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
NPHP4	261734	hgsc.bcm.edu	hg19	1	5965397	5965397	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	NPHP4	NM_015102	exon15	c.G1910C	p.C637S	TGTAGACAATCTG	.	119.0	44.0	119.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19526229	19526229	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	UBR4	NM_020765	exon3	c.G294C	p.Q98H	CACTGACTGAAGT	.	96.0	30.0	84.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
GPBP1L1	60313	hgsc.bcm.edu	hg19	1	46120388	46120388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	GPBP1L1	NM_021639	exon6	c.G304A	p.G102S	CATGACCTCGGGA	.	113.0	42.0	134.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
PTGER3	5733	hgsc.bcm.edu	hg19	1	71513083	71513083	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PTGER3	NM_001126044	exon1	c.C178A	p.L60I	CAGTGAGCAGCAT	.	269.0	92.0	288.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
PTGER3	5733	hgsc.bcm.edu	hg19	1	71513084	71513084	+	Silent	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PTGER3	NM_001126044	exon1	c.G177T	p.L59L	AGTGAGCAGCATG	.	271.0	92.0	285.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
ADORA3	140	hgsc.bcm.edu	hg19	1	112029234	112029234	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ADORA3	NM_020683	exon4	c.A846T	p.K282N	GACAACTTTGGGA	.	75.0	35.0	69.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	hg19	1	144882724	144882724	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	PDE4DIP_ENST00000369356,bladder,carcinoma,0,2	PDE4DIP	NM_014644	exon24	c.C3295A	p.Q1099K	CAGCCTGAAGGCT	.	140.0	29.0	164.0	0.0	.	817	.	.	.	none	.	.	PASS	Atlas-SNP
THEM4	117145	hgsc.bcm.edu	hg19	1	151867562	151867562	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	THEM4	NM_053055	exon2	c.G208C	p.D70H	AGCCGTCTTCACA	.	108.0	39.0	146.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	hg19	1	155034762	155034762	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	ADAM15,colon,carcinoma,0,1	ADAM15	NM_001261465	exon20	c.G2321A	p.C774Y	GCCACTGCCTGCC	.	82.0	36.0	106.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
POU2F1	5451	hgsc.bcm.edu	hg19	1	167343431	167343431	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	POU2F1	NM_002697	exon6	c.C489G	p.H163Q	GCAGCACTCCGCC	.	198.0	81.0	188.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	hg19	1	186277770	186277770	+	Silent	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PRG4	NM_005807	exon7	c.T2919C	p.I973I	CAAAATTACTACT	.	151.0	62.0	163.0	0.0	.	259	.	.	.	none	.	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	hg19	1	197026477	197026477	+	Silent	SNP	G	G	T	rs141627684	alternate_allele	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	F13B,NS,carcinoma,0,1	F13B	NM_001994	exon6	c.C924A	p.I308I	CCCATGGATCTCA	.	131.0	57.0	174.0	0.0	.	137	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
PKP1	5317	hgsc.bcm.edu	hg19	1	201292313	201292313	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PKP1	NM_000299	exon10	c.G1739A	p.G580E	GCAAGGGGCTGGT	.	53.0	21.0	65.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
SMYD3	64754	hgsc.bcm.edu	hg19	1	246670463	246670463	+	Silent	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SMYD3	NM_001167740	exon1	c.C57A	p.R19R	CACGGCGCGCAGC	.	153.0	65.0	174.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73613065	73613065	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ALMS1	NM_015120	exon1	c.G69A	p.E23E	GGAGGAGGAGGAA	.	564.0	66.0	646.0	0.0	.	384	.	.	.	none	.	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	hg19	2	170097724	170097724	+	Silent	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	LRP2	NM_004525	exon25	c.A3819G	p.S1273S	ATATGATGAAGGG	.	