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
MAN1C1	57134	hgsc.bcm.edu	hg19	1	25944335	25944335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	MAN1C1	NM_020379	exon1	c.G47A	p.G16E	CGTGGGGGCTGCG	.	53.0	20.0	69.0	0.0	.	48	.	.	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	hg19	1	155932460	155932460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ARHGEF2	NM_001162383	exon9	c.G1025A	p.C342Y	CGGCTGCAGAACT	.	287.0	22.0	181.0	0.0	.	81	.	.	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	hg19	1	156937793	156937793	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ARHGEF11	NM_198236	exon11	c.T949G	p.S317A	CGGTTGAGGGGAC	.	173.0	37.0	152.0	0.0	.	168	.	.	Atlas-SNP
FCRL5	83416	hgsc.bcm.edu	hg19	1	157494326	157494326	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	FCRL5	NM_031281	exon10	c.T1982A	p.L661H	AAGGTGAGGATGG	.	271.0	16.0	140.0	0.0	.	177	.	.	Atlas-SNP
SERPINC1	462	hgsc.bcm.edu	hg19	1	173880936	173880936	+	Splice_Site	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SERPINC1	NM_000488	exon4	c.624+1G>A	.	AACTCACCTTGAA	.	180.0	71.0	126.0	0.0	.	57	.	.	Atlas-SNP
NPL	80896	hgsc.bcm.edu	hg19	1	182794948	182794948	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NPL	NM_001200052	exon11	c.C686G	p.S229X	TGTTGTCAAACTA	.	44.0	5.0	20.0	0.0	.	55	.	.	Atlas-SNP
PFKFB2	5208	hgsc.bcm.edu	hg19	1	207241653	207241653	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PFKFB2	NM_001018053	exon10	c.C986T	p.A329V	TTGATGCTGTGAG	.	89.0	6.0	48.0	0.0	.	70	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	216040372	216040372	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	USH2A	NM_206933	exon44	c.T8822C	p.I2941T	ACGTCGATGGCTG	.	218.0	22.0	127.0	0.0	.	1168	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	216371756	216371756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	USH2A	NM_007123	exon18	c.G3982A	p.G1328S	CCAAGCCAGTGAT	.	191.0	13.0	115.0	0.0	.	1168	.	.	Atlas-SNP
EPRS	2058	hgsc.bcm.edu	hg19	1	220174520	220174520	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	EPRS	NM_004446	exon17	c.G2141T	p.G714V	TTTGACCCTGATG	.	249.0	65.0	123.0	0.0	.	140	.	.	Atlas-SNP
ACTN2	88	hgsc.bcm.edu	hg19	1	236850058	236850058	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ACTN2	NM_001103	exon1	c.G85A	p.D29N	GACCGCGACCTGC	.	157.0	11.0	92.0	0.0	.	191	.	.	Atlas-SNP
NLRP3	114548	hgsc.bcm.edu	hg19	1	247599337	247599337	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NLRP3	NM_004895	exon6	c.A2564G	p.H855R	CCAGCCATTCCCT	.	277.0	48.0	138.0	0.0	.	286	.	.	Atlas-SNP
OR1C1	26188	hgsc.bcm.edu	hg19	1	247921053	247921053	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	OR1C1	NM_012353	exon1	c.G656T	p.G219V	ATAAGTCCATAAG	.	180.0	39.0	119.0	0.0	.	86	.	.	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	hg19	2	33246001	33246001	+	Silent	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	LTBP1	NM_206943	exon3	c.T591C	p.N197N	TCAGAATGGAGGG	.	133.0	8.0	85.0	0.0	.	317	.	.	Atlas-SNP
