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	dbSNP_AF	Algorithm
SESN2	83667	hgsc.bcm.edu	hg19	1	28598805	28598805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	SESN2,NS,carcinoma,0,2	SESN2	NM_031459	exon4	c.G365A	p.R122H	CCGCCCGCCATCA	.	51.0	10.0	68.0	0.0	.	51	.	.	Atlas-SNP
TTF2	8458	hgsc.bcm.edu	hg19	1	117644020	117644020	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TTF2	NM_003594	exon23	c.A3363G	p.T1121T	GGGAACAGTAGAA	.	24.0	8.0	21.0	0.0	.	92	.	.	Atlas-SNP
AXDND1	126859	hgsc.bcm.edu	hg19	1	179504037	179504037	+	Missense_Mutation	SNP	G	G	C	rs6425573	bycluster;by2hit2allele;byhapmap	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	AXDND1	NM_144696	exon25	c.G2971C	p.E991Q	GAAGAAGAACAAC	.	268.0	20.0	220.0	0.0	.	142	.	G|1.000;|0.000	Atlas-SNP
CR2	1380	hgsc.bcm.edu	hg19	1	207644362	207644362	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CR2	NM_001006658	exon8	c.G1423A	p.G475R	GCTACAGGAAGGC	.	238.0	27.0	192.0	0.0	.	164	.	.	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	hg19	1	245849809	245849809	+	Missense_Mutation	SNP	C	C	T	rs202113373	bycluster	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KIF26B	NM_018012	exon12	c.C3524T	p.T1175M	TGGTGACGGTGCA	.	177.0	17.0	134.0	0.0	.	343	.	.	Atlas-SNP
EXOC6B	23233	hgsc.bcm.edu	hg19	2	72692418	72692418	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	EXOC6B	NM_015189	exon18	c.G1851T	p.K617N	GTCAATCTTCTGG	.	136.0	57.0	149.0	0.0	.	93	.	.	Atlas-SNP
RGPD4	285190	hgsc.bcm.edu	hg19	2	108488192	108488192	+	Silent	SNP	G	G	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	RGPD4	NM_182588	exon20	c.G3732C	p.G1244G	CACTGGGCCCACA	.	508.0	80.0	493.0	0.0	.	112	.	.	Atlas-SNP
DAPL1	92196	hgsc.bcm.edu	hg19	2	159651944	159651944	+	Splice_Site	SNP	T	T	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	DAPL1	NM_001017920	exon1	c.58+2T>A	.	TGCAGGTAGGCTG	.	237.0	32.0	271.0	0.0	.	11	.	.	Atlas-SNP
LY75	4065	hgsc.bcm.edu	hg19	2	160664981	160664981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	LY75	NM_002349	exon33	c.G4801A	p.G1601R	ATAATCCAAGCCA	.	104.0	20.0	94.0	0.0	.	151	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179560835	179560835	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TTN	NM_001267550	exon114	c.G30964A	p.D10322N	GTTCGTCATAAGG	.	116.0	38.0	140.0	0.0	.	18412	.	.	Atlas-SNP
CRYGD	1421	hgsc.bcm.edu	hg19	2	208988981	208988981	+	Missense_Mutation	SNP	G	G	A	rs200234608		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	CRYGD,NS,neuroblastoma,0,1	CRYGD	NM_006891	exon2	c.C107T	p.A36V	ACGCGCGCCGAGT	.	135.0	8.0	187.0	2.0	.	18	.	G|0.998;A|0.002	Atlas-SNP
CHRND	1144	hgsc.bcm.edu	hg19	2	233390976	233390976	+	Silent	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CHRND	NM_000751	exon1	c.T51C	p.C17C	GGTGTGTGGTAAG	.	214.0	24.0	197.0	0.0	.	67	.	.	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	hg19	3	403447	403447	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CHL1	NM_001253388	exon11	c.T1372C	p.F458L	AGTGCTTTCTTAC	.	126.0	59.0	126.0	0.0	.	242	.	.	Atlas-SNP
FGD5	152273	hgsc.bcm.edu	hg19	3	14862981	14862981	+	Silent	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FGD5	NM_152536	exon1	c.G2403T	p.T801T	GTTCACGAAGCTG	.	80.0	32.0	81.0	0.0	.	248	.	.	Atlas-SNP
SLC22A14	9389	hgsc.bcm.edu	hg19	3	38357904	38357904	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SLC22A14	NM_004803	exon9	c.C1622A	p.P541H	TCCTGCCCATCTT	.	125.0	25.0	87.0	0.0	.	64	.	.	Atlas-SNP