133.0	42.0	133.0	0.0	.	751	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179424376	179424376	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TTN	NM_001267550	exon326	c.A86483G	p.Q28828R	ACATTCTGAATTG	.	104.0	35.0	91.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	hg19	2	207655298	207655298	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	FASTKD2	NM_001136193	exon11	c.T1901C	p.V634A	TCAGAGTAGCTGT	.	54.0	21.0	51.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	hg19	2	241621833	241621833	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	AQP12B	NM_001102467	exon1	c.A422T	p.H141L	AGCAGGTGCAGGT	.	194.0	48.0	207.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	hg19	2	242683053	242683053	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	D2HGDH	NM_152783	exon5	c.G507T	p.Q169H	TTGCCAGGCGGGC	.	34.0	11.0	42.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
SCN5A	6331	hgsc.bcm.edu	hg19	3	38592252	38592252	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SCN5A	NM_198056	exon28	c.C5611T	p.L1871L	TCTTCAGGGCGTC	.	130.0	43.0	81.0	0.0	.	634	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	hg19	3	56649243	56649243	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CCDC66	NM_001141947	exon12	c.A1654G	p.I552V	CAAAGAATCCGAG	.	848.0	444.0	717.0	2.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	hg19	3	121410064	121410064	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	GOLGB1	NM_001256486	exon14	c.A8147T	p.D2716V	ACCAAATCTCTTG	.	112.0	13.0	77.0	0.0	.	319	.	.	.	none	.	.	PASS	Atlas-SNP
CHST2	9435	hgsc.bcm.edu	hg19	3	142840256	142840256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CHST2	NM_004267	exon2	c.G598A	p.V200I	TGGCATGTATGGC	.	166.0	109.0	133.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	hg19	4	88536436	88536436	+	Silent	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	DSPP	NM_014208	exon5	c.C2622T	p.S874S	CAGCAGCAACAGC	.	220.0	17.0	250.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	hg19	4	151520233	151520233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	LRBA	NM_006726	exon38	c.G5972A	p.R1991H	CGCCGGCGCCGCA	.	95.0	41.0	67.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	hg19	5	1087045	1087045	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SLC12A7	NM_006598	exon6	c.T648A	p.Y216X	CAAAATATACATG	.	224.0	84.0	311.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
HEXB	3074	hgsc.bcm.edu	hg19	5	74009349	74009349	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	HEXB	NM_000521	exon7	c.C790A	p.H264N	TTGTCTCATGTTT	.	116.0	49.0	105.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
LNPEP	4012	hgsc.bcm.edu	hg19	5	96329525	96329525	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	LNPEP	NM_005575	exon6	c.G1257T	p.L419F	AGATTTGGTGGCT	.	76.0	34.0	69.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	hg19	5	141313856	141313856	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	KIAA0141	NM_001142603	exon9	c.T949C	p.Y317H	GCTCAGTACCGCT	.	130.0	56.0	119.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
DHX16	8449	hgsc.bcm.edu	hg19	6	30638231	30638231	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	DHX16	NM_003587	exon4	c.G622C	p.A208P	TCTGAGCCTCTTC	.	45.0	12.0	58.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
NFYA	4800	hgsc.bcm.edu	hg19	6	41046900	41046900	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	NFYA	NM_002505	exon2	c.G72T	p.Q24H	TCAGCAGCAGGTA	.	60.0	4.0	82.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
PHF3	23469	hgsc.bcm.edu	hg19	6	64395141	64395141	+	Silent	SNP	G	G	A	rs149984169	alternate_allele	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	PHF3,NS,carcinoma,0,2	PHF3	NM_015153	exon3	c.G1518A	p.P506P	TGCTCCGAAGAAA	.	298.0	114.0	336.0	0.0	.	191	.	.	.	alt	G|1.000;T|0.000	.	PASS	Atlas-SNP