SOS1	6654	hgsc.bcm.edu	hg19	2	39249927	39249927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SOS1	NM_005633	exon10	c.A1642G	p.S548G	GTGTACTCCGGTA	.	123.0	43.0	69.0	0.0	.	134	.	.	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	hg19	2	50464017	50464017	+	Silent	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	NRXN1_ENST00000536085,NS,carcinoma,0,3	NRXN1	NM_001135659	exon19	c.G3576T	p.L1192L	TATGGCCAGTCTG	.	268.0	71.0	196.0	1.0	.	1118	.	.	Atlas-SNP
B3GNT2	10678	hgsc.bcm.edu	hg19	2	62449528	62449528	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	B3GNT2	NM_006577	exon2	c.A173T	p.Y58F	AGGCATACTGGAA	.	115.0	12.0	101.0	0.0	.	34	.	.	Atlas-SNP
AUP1	550	hgsc.bcm.edu	hg19	2	74754135	74754135	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	AUP1	NM_181575	exon11	c.A1129G	p.K377E	AAGACTTGGCAAA	.	105.0	5.0	54.0	0.0	.	29	.	.	Atlas-SNP
IL1RL2	8808	hgsc.bcm.edu	hg19	2	102836404	102836404	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	IL1RL2	NM_003854	exon8	c.A918G	p.K306K	AGTGAAAATGGAA	.	156.0	65.0	93.0	0.0	.	118	.	.	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	hg19	2	121747481	121747481	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	GLI2	NM_005270	exon13	c.T3991A	p.S1331T	GCAGCCTCCATGA	.	181.0	10.0	162.0	0.0	.	187	.	.	Atlas-SNP
ACVR2A	92	hgsc.bcm.edu	hg19	2	148657133	148657133	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ACVR2A	NM_001616	exon3	c.C370T	p.Q124X	GTCACACAGCGTA	.	55.0	17.0	19.0	0.0	.	125	.	.	Atlas-SNP
NFE2L2	4780	hgsc.bcm.edu	hg19	2	178098968	178098968	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	NFE2L2,NS,carcinoma,-1,2	NFE2L2	NM_006164	exon2	c.A77C	p.Q26P	ATATCTTGCCTCC	.	64.0	4.0	34.0	0.0	.	225	.	.	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	hg19	2	189927932	189927932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	COL5A2	NM_000393	exon27	c.G1835A	p.G612E	ATGCTCCCGGGCT	.	41.0	14.0	19.0	0.0	.	230	.	.	Atlas-SNP
HIBCH	26275	hgsc.bcm.edu	hg19	2	191159323	191159323	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	HIBCH	NM_014362	exon4	c.A253G	p.I85V	TTATAATGATCAG	.	81.0	8.0	57.0	0.0	.	28	.	.	Atlas-SNP
STRADB	55437	hgsc.bcm.edu	hg19	2	202344880	202344880	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	STRADB	NM_018571	exon12	c.C1239T	p.D413D	AAAAGACTCATAC	.	144.0	7.0	85.0	0.0	.	33	.	.	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	hg19	2	220432567	220432567	+	Silent	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	OBSL1_ENST00000404537,NS,carcinoma,0,1	OBSL1	NM_001173431	exon3	c.G1407T	p.P469P	GATGACCGGCAGC	.	276.0	109.0	257.0	1.0	.	120	.	.	Atlas-SNP
TRIP12	9320	hgsc.bcm.edu	hg19	2	230632438	230632438	+	Silent	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	TRIP12	NM_004238	exon41	c.A5811T	p.T1937T	GACAATTGTCAAA	.	71.0	18.0	37.0	0.0	.	207	.	.	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	hg19	3	38138132	38138132	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DLEC1	NM_007337	exon15	c.A2244T	p.K748N	GGTGAAAGGCTCA	.	133.0	48.0	90.0	0.0	.	278	.	.	Atlas-SNP
SCN5A	6331	hgsc.bcm.edu	hg19	3	38622799	38622799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SCN5A	NM_001160160	exon17	c.G2851A	p.D951N	CCTCATCAGGGGC	.	316.0	29.0	219.0	0.0	.	634	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266110	41266110	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	CTNNB1,NS,carcinoma,0,1	CTNNB1	NM_001098209	exon3	c.A107C	p.H36P	GAATCCATTCTGG	.	283.0	83.0	182.0	0.0	.	4904	.	.	Atlas-SNP