KIF15	56992	hgsc.bcm.edu	hg19	3	44843455	44843455	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KIF15	NM_020242	exon13	c.C1498A	p.L500M	CAAACTCTGCGAG	.	107.0	23.0	88.0	0.0	.	103	.	.	Atlas-SNP
OR5K4	403278	hgsc.bcm.edu	hg19	3	98073262	98073262	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	OR5K4	NM_001005517	exon1	c.T565A	p.C189S	CTCTCCTGTACAG	.	94.0	21.0	79.0	0.0	.	75	.	.	Atlas-SNP
BBX	56987	hgsc.bcm.edu	hg19	3	107491987	107491987	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	BBX	NM_001142568	exon11	c.C1419T	p.C473C	GACTTGCAAAAAG	.	265.0	101.0	255.0	0.0	.	156	.	.	Atlas-SNP
SPICE1	152185	hgsc.bcm.edu	hg19	3	113212077	113212077	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SPICE1	NM_144718	exon6	c.T468C	p.F156F	CTCATTAAAGATA	.	98.0	4.0	104.0	0.0	.	130	.	.	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	hg19	3	140123517	140123517	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CLSTN2	NM_022131	exon4	c.G546A	p.E182E	GGTGGAGGCCATT	.	235.0	84.0	260.0	0.0	.	190	.	.	Atlas-SNP
MECOM	2122	hgsc.bcm.edu	hg19	3	168810745	168810745	+	Splice_Site	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MECOM	NM_001105077	exon15	c.2795+1G>T	.	GCTTTACCTCTCC	.	78.0	13.0	43.0	0.0	.	216	.	.	Atlas-SNP
HTRA3	94031	hgsc.bcm.edu	hg19	4	8295868	8295868	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	HTRA3,NS,carcinoma,0,1	HTRA3	NM_053044	exon6	c.G991T	p.A331S	TCCTTTGCCATCC	.	139.0	17.0	121.0	0.0	.	39	.	.	Atlas-SNP
HTRA3	94031	hgsc.bcm.edu	hg19	4	8295870	8295870	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	HTRA3	NM_053044	exon6	c.C993T	p.A331A	CTTTGCCATCCCC	.	136.0	17.0	121.0	0.0	.	39	.	.	Atlas-SNP
PCDH7	5099	hgsc.bcm.edu	hg19	4	30726251	30726251	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PCDH7	NM_032456	exon1	c.C3207T	p.P1069P	ATATCCCAGGGAG	.	39.0	12.0	49.0	0.0	.	215	.	.	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	hg19	4	40103840	40103840	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	N4BP2	NM_018177	exon4	c.T375G	p.S125R	AGAGAGTGAAGAT	.	98.0	38.0	117.0	0.0	.	166	.	.	Atlas-SNP
GABRG1	2565	hgsc.bcm.edu	hg19	4	46060284	46060284	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	GABRG1	NM_173536	exon7	c.G866T	p.W289L	GACACCCAAGAAA	.	185.0	39.0	196.0	0.0	.	172	.	.	Atlas-SNP
TRPC3	7222	hgsc.bcm.edu	hg19	4	122836092	122836092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TRPC3	NM_001130698	exon4	c.C1184T	p.A395V	GGATGAGCCACAA	.	69.0	13.0	104.0	0.0	.	201	.	.	Atlas-SNP
SLC6A18	348932	hgsc.bcm.edu	hg19	5	1244795	1244795	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SLC6A18	NM_182632	exon11	c.C1569T	p.V523V	GGTGGTCAGTCCC	.	142.0	33.0	118.0	0.0	.	84	.	.	Atlas-SNP
FBXO4	26272	hgsc.bcm.edu	hg19	5	41927119	41927119	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FBXO4	NM_033484	exon2	c.A194T	p.D65V	AGATTGATGTACA	.	67.0	10.0	70.0	0.0	.	42	.	.	Atlas-SNP
HMGCR	3156	hgsc.bcm.edu	hg19	5	74646693	74646693	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	HMGCR	NM_001130996	exon9	c.C860A	p.S287Y	ATACTTCTAAGGT	.	64.0	18.0	88.0	0.0	.	53	.	.	Atlas-SNP
BRD8	10902	hgsc.bcm.edu	hg19	5	137501703	137501703	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	BRD8	NM_006696	exon12	c.C1311T	p.I437I	AGAATTGATGATC	.	61.0	18.0	79.0	0.0	.	192	.	.	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	hg19	5	140558833	140558833	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PCDHB8	NM_019120	exon1	c.A1218G	p.T406T	ACTAACAGAGACA	.	508.0	98.0	533.0	0.0	.	199	.	.	Atlas-SNP