OGFRL1	79627	hgsc.bcm.edu	hg19	6	72011551	72011551	+	Silent	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	OGFRL1	NM_024576	exon7	c.C1155T	p.S385S	GCCCAGCAATGAA	.	387.0	153.0	398.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
MYO6	4646	hgsc.bcm.edu	hg19	6	76621412	76621412	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	MYO6	NM_004999	exon33	c.T3436G	p.S1146A	AACAATTCACGTA	.	325.0	137.0	446.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
SLC2A12	154091	hgsc.bcm.edu	hg19	6	134350058	134350058	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SLC2A12	NM_145176	exon2	c.C905T	p.S302L	ACAGTTGATGCAT	.	109.0	50.0	114.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	hg19	6	134495179	134495179	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SGK1	NM_001143676	exon5	c.G477T	p.Q159H	AGGCTCCTGAGGT	.	107.0	41.0	138.0	0.0	.	387	.	.	.	none	.	.	PASS	Atlas-SNP
AUTS2	26053	hgsc.bcm.edu	hg19	7	70239070	70239070	+	Silent	SNP	C	C	T	rs143201197	alternate_allele	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	AUTS2	NM_015570	exon12	c.C1887T	p.L629L	TTTACTCCAAAAG	.	137.0	58.0	103.0	0.0	.	173	.	.	.	alt	C|1.000;G|0.000	.	PASS	Atlas-SNP
TFR2	7036	hgsc.bcm.edu	hg19	7	100238449	100238449	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TFR2	NM_003227	exon3	c.C333T	p.C111C	GTCTCCGCACGCC	.	169.0	78.0	110.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
AASS	10157	hgsc.bcm.edu	hg19	7	121755193	121755193	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	AASS	NM_005763	exon9	c.G978C	p.Q326H	GAGACTCTGAGCA	.	208.0	87.0	139.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF467	168544	hgsc.bcm.edu	hg19	7	149462502	149462502	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ZNF467	NM_207336	exon5	c.C1089T	p.S363S	GCCGAAGCTCAAG	.	287.0	136.0	163.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
BLK	640	hgsc.bcm.edu	hg19	8	11412365	11412365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	BLK	NM_001715	exon7	c.C586T	p.P196S	ACCTTCCCCTCGC	.	24.0	13.0	25.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
ASPH	444	hgsc.bcm.edu	hg19	8	62556523	62556523	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ASPH	NM_032466	exon8	c.G690T	p.M230I	CTCAGACATCATC	.	145.0	69.0	157.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
PYCRL	65263	hgsc.bcm.edu	hg19	8	144689268	144689268	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PYCRL	NM_023078	exon3	c.A227C	p.E76A	AGCACCTCCTGGT	.	112.0	46.0	114.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
UNC13B	10497	hgsc.bcm.edu	hg19	9	35396502	35396502	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	UNC13B	NM_006377	exon26	c.G3091A	p.A1031T	AAAAGTGCTGACT	.	65.0	31.0	78.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
ECM2	1842	hgsc.bcm.edu	hg19	9	95272295	95272295	+	Silent	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ECM2	NM_001393	exon6	c.T1192C	p.L398L	TATTCAAACGCAT	.	76.0	4.0	72.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
ERCC6L2	375748	hgsc.bcm.edu	hg19	9	98684631	98684631	+	Silent	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	.	NM_001010895	exon8	c.C1377T	p.Y459Y	CAGTTACCTTACA	.	52.0	18.0	71.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DDX31	64794	hgsc.bcm.edu	hg19	9	135505682	135505682	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	DDX31	NM_022779	exon16	c.T1915C	p.Y639H	TGACATATTCTGC	.	78.0	36.0	81.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