DHX30	22907	hgsc.bcm.edu	hg19	3	47888778	47888778	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	DHX30,NS,malignant_melanoma,0,1	DHX30	NM_138615	exon12	c.G1945A	p.A649T	GAATGCGCACTCG	.	298.0	20.0	248.0	1.0	.	101	.	.	Atlas-SNP
ITIH1	3697	hgsc.bcm.edu	hg19	3	52824922	52824922	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ITIH1	NM_002215	exon20	c.A2479G	p.T827A	GCCCGGACGCACG	.	152.0	45.0	152.0	0.0	.	108	.	.	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	hg19	3	122418685	122418685	+	Silent	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PARP14	NM_017554	exon6	c.A1284T	p.T428T	TGATACACTTAAG	.	140.0	31.0	87.0	0.0	.	242	.	.	Atlas-SNP
ITGB5	3693	hgsc.bcm.edu	hg19	3	124592297	124592297	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ITGB5	NM_002213	exon2	c.A152G	p.K51R	ACCTCTTTGGAGC	.	172.0	9.0	147.0	0.0	.	66	.	.	Atlas-SNP
ATP13A5	344905	hgsc.bcm.edu	hg19	3	193029676	193029676	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	ATP13A5,NS,carcinoma,0,1	ATP13A5	NM_198505	exon20	c.T2374C	p.C792R	GGTAACAGCTTCC	.	176.0	29.0	92.0	0.0	.	171	.	.	Atlas-SNP
LRRC33	375387	hgsc.bcm.edu	hg19	3	196387008	196387008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	LRRC33	NM_198565	exon3	c.C494T	p.A165V	CCCTGGCGGGGAA	.	93.0	50.0	70.0	0.0	.	91	.	.	Atlas-SNP
PDCL2	132954	hgsc.bcm.edu	hg19	4	56422846	56422846	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PDCL2	NM_152401	exon6	c.A604T	p.I202L	TCTGTATTGCTCC	.	87.0	25.0	72.0	0.0	.	21	.	.	Atlas-SNP
BBS7	55212	hgsc.bcm.edu	hg19	4	122747089	122747089	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	BBS7	NM_176824	exon19	c.A2074G	p.K692E	GTACTTTAGTTTT	.	37.0	10.0	18.0	0.0	.	61	.	.	Atlas-SNP
MARCH6	10299	hgsc.bcm.edu	hg19	5	10403536	10403536	+	Silent	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	MARCH6	NM_005885	exon15	c.T1215A	p.T405T	TGCTACTCTGAAA	.	176.0	12.0	108.0	0.0	.	89	.	.	Atlas-SNP
NUDT12	83594	hgsc.bcm.edu	hg19	5	102895039	102895039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NUDT12	NM_031438	exon3	c.G337A	p.E113K	CCACTTCATTCGT	.	143.0	35.0	67.0	0.0	.	27	.	.	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	hg19	5	127674670	127674670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	FBN2	NM_001999	exon26	c.T3427C	p.F1143L	CTTCGAAGCACTC	.	326.0	21.0	219.0	0.0	.	858	.	.	Atlas-SNP
PCDHGC3	5098	hgsc.bcm.edu	hg19	5	140856170	140856170	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	PCDHGC3_ENST00000308177,bladder,carcinoma,0,2	PCDHGC3	NM_032402	exon1	c.G487T	p.D163Y	GATCCCGATGTGG	.	274.0	27.0	197.0	2.0	.	173	.	.	Atlas-SNP
C1QTNF2	114898	hgsc.bcm.edu	hg19	5	159797621	159797621	+	Silent	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	C1QTNF2	NM_031908	exon1	c.G24T	p.P8P	GAGCGTCGGCCCC	.	39.0	14.0	18.0	0.0	.	33	.	.	Atlas-SNP
HK3	3101	hgsc.bcm.edu	hg19	5	176318451	176318451	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	HK3	NM_002115	exon3	c.C197T	p.A66V	GGGCTGGCCTGTC	.	143.0	11.0	110.0	0.0	.	210	.	.	Atlas-SNP