PCDHGC5	56097	hgsc.bcm.edu	hg19	5	140871340	140871340	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PCDHGC5	NM_032407	exon1	c.T2533A	p.L845M	AAGGGATTGAACT	.	119.0	11.0	144.0	0.0	.	199	.	.	Atlas-SNP
DHX16	8449	hgsc.bcm.edu	hg19	6	30627550	30627550	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	DHX16	NM_003587	exon11	c.A1817T	p.Q606L	GGGGGCTGGGTCA	.	72.0	10.0	109.0	0.0	.	119	.	.	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	hg19	6	43220563	43220563	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TTBK1	NM_032538	exon3	c.G195A	p.E65E	GGTGGAGTCAGCC	.	62.0	13.0	77.0	0.0	.	124	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152768757	152768757	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SYNE1	NM_033071	exon29	c.G3526C	p.E1176Q	TGATCTCCTGAAA	.	36.0	6.0	52.0	0.0	.	3227	.	.	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	hg19	6	159655441	159655441	+	Silent	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FNDC1	NM_032532	exon11	c.C3897A	p.R1299R	CTTGCGCCAGAGG	.	154.0	15.0	189.0	0.0	.	250	.	.	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82791801	82791801	+	Silent	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PCLO	NM_014510	exon1	c.G108T	p.A36A	CGGGATCGCGGTG	.	75.0	41.0	110.0	0.0	.	1506	.	.	Atlas-SNP
NRCAM	4897	hgsc.bcm.edu	hg19	7	107799966	107799966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	NRCAM	NM_001037132	exon29	c.C3619T	p.H1207Y	CAGCATGGGCATC	.	90.0	38.0	89.0	0.0	.	267	.	.	Atlas-SNP
TMEM176A	55365	hgsc.bcm.edu	hg19	7	150501448	150501448	+	Splice_Site	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TMEM176A	NM_018487	exon6	c.556-2A>G	.	GTCCCCAGGCCTT	.	112.0	21.0	104.0	0.0	.	35	.	.	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	hg19	7	151860411	151860411	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MLL3	NM_170606	exon43	c.G10251A	p.Q3417Q	TACCTCCTGCATG	.	230.0	87.0	200.0	0.0	.	1564	.	.	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	hg19	8	10468548	10468548	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	RP1L1	NM_178857	exon4	c.G3060A	p.Q1020Q	TGGGTCCTGGCCG	.	85.0	40.0	104.0	0.0	.	453	.	.	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	hg19	8	33370119	33370119	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	.	NM_001265581	exon2	c.A13G	p.S5G	GAGCGCTGTCAAG	.	38.0	18.0	39.0	0.0	.	.	.	.	Atlas-SNP
CHD7	55636	hgsc.bcm.edu	hg19	8	61764754	61764754	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CHD7	NM_017780	exon29	c.G5842A	p.V1948M	GAGGAAGTGAGAG	.	127.0	53.0	112.0	0.0	.	534	.	.	Atlas-SNP
PPP1R42	286187	hgsc.bcm.edu	hg19	8	67926750	67926750	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PPP1R42	NM_001013626	exon3	c.T207C	p.N69N	GGCATAATTCAGG	.	83.0	11.0	89.0	0.0	.	2	.	.	Atlas-SNP
CPQ	10404	hgsc.bcm.edu	hg19	8	97847252	97847252	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	.	NM_016134	exon3	c.G485C	p.R162T	AGAGAAGGGCCTC	.	235.0	88.0	215.0	0.0	.	.	.	.	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	hg19	8	110447476	110447476	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PKHD1L1	NM_177531	exon29	c.T3398G	p.V1133G	TTGCTGTGTCCAT	.	120.0	6.0	115.0	0.0	.	522	.	.	Atlas-SNP
PUF60	22827	hgsc.bcm.edu	hg19	8	144899577	144899577	+	Silent	SNP	T	T	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PUF60	NM_078480	exon10	c.A1068T	p.P356P	CAGTGCTGGGGAC	.	187.0	84.0	151.0	0.0	.	26	.	.	Atlas-SNP
PARP10	84875	hgsc.bcm.edu	hg19	8	145059302	145059302	+	Missense_Mutation	SNP	C	C	A	rs199611396	alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PARP10	NM_032789	exon5	c.G868T	p.A290S	TCCCTGCACCCTG	.	81.0	13.0	75.0	0.0	.	57	.	.	Atlas-SNP