ARID5B	84159	hgsc.bcm.edu	hg19	10	63852419	63852419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ARID5B	NM_032199	exon10	c.C3197T	p.S1066L	GCGGATCAGAAGG	.	70.0	28.0	63.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
WAPAL	23063	hgsc.bcm.edu	hg19	10	88197365	88197365	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	WAPAL	NM_015045	exon19	c.T3508C	p.C1170R	CAGCACACTGAAA	.	74.0	32.0	81.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
PYROXD2	84795	hgsc.bcm.edu	hg19	10	100167377	100167377	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PYROXD2	NM_032709	exon4	c.C277A	p.L93M	TCAGCAGGCTGAG	.	47.0	16.0	28.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ADRA2A	150	hgsc.bcm.edu	hg19	10	112837876	112837876	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ADRA2A	NM_000681	exon1	c.C122A	p.T41N	GGGCCACCCCTTA	.	42.0	14.0	43.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP1	392	hgsc.bcm.edu	hg19	11	46701795	46701795	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ARHGAP1	NM_004308	exon10	c.C858T	p.N286N	TTGGGTGTTGGCC	.	53.0	19.0	76.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
CKAP5	9793	hgsc.bcm.edu	hg19	11	46772905	46772905	+	Silent	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	CKAP5,NS,carcinoma,0,1	CKAP5	NM_001008938	exon39	c.A5313G	p.K1771K	GGGCCCTTTTAAT	.	89.0	4.0	82.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
MYBPC3	4607	hgsc.bcm.edu	hg19	11	47372130	47372130	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	MYBPC3	NM_000256	exon3	c.C329T	p.P110L	TCAGCAGGGGCAG	.	165.0	26.0	160.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
CELF1	10658	hgsc.bcm.edu	hg19	11	47494737	47494737	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CELF1	NM_001172639	exon14	c.T1314G	p.F438L	ATCACCAAACTCC	.	76.0	37.0	80.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
OR10S1	219873	hgsc.bcm.edu	hg19	11	123847533	123847533	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	OR10S1	NM_001004474	exon1	c.T866A	p.F289Y	GTGTAGAAGACAG	.	59.0	26.0	76.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
CLECL1	160365	hgsc.bcm.edu	hg19	12	9875396	9875396	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CLECL1	NM_001267701	exon2	c.T330G	p.F110L	AGTAGAAAAGTTG	.	124.0	76.0	116.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	hg19	12	29639178	29639178	+	Splice_Site	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	OVCH1,NS,carcinoma,0,1	OVCH1	NM_183378	exon9	c.995+1G>T	.	ACCACACATACCC	.	128.0	72.0	107.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
IPO8	10526	hgsc.bcm.edu	hg19	12	30834737	30834737	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	IPO8	NM_006390	exon4	c.T338C	p.M113T	AGACACATTGTTA	.	149.0	50.0	133.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
NXPH4	11247	hgsc.bcm.edu	hg19	12	57619121	57619121	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	NXPH4	NM_007224	exon2	c.C518A	p.P173H	CTGTCCCCCACCC	.	73.0	40.0	36.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	hg19	12	128899711	128899711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TMEM132C	NM_001136103	exon2	c.G520A	p.A174T	GTCTTTGCTTTCC	.	140.0	91.0	116.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
SLITRK1	114798	hgsc.bcm.edu	hg19	13	84453695	84453695	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SLITRK1	NM_052910	exon1	c.A1948C	p.K650Q	GTCTCTTGGACCG	.	109.0	36.0	115.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
EAPP	55837	hgsc.bcm.edu	hg19	14	35002688	35002688	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	EAPP	NM_018453	exon3	c.T314C	p.I105T	AAATATATATCAT	.	106.0	49.0	99.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