OR2Y1	134083	hgsc.bcm.edu	hg19	5	180166721	180166721	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	OR2Y1	NM_001001657	exon1	c.T338G	p.V113G	AGGAGCACACACT	.	141.0	13.0	105.0	0.0	.	49	.	.	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	hg19	6	27834746	27834746	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	HIST1H1B	NM_005322	exon1	c.A562G	p.K188E	GACTCTTGGTTGC	.	138.0	30.0	90.0	0.0	.	54	.	.	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	hg19	6	32036335	32036335	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	TNXB	NM_019105	exon17	c.C6052G	p.L2018V	GGACCAGGAAGTG	.	239.0	37.0	163.0	0.0	.	553	.	.	Atlas-SNP
NFYA	4800	hgsc.bcm.edu	hg19	6	41048594	41048594	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NFYA	NM_002505	exon3	c.G120A	p.Q40Q	GGCCCAGGTGGCA	.	134.0	42.0	70.0	0.0	.	33	.	.	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	hg19	6	44273478	44273478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	AARS2	NM_020745	exon10	c.C1346T	p.P449L	TCCAAGGGGAGTC	.	339.0	90.0	211.0	0.0	.	77	.	.	Atlas-SNP
DOPEY1	23033	hgsc.bcm.edu	hg19	6	83866961	83866961	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DOPEY1	NM_015018	exon35	c.T6665C	p.L2222P	TGTTCCTGTTTTT	.	106.0	7.0	78.0	0.0	.	190	.	.	Atlas-SNP
OLIG3	167826	hgsc.bcm.edu	hg19	6	137815097	137815097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	OLIG3	NM_175747	exon1	c.A211G	p.K71E	TGATTTTGTACTT	.	130.0	7.0	100.0	0.0	.	34	.	.	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	hg19	7	905675	905675	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SUN1	NM_001130965	exon16	c.T1951G	p.F651V	TGGTACTTCTCGC	.	189.0	87.0	82.0	0.0	.	157	.	.	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	hg19	7	4091432	4091432	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SDK1	NM_152744	exon19	c.A2881T	p.T961S	CCCAGCACACCTC	.	193.0	16.0	127.0	0.0	.	361	.	.	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	hg19	7	12409576	12409576	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	VWDE	NM_001135924	exon12	c.G2356T	p.D786Y	GTACATCCTCAGC	.	158.0	65.0	112.0	0.0	.	123	.	.	Atlas-SNP
LRRC72	100506049	hgsc.bcm.edu	hg19	7	16598540	16598540	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	NM_001195280	exon5	c.A343G	p.I115V	TTGCATATACTCC	.	300.0	69.0	158.0	0.0	.	.	.	.	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	hg19	7	18688299	18688299	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	HDAC9	NM_178425	exon10	c.T1460A	p.M487K	TCCACATGAACAA	.	144.0	42.0	78.0	0.0	.	560	.	.	Atlas-SNP
IGF2BP3	10643	hgsc.bcm.edu	hg19	7	23353255	23353255	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	IGF2BP3	NM_006547	exon13	c.T1413C	p.Y471Y	TTTTCCATAAATT	.	81.0	38.0	35.0	0.0	.	71	.	.	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	hg19	7	83643576	83643576	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SEMA3A	NM_006080	exon7	c.T759C	p.D253D	TTCTCCATCTATT	.	100.0	46.0	64.0	0.0	.	121	.	.	Atlas-SNP
PSMC2	5701	hgsc.bcm.edu	hg19	7	102988211	102988211	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PSMC2	NM_001204453	exon1	c.A53C	p.D18A	AGAAGGACGACAA	.	181.0	79.0	155.0	0.0	.	38	.	.	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	hg19	7	111517084	111517084	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DOCK4	NM_014705	exon18	c.1744+2T>C	.	TACATTACCATTT	.	87.0	6.0	41.0	0.0	.	365	.	.	Atlas-SNP