DNAI1	27019	hgsc.bcm.edu	hg19	9	34514529	34514529	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	DNAI1	NM_012144	exon17	c.C1707T	p.D569D	CTGGGACCACACC	.	90.0	14.0	91.0	0.0	.	72	.	.	Atlas-SNP
TLE4	7091	hgsc.bcm.edu	hg19	9	82320836	82320836	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TLE4	NM_007005	exon10	c.G762T	p.L254F	CAACTTGGTGGTT	.	166.0	52.0	326.0	0.0	.	187	.	.	Atlas-SNP
TLE4	7091	hgsc.bcm.edu	hg19	9	82320837	82320837	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TLE4	NM_007005	exon10	c.G763T	p.V255L	AACTTGGTGGTTG	.	161.0	49.0	322.0	0.0	.	187	.	.	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	hg19	9	107607783	107607783	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ABCA1	NM_005502	exon8	c.A788G	p.H263R	AGACTATGCAGCA	.	79.0	21.0	87.0	0.0	.	244	.	.	Atlas-SNP
TPRN	286262	hgsc.bcm.edu	hg19	9	140093940	140093940	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TPRN	NM_001128228	exon1	c.C1224A	p.D408E	AGCCCGGTCAGCG	.	75.0	33.0	102.0	0.0	.	28	.	.	Atlas-SNP
VIM	7431	hgsc.bcm.edu	hg19	10	17271663	17271663	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	VIM	NM_003380	exon2	c.A242T	p.Q81L	TCCTGCAGGACTC	.	98.0	34.0	108.0	0.0	.	71	.	.	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	hg19	10	26409644	26409644	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MYO3A	NM_017433	exon18	c.A1816T	p.N606Y	ATCTTGAATGTTG	.	82.0	27.0	113.0	0.0	.	371	.	.	Atlas-SNP
A1CF	29974	hgsc.bcm.edu	hg19	10	52575807	52575807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	A1CF	NM_001198820	exon10	c.A1124G	p.H375R	CTGAGATGTCCTT	.	177.0	50.0	205.0	0.0	.	190	.	.	Atlas-SNP
TMEM26	219623	hgsc.bcm.edu	hg19	10	63212687	63212687	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TMEM26	NM_178505	exon1	c.G153A	p.A51A	GGTGAGCGCAGTC	.	212.0	27.0	207.0	0.0	.	47	.	.	Atlas-SNP
STOX1	219736	hgsc.bcm.edu	hg19	10	70644911	70644911	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	STOX1	NM_152709	exon3	c.C1359T	p.P453P	ACACCCCAAGCTC	.	112.0	16.0	101.0	0.0	.	75	.	.	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	hg19	10	71007177	71007177	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	HKDC1	NM_025130	exon9	c.G1093A	p.E365K	CCGTCTGAGGCTG	.	190.0	51.0	177.0	0.0	.	98	.	.	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	hg19	10	108367021	108367021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SORCS1	NM_001206572	exon23	c.C3068T	p.A1023V	AGCACCGCCACCA	.	78.0	24.0	90.0	0.0	.	534	.	.	Atlas-SNP
OR4A15	81328	hgsc.bcm.edu	hg19	11	55135547	55135547	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	OR4A15	NM_001005275	exon1	c.A188T	p.Y63F	TAATCTACATGGT	.	123.0	17.0	108.0	0.0	.	161	.	.	Atlas-SNP
OR4C11	219429	hgsc.bcm.edu	hg19	11	55371775	55371775	+	Silent	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	OR4C11	NM_001004700	exon1	c.G75T	p.V25V	TACAAACACTATT	.	84.0	15.0	95.0	0.0	.	73	.	.	Atlas-SNP
OR8K1	390157	hgsc.bcm.edu	hg19	11	56114194	56114194	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	OR8K1	NM_001002907	exon1	c.T680G	p.I227S	TGTTTATTCTAGT	.	105.0	51.0	96.0	0.0	.	93	.	.	Atlas-SNP