STYX	6815	hgsc.bcm.edu	hg19	14	53224474	53224474	+	Silent	SNP	G	G	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	STYX	NM_001130701	exon8	c.G354C	p.V118V	TCTTGTGCATGGA	.	72.0	22.0	75.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
SERPINA12	145264	hgsc.bcm.edu	hg19	14	94956103	94956103	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SERPINA12	NM_173850	exon5	c.G907C	p.V303L	CTACGACCCTGGG	.	101.0	43.0	106.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
GCNT3	9245	hgsc.bcm.edu	hg19	15	59911624	59911624	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	GCNT3	NM_004751	exon3	c.G1187A	p.G396E	GGGCTGGGGACTT	.	75.0	28.0	103.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH1A3	220	hgsc.bcm.edu	hg19	15	101438391	101438391	+	Splice_Site	SNP	G	G	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ALDH1A3	NM_000693	exon8	c.883+1G>C	.	CTGACTGTGAGTC	.	103.0	46.0	116.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
CLN3	1201	hgsc.bcm.edu	hg19	16	28495396	28495396	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CLN3	NM_001042432	exon10	c.G721T	p.G241W	CTTCCCCTCCAGG	.	63.0	33.0	58.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
DERL2	51009	hgsc.bcm.edu	hg19	17	5389469	5389469	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	DERL2	NM_016041	exon1	c.A13G	p.S5G	GCAAGCTCTGGTA	.	295.0	71.0	228.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
EVPLL	645027	hgsc.bcm.edu	hg19	17	18286356	18286356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	EVPLL	NM_001145127	exon7	c.C529T	p.R177W	GTGGCGCGGGCAG	.	60.0	15.0	39.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
SLFN11	91607	hgsc.bcm.edu	hg19	17	33679953	33679953	+	Silent	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	SLFN11,right_upper_lobe,carcinoma,0,1	SLFN11	NM_152270	exon5	c.T2128C	p.L710L	AATCCAAGTGGCT	.	136.0	46.0	94.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
TNS4	84951	hgsc.bcm.edu	hg19	17	38634839	38634839	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TNS4	NM_032865	exon11	c.C1972T	p.Q658X	TCCGTTGCTCAGG	.	118.0	46.0	87.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	hg19	17	39305773	39305773	+	Missense_Mutation	SNP	T	T	G	rs201152898	bycluster	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	KRTAP4-5	NM_033188	exon1	c.A247C	p.T83P	AGGTGGTCTGGCA	.	84.0	32.0	56.0	0.0	.	34	.	.	.	weak	.	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	hg19	17	39305774	39305774	+	Missense_Mutation	SNP	C	C	G	rs137947981	bycluster	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	KRTAP4-5,NS,carcinoma,0,1	KRTAP4-5	NM_033188	exon1	c.G246C	p.Q82H	GGTGGTCTGGCAG	.	83.0	32.0	55.0	0.0	.	34	.	.	.	weak	.	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	hg19	17	39305775	39305775	+	Missense_Mutation	SNP	T	T	C	rs141265645	bycluster	TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	KRTAP4-5,NS,carcinoma,+1,1	KRTAP4-5	NM_033188	exon1	c.A245G	p.Q82R	GTGGTCTGGCAGC	.	81.0	33.0	52.0	0.0	.	34	.	.	.	weak	.	.	PASS	Atlas-SNP
CHAD	1101	hgsc.bcm.edu	hg19	17	48545565	48545565	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CHAD	NM_001267	exon1	c.A610G	p.R204G	GGTTCCTGTCCAC	.	131.0	33.0	88.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	hg19	17	78178935	78178935	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CARD14	NM_024110	exon18	c.C2500A	p.P834T	CTCGTGCCCAGGG	.	96.0	32.0	70.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	hg19	18	13105009	13105009	+	Silent	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CEP192	NM_032142	exon40	c.T6978C	p.F2326F	TGTTTTTAGAGCT	.	71.0	28.0	115.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	hg19	18	43481032	43481032	+	Silent	SNP	A	A	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	EPG5	NM_020964	exon26	c.T4575G	p.A1525A	TAGCACAGCAGAG	.	60.0	20.0	74.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