CADPS2	93664	hgsc.bcm.edu	hg19	7	122526154	122526154	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CADPS2	NM_001167940	exon1	c.G238C	p.E80Q	TCCGCTCCTGCTC	.	143.0	29.0	94.0	0.0	.	116	.	.	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	hg19	7	141764227	141764227	+	Silent	SNP	T	T	C	rs3087317		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	MGAM	NM_004668	exon37	c.T4389C	p.C1463C	CCTTTGTATGGAG	.	158.0	11.0	102.0	0.0	.	767	.	.	Atlas-SNP
PCM1	5108	hgsc.bcm.edu	hg19	8	17815276	17815276	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PCM1	NM_006197	exon13	c.A2032G	p.M678V	GTTGCTATGGTAC	.	69.0	8.0	98.0	0.0	.	120	.	.	Atlas-SNP
PDLIM2	64236	hgsc.bcm.edu	hg19	8	22442575	22442575	+	Missense_Mutation	SNP	T	T	A	rs2294049	byhapmap	TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PDLIM2	NM_021630	exon5	c.T1111A	p.S371T	AGGTCCTCCTACT	.	192.0	12.0	192.0	0.0	.	42	.	T|1.000;|0.000	Atlas-SNP
RBM12B	389677	hgsc.bcm.edu	hg19	8	94747568	94747568	+	Silent	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	RBM12B	NM_203390	exon3	c.A1071G	p.P357P	AGAAATTGGATCA	.	78.0	4.0	33.0	0.0	.	78	.	.	Atlas-SNP
POU5F1B	5462	hgsc.bcm.edu	hg19	8	128428181	128428181	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	POU5F1B	NM_001159542	exon1	c.G70T	p.G24W	CCATGGGGGGCGG	.	19.0	4.0	11.0	0.0	.	32	.	.	Atlas-SNP
PTP4A3	11156	hgsc.bcm.edu	hg19	8	142435203	142435203	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PTP4A3	NM_032611	exon2	c.A161T	p.D54V	CCTATGACAAAAC	.	127.0	26.0	69.0	0.0	.	19	.	.	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	hg19	9	94495598	94495598	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ROR2	NM_004560	exon6	c.C743G	p.P248R	TCACGCGGCTTGG	.	26.0	10.0	25.0	0.0	.	167	.	.	Atlas-SNP
OR13C8	138802	hgsc.bcm.edu	hg19	9	107331510	107331510	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	OR13C8	NM_001004483	exon1	c.C62A	p.P21Q	CCCACCCAAAGCT	.	55.0	11.0	51.0	0.0	.	77	.	.	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	hg19	9	131762026	131762026	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NUP188	NM_015354	exon34	c.A3785T	p.K1262M	AGGACAAGGACAG	.	138.0	9.0	136.0	0.0	.	140	.	.	Atlas-SNP
CHAT	1103	hgsc.bcm.edu	hg19	10	50863255	50863255	+	Silent	SNP	C	C	T	rs201580702	by1000genomes;alternate_allele	TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CHAT	NM_020549	exon12	c.C1749T	p.A583A	GAGAGCCGTGACT	.	192.0	61.0	120.0	0.0	.	162	.	C|0.999;G|0.001	Atlas-SNP
PLCE1	51196	hgsc.bcm.edu	hg19	10	95791740	95791740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PLCE1	NM_016341	exon2	c.G937A	p.D313N	GAAGAAGACGCTT	.	84.0	8.0	77.0	0.0	.	543	.	.	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	hg19	10	129216713	129216713	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DOCK1	NM_001380	exon45	c.G4537T	p.D1513Y	CACCTGGATGACC	.	96.0	33.0	77.0	0.0	.	188	.	.	Atlas-SNP
