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
PTCHD2	57540	hgsc.bcm.edu	hg19	1	11561256	11561256	+	Silent	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PTCHD2	NM_020780	exon2	c.C207T	p.T69T	CTTCACCAATCCG	.	75.0	29.0	76.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	hg19	1	18808064	18808064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	KLHDC7A	NM_152375	exon1	c.C589T	p.P197S	GAGCATCCAGGAC	.	27.0	6.0	37.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
SNRNP40	9410	hgsc.bcm.edu	hg19	1	31744229	31744229	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SNRNP40	NM_004814	exon6	c.A772T	p.T258S	TACCTGTATTGTC	.	31.0	7.0	29.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	hg19	1	43649431	43649431	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	WDR65	NM_152498	exon4	c.C644A	p.T215N	TTGGCACTGACAC	.	95.0	36.0	112.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
BTBD19	149478	hgsc.bcm.edu	hg19	1	45278737	45278737	+	Splice_Site	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	BTBD19	NM_001136537	exon5	c.483+1G>T	.	AGCCAGGTACTGC	.	50.0	14.0	67.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
HMGCS2	3158	hgsc.bcm.edu	hg19	1	120300026	120300026	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HMGCS2	NM_005518	exon5	c.C886T	p.Q296X	TGTACTGTAAATC	.	74.0	20.0	92.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	hg19	1	156876561	156876561	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PEAR1	NM_001080471	exon6	c.G533T	p.C178F	AGCCCTGTACCCC	.	101.0	39.0	132.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
TADA1	117143	hgsc.bcm.edu	hg19	1	166838685	166838685	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TADA1	NM_053053	exon3	c.C229G	p.P77A	TACCTGGTGTAGA	.	60.0	25.0	77.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY10	55811	hgsc.bcm.edu	hg19	1	167871039	167871039	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ADCY10	NM_018417	exon5	c.T297A	p.D99E	CAGTGCATCACCT	.	62.0	18.0	59.0	0.0	.	175	.	.	.	none	.	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	hg19	1	171526383	171526383	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	NM_015172	exon19	c.G5126T	p.W1709L	AGGTCTGGAACAA	.	71.0	22.0	119.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ARPC5	10092	hgsc.bcm.edu	hg19	1	183604774	183604774	+	Silent	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ARPC5	NM_005717	exon1	c.G21T	p.S7S	GGCCGACGACACT	.	71.0	20.0	69.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	186101461	186101461	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HMCN1	NM_031935	exon86	c.A13232C	p.N4411T	CATAGAATGAAGA	.	61.0	18.0	73.0	0.0	.	797	.	.	.	none	.	.	PASS	Atlas-SNP
TMCC2	9911	hgsc.bcm.edu	hg19	1	205211011	205211011	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TMCC2	NM_014858	exon2	c.C586A	p.H196N	AGCCCTCACCTGC	.	25.0	12.0	32.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
TSPYL6	388951	hgsc.bcm.edu	hg19	2	54482228	54482228	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TSPYL6	NM_001003937	exon1	c.T1061A	p.F354Y	TCTGAAAACCAGG	.	73.0	25.0	87.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
FANCL	55120	hgsc.bcm.edu	hg19	2	58425781	58425781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	FANCL	NM_018062	exon7	c.C488T	p.P163L	TAATCTGGTGATT	.	181.0	51.0	207.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
EHBP1	23301	hgsc.bcm.edu	hg19	2	63175859	63175859	+	Silent	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	EHBP1	NM_015252	exon14	c.A1983G	p.G661G	CTCTGGAAGGACT	.	87.0	24.0	105.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