SLC44A2	57153	hgsc.bcm.edu	hg19	19	10742023	10742023	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SLC44A2	NM_020428	exon6	c.T403G	p.Y135D	GAGTACTATAAGC	.	60.0	23.0	50.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
FBL	2091	hgsc.bcm.edu	hg19	19	40330883	40330883	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	FBL	NM_001436	exon4	c.T368G	p.V123G	ATCGAGACTCTCT	.	112.0	13.0	103.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
XRN2	22803	hgsc.bcm.edu	hg19	20	21321426	21321426	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	XRN2	NM_012255	exon15	c.C1346G	p.P449R	ATTCACCAGGTTC	.	175.0	54.0	130.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
SRSF6	6431	hgsc.bcm.edu	hg19	20	42088517	42088517	+	Silent	SNP	C	C	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SRSF6	NM_006275	exon3	c.C363T	p.C121C	TCGGTGCAGTTGG	.	128.0	38.0	131.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
CBLN4	140689	hgsc.bcm.edu	hg19	20	54579177	54579177	+	Silent	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CBLN4	NM_080617	exon1	c.C51T	p.V17V	CGTGAGGACCAGC	.	40.0	11.0	27.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
CSTF1	1477	hgsc.bcm.edu	hg19	20	54972276	54972276	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CSTF1	NM_001033522	exon3	c.T183G	p.D61E	AAACGATGACACC	.	107.0	53.0	124.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	hg19	20	62322275	62322275	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	RTEL1	NM_032957	exon27	c.G2603A	p.R868Q	AACAGCGGGCGGG	.	104.0	39.0	81.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
PTTG1IP	754	hgsc.bcm.edu	hg19	21	46285323	46285323	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PTTG1IP	NM_004339	exon2	c.T155C	p.L52P	TTCTTCAGGCACT	.	45.0	17.0	65.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	hg19	22	18369959	18369959	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	MICAL3	NM_015241	exon15	c.A2044G	p.R682G	TCTTTCTCCTCTT	.	128.0	47.0	137.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
RGL4	266747	hgsc.bcm.edu	hg19	22	24036113	24036113	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	RGL4	NM_153615	exon4	c.G864C	p.R288S	CATGAGGGCCCGG	.	117.0	33.0	146.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC117	150275	hgsc.bcm.edu	hg19	22	29182126	29182126	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CCDC117	NM_173510	exon5	c.C652G	p.L218V	GAACTCCTTTCTG	.	156.0	68.0	165.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
TMPRSS6	164656	hgsc.bcm.edu	hg19	22	37471189	37471189	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TMPRSS6	NM_153609	exon11	c.A1355G	p.Y452C	TGGTTGTACAAGC	.	96.0	42.0	113.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
EP300	2033	hgsc.bcm.edu	hg19	22	41572322	41572322	+	Silent	SNP	T	T	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	EP300	NM_001429	exon30	c.T4851C	p.P1617P	TGATCCTCTCATC	.	90.0	34.0	84.0	0.0	.	367	.	.	.	none	.	.	PASS	Atlas-SNP
RBM10	8241	hgsc.bcm.edu	hg19	X	47030585	47030585	+	Missense_Mutation	SNP	T	T	G	rs377667483		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	RBM10	NM_001204468	exon4	c.T555G	p.D185E	GGAGGATGAGGAG	.	68.0	4.0	54.0	0.0	.	117	.	.	.	weak	.	.	PASS	Atlas-SNP
SHROOM4	57477	hgsc.bcm.edu	hg19	X	50378467	50378467	+	Silent	SNP	A	A	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SHROOM4	NM_020717	exon4	c.T606C	p.C202C	AAGGGCACAGTCA	.	84.0	70.0	109.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
CENPI	2491	hgsc.bcm.edu	hg19	X	100375404	100375404	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CENPI	NM_006733	exon6	c.G605C	p.C202S	ATGTTTGCCATTT	.	189.0	139.0	198.0	1.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