SLC22A18AS	5003	hgsc.bcm.edu	hg19	11	2920824	2920824	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SLC22A18AS	NM_007105	exon3	c.G108C	p.R36S	CCGCTTCCTCTGG	.	66.0	17.0	49.0	0.0	.	7	.	.	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	hg19	11	6566625	6566625	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DNHD1	NM_144666	exon21	c.A4456G	p.K1486E	CTGCCCAAGCAAA	.	181.0	47.0	156.0	0.0	.	198	.	.	Atlas-SNP
PIK3C2A	5286	hgsc.bcm.edu	hg19	11	17141377	17141377	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PIK3C2A	NM_002645	exon15	c.G2802A	p.W934X	TGCAGGCCACTGG	.	116.0	40.0	94.0	0.0	.	148	.	.	Atlas-SNP
CAPRIN1	4076	hgsc.bcm.edu	hg19	11	34101204	34101204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CAPRIN1	NM_203364	exon7	c.G718A	p.V240I	GAGCGTGTTTTTC	.	72.0	19.0	82.0	0.0	.	110	.	.	Atlas-SNP
ACCSL	390110	hgsc.bcm.edu	hg19	11	44073229	44073229	+	Silent	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ACCSL	NM_001031854	exon5	c.T732A	p.S244S	CTGCTCTGTCTTC	.	234.0	10.0	152.0	0.0	.	57	.	.	Atlas-SNP
SPI1	6688	hgsc.bcm.edu	hg19	11	47381502	47381502	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SPI1	NM_001080547	exon3	c.C235A	p.P79T	GCGGGGGCTGCAC	.	28.0	9.0	23.0	0.0	.	21	.	.	Atlas-SNP
SLC22A8	9376	hgsc.bcm.edu	hg19	11	62768191	62768191	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SLC22A8	NM_004254	exon4	c.437+1G>T	.	GTCTCACCTGTCA	.	184.0	8.0	125.0	0.0	.	60	.	.	Atlas-SNP
SPCS2	9789	hgsc.bcm.edu	hg19	11	74676881	74676881	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SPCS2	NM_014752	exon3	c.C272A	p.S91Y	CAATCTCCTGTTT	.	68.0	22.0	66.0	0.0	.	17	.	.	Atlas-SNP
NXPE2	120406	hgsc.bcm.edu	hg19	11	114577377	114577377	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	NM_182495	exon6	c.A1405C	p.I469L	ATCAATATTCAAA	.	147.0	8.0	125.0	0.0	.	.	.	.	Atlas-SNP
GPR19	2842	hgsc.bcm.edu	hg19	12	12815347	12815347	+	Silent	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	GPR19	NM_006143	exon4	c.A36G	p.P12P	CAAATGTGGCTTG	.	66.0	9.0	60.0	0.0	.	47	.	.	Atlas-SNP
CCDC91	55297	hgsc.bcm.edu	hg19	12	28459739	28459739	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CCDC91	NM_018318	exon4	c.A332G	p.K111R	ATGAAAAAAGTAA	.	77.0	28.0	52.0	0.0	.	63	.	.	Atlas-SNP
CAPRIN2	65981	hgsc.bcm.edu	hg19	12	30863308	30863308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CAPRIN2	NM_001002259	exon18	c.C2912T	p.T971I	ACAGGGGTCATGC	.	184.0	16.0	128.0	0.0	.	109	.	.	Atlas-SNP
GALNT6	11226	hgsc.bcm.edu	hg19	12	51758078	51758078	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	GALNT6	NM_007210	exon6	c.G876A	p.V292V	CACCACCACTGTC	.	219.0	65.0	174.0	0.0	.	63	.	.	Atlas-SNP
KRT3	3850	hgsc.bcm.edu	hg19	12	53189359	53189359	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	KRT3	NM_057088	exon1	c.C468T	p.G156G	AGGACTGCCCAAG	.	174.0	65.0	118.0	0.0	.	65	.	.	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	hg19	12	70988332	70988332	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PTPRB	NM_001109754	exon6	c.G1431A	p.G477G	GGTCAGCCCGTGA	.	290.0	82.0	222.0	0.0	.	676	.	.	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	hg19	12	101748856	101748856	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	UTP20	NM_014503	exon41	c.G5354T	p.G1785V	TAACCGGGGATAT	.	91.0	4.0	57.0	0.0	.	222	.	.	Atlas-SNP