RNF181	51255	hgsc.bcm.edu	hg19	2	85823986	85823986	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	RNF181	NM_016494	exon3	c.G259A	p.E87K	GAGGAGGAGACTG	.	46.0	14.0	92.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
RNF181	51255	hgsc.bcm.edu	hg19	2	85823987	85823987	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	RNF181	NM_016494	exon3	c.A260C	p.E87A	AGGAGGAGACTGC	.	46.0	14.0	92.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179426840	179426840	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TTN	NM_001267550	exon326	c.A84019T	p.T28007S	CTCTAGTTGTCTC	.	85.0	21.0	90.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
PMS1	5378	hgsc.bcm.edu	hg19	2	190717495	190717495	+	Missense_Mutation	SNP	A	A	T	rs375164425	alternate_allele	TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PMS1	NM_001128144	exon7	c.A814T	p.I272F	AAAGATATCTTAA	.	190.0	69.0	226.0	0.0	.	78	.	.	.	alt	.	.	PASS	Atlas-SNP
GLS	2744	hgsc.bcm.edu	hg19	2	191797508	191797508	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	GLS	NM_001256310	exon15	c.A1717G	p.K573E	GTATGGAAAAAAG	.	50.0	16.0	73.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
STAT1	6772	hgsc.bcm.edu	hg19	2	191873805	191873805	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	STAT1	NM_007315	exon4	c.G157C	p.A53P	TGGTGGCAAATGA	.	69.0	16.0	78.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
DNPEP	23549	hgsc.bcm.edu	hg19	2	220251040	220251040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DNPEP	NM_012100	exon5	c.G427A	p.D143N	TCAGGTCACGGTC	.	85.0	21.0	79.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SLC19A3	80704	hgsc.bcm.edu	hg19	2	228566972	228566972	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SLC19A3	NM_025243	exon2	c.A63G	p.L21L	ACCAAATAAGCAG	.	77.0	27.0	59.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
UGT1A5	54579	hgsc.bcm.edu	hg19	2	234622288	234622288	+	Silent	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	UGT1A5	NM_019078	exon1	c.T651G	p.P217P	CTACCCTCTGGCC	.	102.0	39.0	108.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	hg19	3	1337389	1337389	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CNTN6	NM_014461	exon6	c.G559C	p.E187Q	AAAGTGGAACCAT	.	116.0	39.0	120.0	0.0	.	245	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNB1	5364	hgsc.bcm.edu	hg19	3	48463585	48463585	+	Silent	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PLXNB1	NM_001130082	exon6	c.T1449C	p.A483A	GTGCTGAGCACAG	.	65.0	26.0	71.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
ROBO2	6092	hgsc.bcm.edu	hg19	3	77626674	77626674	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ROBO2	NM_002942	exon15	c.T2237C	p.L746P	CTGTACTGACAGT	.	216.0	77.0	202.0	0.0	.	527	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC5	10057	hgsc.bcm.edu	hg19	3	183639163	183639163	+	Silent	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ABCC5	NM_005688	exon30	c.C4239G	p.V1413V	CAGAAGGACCGAT	.	160.0	55.0	206.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	hg19	4	3447058	3447058	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HGFAC	NM_001528	exon9	c.C1083A	p.Y361X	GGAGTACTGCCGC	.	91.0	38.0	107.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
RBM47	54502	hgsc.bcm.edu	hg19	4	40440004	40440004	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	RBM47	NM_001098634	exon4	c.G907A	p.G303S	CAGTGCCGTTGAG	.	44.0	21.0	49.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL8	57563	hgsc.bcm.edu	hg19	4	88091657	88091657	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	KLHL8	NM_020803	exon7	c.G1319T	p.W440L	GTACTCCACTGAT	.	337.0	82.0	358.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
