255838	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-7048-01A-11D-1961-08	TCGA-BQ-7048-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ee5ae28-9eb8-4f46-b9d9-13c5246297eb	71fbff51-4f0d-4d4f-8083-f64c0ac772b8	.	AUTS2	NM_015570	exon19	c.3635delC	p.P1212fs	.	.	45.0	13.0	45.0	0.0	.	173	.	0.288889	0	none	.	.	PASS	Atlas-INDEL