ATP8A2	51761	hgsc.bcm.edu	hg19	13	26586735	26586735	+	Silent	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ATP8A2	NM_016529	exon36	c.C3444A	p.G1148G	CCGGGGCAGCTCC	.	61.0	35.0	38.0	0.0	.	181	.	.	Atlas-SNP
TEX26	122046	hgsc.bcm.edu	hg19	13	31549019	31549019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	NM_152325	exon7	c.G845A	p.C282Y	CTCACTGTGACAC	.	101.0	20.0	58.0	0.0	.	.	.	.	Atlas-SNP
KBTBD7	84078	hgsc.bcm.edu	hg19	13	41766715	41766715	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	KBTBD7	NM_032138	exon1	c.A1679G	p.Q560R	ACAATCTGGTAGT	.	187.0	52.0	155.0	0.0	.	60	.	.	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	hg19	13	42763420	42763420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DGKH	NM_001204504	exon16	c.G1887T	p.R629S	AGTGAGGCAAGTC	.	116.0	31.0	88.0	0.0	.	106	.	.	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	hg19	13	115052106	115052106	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	UPF3A	NM_080687	exon4	c.532+2T>C	.	CATTGGTCTGTTT	.	237.0	23.0	175.0	0.0	.	47	.	.	Atlas-SNP
RNF31	55072	hgsc.bcm.edu	hg19	14	24618693	24618693	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	RNF31	NM_017999	exon6	c.G710T	p.C237F	CCCTGTGTCCAGC	.	151.0	44.0	106.0	0.0	.	95	.	.	Atlas-SNP
GPR135	64582	hgsc.bcm.edu	hg19	14	59930690	59930690	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	GPR135,NS,carcinoma,0,1	GPR135	NM_022571	exon1	c.G1255T	p.G419C	CCGGGCCCTGGCT	.	88.0	30.0	87.0	1.0	.	26	.	.	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64457170	64457170	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SYNE2	NM_182914	exon20	c.A2355G	p.A785A	TATGGCAAGAAGT	.	144.0	18.0	139.0	0.0	.	577	.	.	Atlas-SNP
FLRT2	23768	hgsc.bcm.edu	hg19	14	86089799	86089799	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	FLRT2	NM_013231	exon2	c.C1941G	p.Y647X	GCGATACTGCAAC	.	94.0	6.0	92.0	0.0	.	168	.	.	Atlas-SNP
SNRPN	6638	hgsc.bcm.edu	hg19	15	25221503	25221503	+	Silent	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	SNRPN,NS,carcinoma,0,2	SNRPN	NM_022807	exon9	c.G207T	p.L69L	GGGTCTGGTGTTG	.	157.0	7.0	128.0	1.0	.	58	.	.	Atlas-SNP
SLC12A1	6557	hgsc.bcm.edu	hg19	15	48533795	48533795	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SLC12A1	NM_001184832	exon10	c.A1299G	p.V433V	TTGTGTAGGTAAG	.	167.0	58.0	100.0	0.0	.	243	.	.	Atlas-SNP
SHC4	399694	hgsc.bcm.edu	hg19	15	49254841	49254841	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SHC4	NM_203349	exon1	c.C372A	p.D124E	ACCTGGGTCCCGG	.	100.0	37.0	68.0	0.0	.	70	.	.	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	hg19	15	76994169	76994169	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SCAPER	NM_020843	exon19	c.G2438C	p.G813A	TTTCTCCCTTTAA	.	63.0	17.0	52.0	0.0	.	160	.	.	Atlas-SNP
RASGRF1	5923	hgsc.bcm.edu	hg19	15	79350802	79350802	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	RASGRF1	NM_001145648	exon3	c.G405A	p.E135E	CTCATGCTCTGTG	.	154.0	46.0	97.0	0.0	.	168	.	.	Atlas-SNP
AP3B2	8120	hgsc.bcm.edu	hg19	15	83357541	83357541	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	AP3B2	NM_004644	exon4	c.G307C	p.E103Q	GCTGCTCCTCAGC	.	170.0	31.0	152.0	0.0	.	103	.	.	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	hg19	16	20494379	20494379	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ACSM2A	NM_001010845	exon14	c.1510-1G>A	.	TTTGCAGGTGGTG	.	199.0	46.0	137.0	0.0	.	120	.	.	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	hg19	16	24834929	24834929	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	TNRC6A	NM_014494	exon25	c.T5690G	p.L1897R	CCGATCTCAATCA	.	138.0	27.0	122.0	0.0	.	171	.	.	Atlas-SNP