TSKU	25987	hgsc.bcm.edu	hg19	11	76507685	76507685	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TSKU	NM_015516	exon2	c.C1025A	p.T342N	TAGACACCCGGGA	.	38.0	11.0	55.0	0.0	.	26	.	.	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	hg19	11	76834775	76834775	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CAPN5	NM_004055	exon13	c.G1782A	p.Q594Q	GGGCCAGGTGCAC	.	144.0	29.0	136.0	0.0	.	67	.	.	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	hg19	11	117342745	117342745	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	DSCAML1	NM_020693	exon15	c.G2972A	p.W991X	AAGTCCCAGGAAT	.	178.0	12.0	163.0	0.0	.	286	.	.	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	hg19	11	118924950	118924950	+	Splice_Site	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	HYOU1	NM_001130991	exon9	c.679-2A>G	.	ATATTCTGTAGAG	.	79.0	15.0	86.0	0.0	.	88	.	.	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	hg19	12	2774038	2774038	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CACNA1C	NM_199460	exon37	c.C4424T	p.P1475L	GCATGCCAGGCAA	.	77.0	30.0	69.0	0.0	.	1023	.	.	Atlas-SNP
SOX5	6660	hgsc.bcm.edu	hg19	12	24048842	24048842	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SOX5	NM_006940	exon2	c.T155G	p.L52R	AAGGGAAGGTGAA	.	120.0	37.0	133.0	0.0	.	134	.	.	Atlas-SNP
SOX5	6660	hgsc.bcm.edu	hg19	12	24048849	24048849	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SOX5	NM_006940	exon2	c.T148G	p.F50V	GGTGAAAGGCTGG	.	118.0	33.0	132.0	0.0	.	134	.	.	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	hg19	12	53041619	53041619	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KRT2	NM_000423	exon6	c.T1143C	p.T381T	CCCGACAGTCACC	.	82.0	21.0	91.0	0.0	.	94	.	.	Atlas-SNP
TENC1	23371	hgsc.bcm.edu	hg19	12	53448150	53448150	+	Silent	SNP	C	C	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TENC1	NM_015319	exon7	c.C477G	p.P159P	GCGGCCCGATGAA	.	48.0	4.0	144.0	0.0	.	148	.	.	Atlas-SNP
ITGA7	3679	hgsc.bcm.edu	hg19	12	56092544	56092544	+	Silent	SNP	C	C	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ITGA7	NM_001144996	exon6	c.G960C	p.L320L	GGAGGTCAGGCGC	.	152.0	26.0	175.0	0.0	.	194	.	.	Atlas-SNP
ANKRD52	283373	hgsc.bcm.edu	hg19	12	56638565	56638565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	ANKRD52,NS,carcinoma,0,1	ANKRD52	NM_173595	exon24	c.G2593A	p.A865T	AGGCAGCGGCGTG	.	59.0	8.0	73.0	0.0	.	81	.	.	Atlas-SNP
B4GALNT1	2583	hgsc.bcm.edu	hg19	12	58020643	58020643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	B4GALNT1,NS,carcinoma,0,1	B4GALNT1	NM_001478	exon11	c.G1486A	p.D496N	CTCCGGCATCCCT	.	121.0	28.0	157.0	0.0	.	53	.	.	Atlas-SNP
XPOT	11260	hgsc.bcm.edu	hg19	12	64813854	64813854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	XPOT	NM_007235	exon7	c.C494T	p.A165V	AGGAGGCTCGTAG	.	42.0	5.0	53.0	0.0	.	105	.	.	Atlas-SNP
FAM71C	196472	hgsc.bcm.edu	hg19	12	100042218	100042218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FAM71C	NM_153364	exon1	c.C266T	p.A89V	TGCTGGCCCGACC	.	122.0	18.0	119.0	0.0	.	48	.	.	Atlas-SNP
FAM71C	196472	hgsc.bcm.edu	hg19	12	100042223	100042223	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FAM71C	NM_153364	exon1	c.C271T	p.P91S	GCCCGACCAGCTG	.	120.0	19.0	111.0	0.0	.	48	.	.	Atlas-SNP
DIS3	22894	hgsc.bcm.edu	hg19	13	73336102	73336102	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	DIS3	NM_014953	exon17	c.A2301C	p.L767F	AGACGCTAAGCCA	.	61.0	18.0	93.0	0.0	.	103	.	.	Atlas-SNP
RNASE2	6036	hgsc.bcm.edu	hg19	14	21423958	21423958	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	RNASE2	NM_002934	exon2	c.A28G	p.I10V	TCCCAAATTTGTC	.	142.0	33.0	138.0	0.0	.	26	.	.	Atlas-SNP
LTB4R	1241	hgsc.bcm.edu	hg19	14	24785243	24785243	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	LTB4R	NM_181657	exon2	c.G386T	p.R129L	AGCTACGCACCAA	.	74.0	12.0	68.0	0.0	.	18	.	.	Atlas-SNP