ETFDH	2110	hgsc.bcm.edu	hg19	4	159627888	159627888	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ETFDH	NM_004453	exon12	c.G1576T	p.G526C	CTGAGTGGTACTA	.	60.0	18.0	63.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
GALNT7	51809	hgsc.bcm.edu	hg19	4	174213365	174213365	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	GALNT7	NM_017423	exon3	c.A694C	p.K232Q	GTAATTAAAAGGA	.	151.0	53.0	176.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
PPIP5K2	23262	hgsc.bcm.edu	hg19	5	102509564	102509564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PPIP5K2	NM_015216	exon20	c.A2417G	p.Y806C	TTAGGTATTCTAG	.	36.0	12.0	38.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
IK	3550	hgsc.bcm.edu	hg19	5	140034273	140034273	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	IK	NM_006083	exon8	c.G598T	p.E200X	AAAGATGAGGATC	.	277.0	105.0	362.0	1.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
RANBP9	10048	hgsc.bcm.edu	hg19	6	13639868	13639868	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	RANBP9	NM_005493	exon9	c.A1452G	p.P484P	CATACTTGGACTA	.	86.0	36.0	97.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
FAM8A1	51439	hgsc.bcm.edu	hg19	6	17601243	17601243	+	Silent	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	FAM8A1	NM_016255	exon1	c.C603A	p.G201G	CGCGGGCCTGGGA	.	23.0	8.0	21.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
KDM1B	221656	hgsc.bcm.edu	hg19	6	18166565	18166565	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	KDM1B	NM_153042	exon6	c.C373G	p.P125A	ACCGAACCTAGTC	.	124.0	50.0	132.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H2BB	3018	hgsc.bcm.edu	hg19	6	26043884	26043884	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HIST1H2BB	NM_021062	exon1	c.T2C	p.M1T	TCAGGCATTGCTA	.	34.0	15.0	40.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF391	346157	hgsc.bcm.edu	hg19	6	27368767	27368767	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZNF391	NM_001076781	exon3	c.T618C	p.T206T	AAGCACTAACCTT	.	48.0	20.0	61.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A7	10864	hgsc.bcm.edu	hg19	6	43266308	43266308	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	SLC22A7,NS,carcinoma,0,1	SLC22A7	NM_006672	exon1	c.G212T	p.R71L	TTCCCCGGGAGCC	.	24.0	11.0	46.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
DDO	8528	hgsc.bcm.edu	hg19	6	110726039	110726039	+	Silent	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DDO	NM_003649	exon4	c.T480C	p.F160F	CTGACCAAACACA	.	105.0	47.0	145.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	hg19	6	151907203	151907203	+	Silent	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	NM_025059	exon7	c.C1272T	p.N424N	AGACAACTTGAAT	.	66.0	24.0	72.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MAS1	4142	hgsc.bcm.edu	hg19	6	160328746	160328746	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	MAS1	NM_002377	exon1	c.G759T	p.E253D	CTATGAGTATTGG	.	110.0	47.0	110.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
IGF2BP3	10643	hgsc.bcm.edu	hg19	7	23352352	23352352	+	Splice_Site	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	IGF2BP3	NM_006547	exon15	c.1641+2C>T	.	CCACTTGCCTGGC	.	237.0	117.0	185.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
IGF2BP3	10643	hgsc.bcm.edu	hg19	7	23352353	23352353	+	Splice_Site	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	IGF2BP3	NM_006547	exon15	c.1641+1G>A	.	CACTTGCCTGGCA	.	237.0	120.0	184.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