RAP1GDS1	5910	hgsc.bcm.edu	hg19	4	99363256	99363257	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	RAP1GDS1	NM_001100426	exon15	c.1814_1815del	p.605_605del	.	.	45.0	12.0	65.0	0.0	.	61	.	0.266667	0	none	.	.	PASS	Atlas-INDEL
NEK2	4751	hgsc.bcm.edu	hg19	1	211836794	211836794	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	NEK2	NM_002497	exon8	c.1313delG	p.S438fs	.	.	96.0	41.0	113.0	0.0	.	49	.	0.427083	0	none	.	.	PASS	Atlas-Indel,Pindel
IRF2BP1	26145	hgsc.bcm.edu	hg19	19	46387877	46387878	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	IRF2BP1	NM_015649	exon1	c.1156_1157insC	p.E386fs	.	.	46.0	16.0	43.0	0.0	.	23	.	0.347826	0	none	.	.	PASS	Atlas-Indel,Pindel
SCGB2B2	284402	hgsc.bcm.edu	hg19	19	35085225	35085226	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	.	NM_001025591	exon2	c.101_102del	p.34_34del	.	.	87.0	34.0	97.0	0.0	.	.	.	0.390805	0	none	.	.	PASS	Atlas-Indel,Pindel
TAF2	6873	hgsc.bcm.edu	hg19	8	120831745	120831745	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	TAF2	NM_003184	exon3	c.141delA	p.G47fs	.	.	46.0	20.0	42.0	0.0	.	204	.	0.434783	0	none	.	.	PASS	Atlas-Indel,Pindel
CSMD1	64478	hgsc.bcm.edu	hg19	8	4494878	4494878	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CSMD1	NM_033225	exon2	c.289delA	p.N97fs	.	.	71.0	23.0	78.0	0.0	.	1469	.	0.323944	0	none	.	.	PASS	Atlas-Indel,Pindel
SHPK	23729	hgsc.bcm.edu	hg19	17	3539502	3539525	+	Frame_Shift_Del	DEL	CCGCGCAGCCATTATCTCCCTGAC	CCGCGCAGCCATTATCTCCCTGAC	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	CCGCGCAGCCATTATCTCCCTGAC	CCGCGCAGCCATTATCTCCCTGAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SHPK	NM_013276	wholegene	.	.	.	.	184.0	14.0	139.0	0.0	.	34	.	0.076087	0	none	.	.	PASS	Atlas-Indel,Pindel
CCRN4L	25819	hgsc.bcm.edu	hg19	4	139965852	139965871	+	Frame_Shift_Del	DEL	GAAAGGAAATGTCTCATCCT	GAAAGGAAATGTCTCATCCT	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	GAAAGGAAATGTCTCATCCT	GAAAGGAAATGTCTCATCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CCRN4L	NM_012118	exon3	c.519_538del	p.173_180del	.	.	113.0	30.0	159.0	0.0	.	22	.	0.265487	0	none	.	.	PASS	Atlas-Indel,Pindel
CRYBA1	1411	hgsc.bcm.edu	hg19	17	27580671	27580672	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CRYBA1	NM_005208	exon5	c.371_372insT	p.S124fs	.	.	210.0	126.0	156.0	0.0	.	15	.	0.6	0	none	.	.	PASS	Atlas-Indel,Pindel
CHST2	9435	hgsc.bcm.edu	hg19	3	142840258	142840258	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CHST2	NM_004267	exon2	c.599delT	p.V200fs	.	.	167.0	110.0	129.0	0.0	.	67	.	0.658683	0	none	.	.	PASS	Atlas-INDEL
ARSE	415	hgsc.bcm.edu	hg19	X	2867593	2867593	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	ARSE	NM_000047	exon6	c.607delG	p.V203fs	.	.	139.0	105.0	151.0	0.0	.	43	.	0.755396	0	none	.	.	PASS	Atlas-Indel,Pindel
PLXNA3	55558	hgsc.bcm.edu	hg19	X	153695615	153695615	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	PLXNA3	NM_017514	exon19	c.3241delG	p.A1081fs	.	.	44.0	31.0	42.0	0.0	.	156	.	0.704545	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC12A7	10723	hgsc.bcm.edu	hg19	5	1087036	1087036	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	SLC12A7	NM_006598	exon6	c.658delA	p.T220fs	.	.	223.0	59.0	312.0	0.0	.	97	.	0.265	.	none	.	.	PASS	Pindel
CHST2	9435	hgsc.bcm.edu	hg19	3	142840256	142840258	+	In_Frame_Del	DEL	GTA	GTA	-	novel		TCGA-B9-A8YH-01A-11D-A36X-10	TCGA-B9-A8YH-10A-01D-A370-10	GTA	GTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6e6bab9a-ad14-4f30-93d9-00dede084e9c	60ce4360-70f6-4ad0-9057-9fe7428603f7	.	CHST2	NM_004267	exon2	c.597_599del	p.199_200del	.	.	167.0	62.0	134.0	0.0	.	67	.	0.371	.	none	.	.	PASS	Pindel