MLH3	27030	hgsc.bcm.edu	hg19	14	75505047	75505047	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MLH3	NM_014381	exon6	c.G3639T	p.E1213D	ACCTGCCTCGCCA	.	65.0	4.0	64.0	0.0	.	200	.	.	Atlas-SNP
ITPK1	3705	hgsc.bcm.edu	hg19	14	93542960	93542960	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ITPK1	NM_001142593	exon3	c.C100T	p.R34X	TCCCTCGCTTCCT	.	164.0	55.0	167.0	0.0	.	53	.	.	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	hg19	14	104641634	104641634	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KIF26A	NM_015656	exon12	c.C2509T	p.R837C	CACTTCCGCTGCA	.	18.0	8.0	77.0	0.0	.	84	.	.	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105420945	105420945	+	Silent	SNP	C	C	T	rs376708808	alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	AHNAK2	NM_138420	exon7	c.G843A	p.S281S	CTCTGACGAGCTG	.	48.0	28.0	74.0	0.0	.	719	.	.	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	hg19	15	73617654	73617654	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	HCN4	NM_005477	exon5	c.C1722T	p.S574S	GGGCTCGCTTAGC	.	113.0	80.0	160.0	0.0	.	150	.	.	Atlas-SNP
ITFG3	83986	hgsc.bcm.edu	hg19	16	314814	314814	+	Silent	SNP	C	C	A	rs140101617	bycluster;by1000genomes;alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ITFG3	NM_032039	exon13	c.C1452A	p.V484V	AGCCGTCCTGTTT	.	48.0	12.0	58.0	0.0	.	42	.	C|1.000;T|0.000	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	hg19	16	1535964	1535964	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PTX4	NM_001013658	exon3	c.C1398T	p.C466C	GCAGGTGCAGTTG	.	66.0	11.0	58.0	0.0	.	46	.	.	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	hg19	16	2157970	2157970	+	Silent	SNP	G	G	T	rs184394342	bycluster;by1000genomes;alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PKD1	NM_000296	exon16	c.C6979A	p.R2327R	GCTCCCGTGGAAT	.	53.0	4.0	112.0	0.0	.	184	.	G|0.999;A|0.001	Atlas-SNP
MLST8	64223	hgsc.bcm.edu	hg19	16	2257268	2257268	+	Silent	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MLST8	NM_001199174	exon6	c.G495T	p.L165L	GCAGCTGATCCCT	.	220.0	87.0	180.0	0.0	.	60	.	.	Atlas-SNP
NMRAL1	57407	hgsc.bcm.edu	hg19	16	4519432	4519432	+	Silent	SNP	C	C	T	rs11557237		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	NMRAL1	NM_020677	exon3	c.G75A	p.L25L	ATCTTCCAGGAGT	.	81.0	36.0	73.0	0.0	.	31	.	.	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	hg19	16	19551992	19551992	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CCP110	NM_001199022	exon5	c.A1932G	p.L644L	GGAGTTACTAAAA	.	337.0	133.0	298.0	0.0	.	57	.	.	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	hg19	17	1630783	1630783	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	WDR81	NM_001163809	exon1	c.C2530T	p.Q844X	CTGGACCAACTGT	.	66.0	26.0	109.0	0.0	.	180	.	.	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	hg19	17	2076069	2076069	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SMG6	NM_017575	exon13	c.G3240C	p.K1080N	CGGGTCCTTGTAC	.	127.0	57.0	134.0	0.0	.	97	.	.	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	hg19	17	4348361	4348361	+	Silent	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SPNS3	NM_182538	exon3	c.G300T	p.V100V	ACCTGTGTTTGGC	.	113.0	5.0	156.0	0.0	.	52	.	.	Atlas-SNP
PITPNM3	83394	hgsc.bcm.edu	hg19	17	6381970	6381970	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PITPNM3	NM_031220	exon7	c.C674G	p.S225C	GGGGAGGAGATGG	.	81.0	36.0	114.0	0.0	.	91	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7574035	7574035	+	Splice_Site	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	TP53_ENST00000269305,NS,carcinoma,0,13	TP53	NM_000546	exon11	c.994-2A>G	.	CGGATCTGCAGCA	.	82.0	35.0	110.0	0.0	.	33396	.	.	Atlas-SNP