GATS	352954	hgsc.bcm.edu	hg19	7	99821281	99821281	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	GATS	NM_178831	exon4	c.C452T	p.S151L	TCTGATGACAACG	.	408.0	90.0	378.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
SRRT	51593	hgsc.bcm.edu	hg19	7	100482162	100482162	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SRRT	NM_001128853	exon7	c.G931A	p.D311N	AAGGAAGACGGCA	.	234.0	62.0	163.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
CPED1	79974	hgsc.bcm.edu	hg19	7	120935571	120935571	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	NM_024913	exon23	c.T2946C	p.Y982Y	AAGATATTTCAGC	.	117.0	31.0	114.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	hg19	8	1626467	1626467	+	Silent	SNP	G	G	T	rs149482724	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DLGAP2	NM_004745	exon9	c.G2136T	p.T712T	CACCACGGAGGAC	.	98.0	9.0	96.0	0.0	.	292	.	.	.	alt	G|0.999;A|0.001	.	PASS	Atlas-SNP
SPAG11B	10407	hgsc.bcm.edu	hg19	8	7308713	7308713	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SPAG11B	NM_016512	exon3	c.T223C	p.S75P	GGTGAGAGATGTG	.	507.0	146.0	420.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	hg19	8	23305329	23305329	+	Silent	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ENTPD4	NM_004901	exon4	c.G276C	p.V92V	GTCCACCACGATC	.	153.0	77.0	110.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF395	55893	hgsc.bcm.edu	hg19	8	28206326	28206326	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZNF395	NM_018660	exon10	c.G1452C	p.K484N	GCACTTCTTAGCC	.	82.0	21.0	86.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ADAM32	203102	hgsc.bcm.edu	hg19	8	39080665	39080665	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ADAM32	NM_145004	exon14	c.T1433G	p.I478S	CTTTAATCAATGG	.	87.0	27.0	66.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf152	401546	hgsc.bcm.edu	hg19	9	112963539	112963539	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	C9orf152	NM_001012993	exon2	c.C409T	p.Q137X	GTACTTGATGACT	.	30.0	11.0	62.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
OR1L1	26737	hgsc.bcm.edu	hg19	9	125424669	125424669	+	Silent	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	OR1L1	NM_001005236	exon1	c.T675G	p.V225V	CACTGTTCTGAAG	.	80.0	31.0	113.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
PHYHD1	254295	hgsc.bcm.edu	hg19	9	131702760	131702760	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PHYHD1	NM_174933	exon9	c.C548A	p.S183Y	GTTCATCCCTGGC	.	61.0	26.0	58.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF22	7570	hgsc.bcm.edu	hg19	10	45499114	45499114	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZNF22	NM_006963	exon2	c.C298T	p.Q100X	CTCATTCAGCATC	.	32.0	8.0	42.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ADK	132	hgsc.bcm.edu	hg19	10	75911070	75911070	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ADK	NM_001202450	exon1	c.A34C	p.K12Q	CCCAAAAAGCTGA	.	105.0	32.0	81.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
CCSER2	54462	hgsc.bcm.edu	hg19	10	86185593	86185593	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CCSER2	NM_018999	exon5	c.T1812G	p.H604Q	GGAGCATTACCAC	.	60.0	19.0	100.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
RBM20	282996	hgsc.bcm.edu	hg19	10	112572059	112572059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	RBM20	NM_001134363	exon9	c.C1904A	p.S635Y	CGCGGTCTCGTAG	.	28.0	12.0	32.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
FCHSD2	9873	hgsc.bcm.edu	hg19	11	72552500	72552500	+	Silent	SNP	G	G	A	rs201269620		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	FCHSD2_ENST00000409418,NS,carcinoma,0,6	FCHSD2	NM_014824	exon18	c.C2055T	p.N685N	CTTACCGTTTGCT	.	78.0	32.0	100.0	0.0	.	106	.	.	.	weak	G|0.998;A|0.002	0.002	PASS	Atlas-SNP
PCF11	51585	hgsc.bcm.edu	hg19	11	82877707	82877707	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	PCF11_ENST00000298281,NS,carcinoma,0,2	PCF11	NM_015885	exon5	c.A1768G	p.S590G	TGGCAAAGTTCCA	.	159.0	38.0	192.0	0.0	.	220	.	.	.	none	.	.	PASS	Atlas-SNP
VAMP1	6843	hgsc.bcm.edu	hg19	12	6574108	6574108	+	Splice_Site	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	VAMP1,NS,carcinoma,0,1	VAMP1	NM_016830	exon5	c.289-1G>A	.	CATCATCTGAGGA	.	30.0	12.0	35.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	hg19	12	14577946	14577946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ATF7IP	NM_018179	exon2	c.A1097G	p.E366G	CTCCTGAAAATGA	.	58.0	33.0	56.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	hg19	12	41967250	41967250	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PDZRN4	NM_001164595	exon10	c.A2669C	p.K890T	AATGGAAGGTGAA	.	51.0	31.0	37.0	0.0	.	346	.	.	.	none	.	.	PASS	Atlas-SNP
PPHLN1	51535	hgsc.bcm.edu	hg19	12	42768782	42768782	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	PPHLN1	NM_201515	exon6	c.T438C	p.D146D	AAAGGATTCTCCA	.	201.0	108.0	152.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
SLC38A2	54407	hgsc.bcm.edu	hg19	12	46756297	46756297	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SLC38A2	NM_018976	exon14	c.G1304C	p.R435T	ATATCCCTAATAG	.	210.0	55.0	157.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D15	64786	hgsc.bcm.edu	hg19	12	72274296	72274296	+	Silent	SNP	T	T	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TBC1D15	NM_001146214	exon5	c.T276C	p.G92G	AAGAGGTCATCGA	.	224.0	111.0	158.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	hg19	13	111090980	111090980	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	COL4A2,NS,carcinoma,0,1	COL4A2	NM_001846	exon15	c.G877A	p.G293R	TTGAAGGGAGAAG	.	66.0	20.0	83.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
ZFP36L1	677	hgsc.bcm.edu	hg19	14	69259682	69259682	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZFP36L1	NM_001244701	exon2	c.C181T	p.R61C	AGGGGCGAGGATC	.	26.0	13.0	26.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	hg19	14	96783528	96783528	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ATG2B	NM_018036	exon20	c.T3164C	p.L1055P	TTCAGAAGAACTG	.	97.0	41.0	108.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
EID1	23741	hgsc.bcm.edu	hg19	15	49170567	49170567	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	EID1	NM_014335	exon1	c.C194A	p.P65Q	CCCAGCCAATGGC	.	49.0	14.0	60.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
MYO5C	55930	hgsc.bcm.edu	hg19	15	52517329	52517329	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	MYO5C	NM_018728	exon27	c.T3308C	p.M1103T	TCTGACATCTTTT	.	45.0	17.0	70.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC64B	146439	hgsc.bcm.edu	hg19	16	3078253	3078253	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CCDC64B	NM_001103175	exon9	c.G1381C	p.G461R	GCTGCCCGATCAC	.	10.0	6.0	0.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
SPIRE2	84501	hgsc.bcm.edu	hg19	16	89929899	89929899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	SPIRE2	NM_032451	exon11	c.G1591A	p.V531M	CACCCCGTGGAGA	.	39.0	23.0	40.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
DHRS13	147015	hgsc.bcm.edu	hg19	17	27229847	27229847	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DHRS13	NM_144683	exon1	c.C116G	p.A39G	ACCACGGCCGTGC	.	6.0	5.0	2.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