KRTAP1-3	81850	hgsc.bcm.edu	hg19	17	39190602	39190602	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KRTAP1-3	NM_030966	exon1	c.T472C	p.C158R	AGCAGCAGACTGG	.	263.0	46.0	294.0	0.0	.	18	.	.	Atlas-SNP
ITGA3	3675	hgsc.bcm.edu	hg19	17	48148866	48148866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ITGA3	NM_005501	exon6	c.G943A	p.D315N	CTGGCAGACCTGA	.	26.0	7.0	21.0	0.0	.	128	.	.	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	hg19	17	51901739	51901739	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KIF2B	NM_032559	exon1	c.G1345T	p.A449S	GATTTAGCTGGGA	.	94.0	16.0	101.0	0.0	.	254	.	.	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	hg19	17	56700253	56700253	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	TEX14	NM_198393	exon4	c.C372A	p.N124K	CTTCGGGTTTTGA	.	129.0	56.0	135.0	0.0	.	343	.	.	Atlas-SNP
CD300E	342510	hgsc.bcm.edu	hg19	17	72613454	72613454	+	Missense_Mutation	SNP	G	G	C	rs201462551	by1000genomes;alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	CD300E	NM_181449	exon2	c.C191G	p.T64S	CCCTTGGTCTCCA	.	164.0	18.0	150.0	0.0	.	70	.	G|1.000;A|0.000	Atlas-SNP
GALNT1	2589	hgsc.bcm.edu	hg19	18	33267144	33267144	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	GALNT1	NM_020474	exon5	c.C854T	p.P285L	CTCTTCCTGTCAG	.	133.0	17.0	129.0	0.0	.	53	.	.	Atlas-SNP
FHOD3	80206	hgsc.bcm.edu	hg19	18	34156482	34156482	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FHOD3	NM_025135	exon6	c.T580C	p.W194R	ATTCAGTGGCTGT	.	180.0	24.0	188.0	0.0	.	210	.	.	Atlas-SNP
DOK6	220164	hgsc.bcm.edu	hg19	18	67425047	67425047	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	DOK6,NS,carcinoma,0,1	DOK6	NM_152721	exon7	c.G794A	p.R265H	TTCCTCGCAGCGC	.	97.0	42.0	85.0	1.0	.	56	.	.	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	hg19	18	76754132	76754132	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	SALL3	NM_171999	exon2	c.G2141T	p.R714L	GCGGCCGCGCCTT	.	75.0	17.0	133.0	0.0	.	162	.	.	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	hg19	19	43528932	43528932	+	Missense_Mutation	SNP	C	C	A	rs111739483	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PSG11	NM_002785	exon2	c.G341T	p.R114L	TCCTCCCGGGTGA	.	364.0	44.0	292.0	0.0	.	57	.	C|0.977;T|0.023	Atlas-SNP
KLK1	3816	hgsc.bcm.edu	hg19	19	51322605	51322605	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KLK1	NM_002257	exon5	c.G634A	p.G212S	AATCACCCTGGGA	.	79.0	5.0	63.0	0.0	.	27	.	.	Atlas-SNP
ZNF528	84436	hgsc.bcm.edu	hg19	19	52919064	52919064	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ZNF528	NM_032423	exon7	c.C959A	p.T320N	TTCATACTGGAGA	.	90.0	7.0	89.0	0.0	.	95	.	.	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	hg19	19	57175244	57175244	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	ZNF835	NM_001005850	exon2	c.G1323A	p.T441T	CTCGCCCGTGTGC	.	35.0	10.0	60.0	0.0	.	106	.	.	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	hg19	20	47269978	47269978	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PREX1	NM_020820	exon20	c.G2267A	p.G756D	TTGCTGCCATTGA	.	63.0	18.0	67.0	0.0	.	441	.	.	Atlas-SNP
KRTAP8-1	337879	hgsc.bcm.edu	hg19	21	32185533	32185533	+	Silent	SNP	G	G	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KRTAP8-1	NM_175857	exon1	c.C6G	p.L2L	GTCGCAGAGCATG	.	173.0	52.0	190.0	0.0	.	20	.	.	Atlas-SNP
BACE2	25825	hgsc.bcm.edu	hg19	21	42598204	42598204	+	Silent	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	BACE2	NM_138992	exon2	c.C324A	p.L108L	GATTCTCGTTGAC	.	200.0	14.0	160.0	0.0	.	45	.	.	Atlas-SNP