HGS	9146	hgsc.bcm.edu	hg19	17	79663907	79663907	+	Silent	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HGS	NM_004712	exon18	c.C1761A	p.A587A	ACCAGCCAGCTTC	.	43.0	15.0	29.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGDIA	396	hgsc.bcm.edu	hg19	17	79827786	79827786	+	Silent	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ARHGDIA	NM_004309	exon2	c.A21C	p.T7T	CTCGGCTGTGGGC	.	50.0	14.0	45.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
TEX19	400629	hgsc.bcm.edu	hg19	17	80320408	80320408	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TEX19	NM_207459	exon2	c.G382T	p.E128X	CCTCAGGAGGCTG	.	91.0	37.0	77.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
NEDD4L	23327	hgsc.bcm.edu	hg19	18	56050535	56050535	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NEDD4L	NM_001144967	exon25	c.A2410T	p.K804X	GAAAACAAAAGGG	.	62.0	22.0	61.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
ARRDC5	645432	hgsc.bcm.edu	hg19	19	4891365	4891365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ARRDC5	NM_001080523	exon3	c.G722A	p.R241Q	GACCGCCGCTCTG	.	24.0	9.0	21.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
TSSK6	83983	hgsc.bcm.edu	hg19	19	19625679	19625679	+	Silent	SNP	G	G	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TSSK6	NM_032037	exon1	c.C558A	p.I186I	GTAGGGGATGCCC	.	21.0	7.0	14.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF681	148213	hgsc.bcm.edu	hg19	19	23927682	23927682	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZNF681	NM_138286	exon4	c.A670C	p.K224Q	ACGATTTCTCTCC	.	31.0	13.0	34.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
CD3EAP	10849	hgsc.bcm.edu	hg19	19	45912507	45912507	+	Silent	SNP	G	G	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CD3EAP	NM_012099	exon3	c.G1281A	p.K427K	GAAGAAGAAAGAG	.	85.0	30.0	90.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
NFAM1	150372	hgsc.bcm.edu	hg19	22	42781205	42781205	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NFAM1	NM_145912	exon6	c.G775T	p.D259Y	CATCATCTTCGAA	.	37.0	14.0	62.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
CXorf38	159013	hgsc.bcm.edu	hg19	X	40496278	40496278	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CXorf38	NM_144970	exon4	c.T602C	p.V201A	GAGTATACTGCCA	.	86.0	66.0	98.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
TSPYL2	64061	hgsc.bcm.edu	hg19	X	53112145	53112145	+	Silent	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	TSPYL2	NM_022117	exon1	c.G465C	p.A155A	GTGGGCGCCCCAG	.	54.0	43.0	77.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765164	66765164	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	AR	NM_000044	exon1	c.A176T	p.Q59L	TGCAGCAGCAGCA	.	66.0	13.0	71.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12980	12980	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	ENST00000361567	exon1	c.G644C	p.G215A	TACTAGGCCTCCT	.	167.0	146.0	11.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	14752	14752	+	Silent	SNP	C	C	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	ENST00000361789	exon1	c.C6T	p.T2T	AATGACCCCAATA	.	288.0	236.0	120.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	hg19	8	1626467	1626468	+	Frame_Shift_Ins	INS	-	-	GAGGACT	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DLGAP2	NM_004745	exon9	c.2136_2137insGAGGACT	p.T712fs	.	.	98.0	18.0	96.0	0.0	.	292	.	0.183673	0	none	.	.	PASS	Atlas-Indel,Pindel
KIAA0586	9786	hgsc.bcm.edu	hg19	14	58965662	58965663	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	KIAA0586	NM_001244189	exon29	c.4311_4312insT	p.Q1437fs	.	.	60.0	26.0	66.0	0.0	.	180	.	0.433333	0	none	.	.	PASS	Atlas-Indel,Pindel
HIVEP1	3096	hgsc.bcm.edu	hg19	6	12125716	12125716	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HIVEP1	NM_002114	exon4	c.5687delA	p.K1896fs	.	.	58.0	16.0	62.0	0.0	.	242	.	0.275862	0	none	.	.	PASS	Atlas-Indel,Pindel
NEDD4	4734	hgsc.bcm.edu	hg19	15	56207818	56207818	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NEDD4	NM_198400	exon1	c.1213delA	p.K405fs	.	.	98.0	37.0	119.0	0.0	.	167	.	0.377551	0	none	.	.	PASS	Atlas-Indel,Pindel
DIP2C	22982	hgsc.bcm.edu	hg19	10	459927	459927	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	DIP2C	NM_014974	exon8	c.984delC	p.G328fs	.	.	39.0	14.0	40.0	0.0	.	195	.	0.358974	0	none	.	.	PASS	Atlas-Indel,Pindel
NIPBL	25836	hgsc.bcm.edu	hg19	5	37024711	37024728	+	In_Frame_Del	DEL	AGAGTAATAAAGATTCTC	AGAGTAATAAAGATTCTC	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	AGAGTAATAAAGATTCTC	AGAGTAATAAAGATTCTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NIPBL	NM_015384	exon30	c.5598_5615del	p.1866_1872del	.	.	168.0	24.0	235.0	0.0	.	513	.	0.142857	0	none	.	.	PASS	Atlas-Indel,Pindel
NBPF6	653149	hgsc.bcm.edu	hg19	1	108995872	108995873	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NBPF6	NM_001143987	exon4	c.347_348del	p.116_116del	.	.	208.0	33.0	247.0	0.0	.	4	.	0.158654	0	none	.	.	PASS	Atlas-Indel,Pindel
ZFP64	55734	hgsc.bcm.edu	hg19	20	50701317	50701318	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	ZFP64	NM_199427	exon9	c.1717_1718insC	p.K573fs	.	.	27.0	12.0	52.0	0.0	.	240	.	0.444444	0	none	.	.	PASS	Atlas-INDEL
NUP43	348995	hgsc.bcm.edu	hg19	6	150059828	150059828	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NUP43	NM_198887	exon5	c.590delT	p.I197fs	.	.	76.0	30.0	51.0	0.0	.	32	.	0.394737	0	none	.	.	PASS	Atlas-Indel,Pindel
HIPK1	204851	hgsc.bcm.edu	hg19	1	114483624	114483626	+	In_Frame_Del	DEL	TGC	TGC	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	HIPK1	NM_152696	exon2	c.618_620del	p.206_207del	.	.	35.0	10.0	55.0	0.0	.	195	.	0.285714	0	none	.	.	PASS	Atlas-INDEL
MRPL23	6150	hgsc.bcm.edu	hg19	11	1972132	1972133	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	MRPL23	NM_021134	exon2	c.20_21del	p.7_7del	.	.	51.0	14.0	51.0	0.0	.	14	.	0.27451	0	none	.	.	PASS	Atlas-Indel,Pindel
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123277058	123277059	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	KIAA1109	NM_015312	exon81	c.14413_14414insA	p.E4805fs	.	.	92.0	35.0	101.0	0.0	.	424	.	0.380435	0	none	.	.	PASS	Atlas-Indel,Pindel
MED13L	23389	hgsc.bcm.edu	hg19	12	116418708	116418709	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	MED13L	NM_015335	exon23	c.5211_5212insA	p.K1737fs	.	.	93.0	18.0	53.0	0.0	.	193	.	0.193548	0	none	.	.	PASS	Atlas-Indel,Pindel
EMC4	51234	hgsc.bcm.edu	hg19	15	34519983	34519983	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	.	NM_016454	exon3	c.290delT	p.F97fs	.	.	84.0	21.0	98.0	0.0	.	.	.	0.25	0	none	.	.	PASS	Atlas-Indel,Pindel
CXorf22	170063	hgsc.bcm.edu	hg19	X	35994031	35994032	+	Splice_Site	INS	-	-	T	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	CXorf22	NM_152632	exon15	c.2713+1->T	.	.	.	35.0	18.0	39.0	0.0	.	272	.	0.514	.	none	.	.	PASS	Pindel
NBPF4	148545	hgsc.bcm.edu	hg19	1	108783712	108783713	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-SX-A71U-01A-12D-A33Q-10	TCGA-SX-A71U-10A-01D-A33Q-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d451356-8c58-451d-a6cf-223e76cae191	2c6bb397-d986-49b1-b1dc-1151c8aae19f	.	NBPF4	NM_001143989	exon4	c.353_354del	p.118_118del	.	.	266.0	33.0	273.0	0.0	.	4	.	0.124	.	none	.	.	PASS	Pindel