RRP1B	23076	hgsc.bcm.edu	hg19	21	45107710	45107710	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	RRP1B	NM_015056	exon13	c.A1455T	p.E485D	CAGGGAAATGTTG	.	131.0	25.0	120.0	0.0	.	51	.	.	Atlas-SNP
MAGED1	9500	hgsc.bcm.edu	hg19	X	51638377	51638377	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	MAGED1	NM_001005333	exon4	c.T442C	p.Y148H	GGTGTCTATGATT	.	120.0	19.0	127.0	0.0	.	84	.	.	Atlas-SNP
KDM5C	8242	hgsc.bcm.edu	hg19	X	53246991	53246991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	KDM5C	NM_004187	exon4	c.G509T	p.G170V	TTGGCTCCAGACT	.	227.0	43.0	241.0	0.0	.	385	.	.	Atlas-SNP
IQSEC2	23096	hgsc.bcm.edu	hg19	X	53277365	53277365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	IQSEC2	NM_001111125	exon7	c.G2513A	p.R838Q	AACTTCCGGAGCG	.	158.0	11.0	150.0	0.0	.	195	.	.	Atlas-SNP
GLRA4	441509	hgsc.bcm.edu	hg19	X	102973919	102973919	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	GLRA4	NM_001172285	exon7	c.C999A	p.C333X	AGGAGGGCACATT	.	180.0	67.0	189.0	0.0	.	86	.	.	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	hg19	X	107977917	107977917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	IRS4	NM_003604	exon1	c.C1658T	p.A553V	CCACCTGCGGTGC	.	41.0	8.0	56.0	0.0	.	253	.	.	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	hg19	X	114424158	114424158	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	RBMXL3	NM_001145346	exon1	c.G154A	p.A52T	GGCTTCGCGTTCG	.	398.0	69.0	357.0	0.0	.	83	.	.	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	hg19	X	123195634	123195634	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	STAG2	NM_001042749	exon17	c.G1548A	p.R516R	AGATAGGCAAGAG	.	138.0	22.0	152.0	0.0	.	309	.	.	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	hg19	X	153035892	153035892	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PLXNB3	NM_001163257	exon10	c.C1955A	p.A652E	TGGAGGCGGCTGC	.	165.0	67.0	181.0	0.0	.	208	.	.	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	hg19	X	153042728	153042728	+	Missense_Mutation	SNP	G	G	A	rs372327696		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	PLXNB3	NM_001163257	exon31	c.G5062A	p.E1688K	GCCACCGAGGAGC	.	121.0	45.0	138.0	0.0	.	208	.	.	Atlas-SNP
COG5	10466	hgsc.bcm.edu	hg19	7	106921825	106921827	+	In_Frame_Del	DEL	CAG	CAG	-	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	COG5	NM_001161520	exon14	c.1587_1589del	p.529_530del	.	.	114.0	19.0	98.0	0.0	.	78	.	.	Atlas-Indel,Pindel
FAM71C	196472	hgsc.bcm.edu	hg19	12	100042220	100042221	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FAM71C	NM_153364	exon1	c.267_268del	p.89_90del	.	.	117.0	18.0	114.0	0.0	.	48	.	.	Atlas-INDEL
EFHA2	286097	hgsc.bcm.edu	hg19	8	16921654	16921654	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	EFHA2,NS,carcinoma,0,2	EFHA2	NM_181723	exon2	c.442delC	p.R148fs	.	.	74.0	14.0	94.0	0.0	.	60	.	.	Atlas-Indel,Pindel
VPS39	23339	hgsc.bcm.edu	hg19	15	42454640	42454641	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	VPS39	NM_015289	exon22	c.2215_2216insC	p.S739fs	.	.	103.0	35.0	135.0	0.0	.	53	.	.	Atlas-Indel,Pindel
FAM71C	196472	hgsc.bcm.edu	hg19	12	100042218	100042223	+	In_Frame_Del	DEL	CCCGAC	CCCGAC	-	novel		TCGA-G3-A5SM-01A-12D-A28X-10	TCGA-G3-A5SM-10A-01D-A28X-10	CCCGAC	CCCGAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e2dae934-c940-4712-976d-68a9cce2b2c2	e6086fb4-e933-4934-8437-5c592d7bf553	.	FAM71C	NM_153364	exon1	c.265_270del	p.89_90del	.	.	124.0	16.0	115.0	0.0	.	48	.	.	Pindel