TGFB1I1	7041	hgsc.bcm.edu	hg19	16	31487440	31487440	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	TGFB1I1	NM_001042454	exon8	c.C822A	p.F274L	CCCCTTCTGCCCC	.	76.0	19.0	63.0	0.0	.	60	.	.	Atlas-SNP
PSKH1	5681	hgsc.bcm.edu	hg19	16	67943502	67943502	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PSKH1	NM_006742	exon2	c.G850T	p.G284C	GCGCTGGGCGTCA	.	130.0	38.0	104.0	0.0	.	28	.	.	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	hg19	16	70170122	70170122	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PDPR	NM_017990	exon10	c.G1023A	p.R341R	TCTGAGGAGGATG	.	158.0	7.0	148.0	0.0	.	66	.	.	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	hg19	17	4446343	4446343	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	MYBBP1A,right_upper_lobe,carcinoma,0,1	MYBBP1A	NM_014520	exon20	c.C2757T	p.T919T	GAGGGCGGTGGGG	.	85.0	7.0	54.0	0.0	.	69	.	.	Atlas-SNP
ZBTB4	57659	hgsc.bcm.edu	hg19	17	7370078	7370078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ZBTB4	NM_001128833	exon3	c.G43A	p.A15T	GGACGGCGGGGGC	.	45.0	13.0	40.0	0.0	.	163	.	.	Atlas-SNP
PER1	5187	hgsc.bcm.edu	hg19	17	8047144	8047144	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PER1	NM_002616	exon19	c.A2512G	p.K838E	TGGCTTTGGATCG	.	41.0	6.0	36.0	0.0	.	104	.	.	Atlas-SNP
SUPT6H	6830	hgsc.bcm.edu	hg19	17	27023949	27023949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SUPT6H	NM_003170	exon30	c.G4058A	p.G1353D	ACCAGGGTGATGT	.	265.0	91.0	183.0	0.0	.	165	.	.	Atlas-SNP
TEX2	55852	hgsc.bcm.edu	hg19	17	62248484	62248484	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	TEX2	NM_018469	exon7	c.T2668A	p.F890I	GCTTGAAGGCCTG	.	219.0	30.0	131.0	0.0	.	89	.	.	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	hg19	17	72342641	72342641	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	KIF19	NM_153209	exon8	c.G902T	p.S301I	GCGACAGCAAGCT	.	303.0	166.0	168.0	0.0	.	102	.	.	Atlas-SNP
ACTG1	71	hgsc.bcm.edu	hg19	17	79479128	79479128	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ACTG1	NM_001614	exon3	c.G164T	p.G55V	TCGTCGCCCACGT	.	68.0	16.0	43.0	0.0	.	55	.	.	Atlas-SNP
CEP76	79959	hgsc.bcm.edu	hg19	18	12699183	12699183	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CEP76	NM_024899	exon4	c.G315A	p.R105R	ATACCTCCGTGTT	.	104.0	24.0	65.0	0.0	.	45	.	.	Atlas-SNP
DSG4	147409	hgsc.bcm.edu	hg19	18	28971168	28971168	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DSG4	NM_001134453	exon7	c.A812C	p.K271T	TAGAGAAAACTTC	.	93.0	30.0	50.0	0.0	.	343	.	.	Atlas-SNP
DSG2	1829	hgsc.bcm.edu	hg19	18	29115251	29115251	+	Silent	SNP	T	T	C	rs367548984		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	DSG2	NM_001943	exon10	c.T1299C	p.D433D	AGAAGATAGAGAT	.	81.0	19.0	88.0	0.0	.	115	.	.	Atlas-SNP
RPRD1A	55197	hgsc.bcm.edu	hg19	18	33573185	33573185	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	RPRD1A	NM_018170	exon7	c.T868C	p.S290P	ATCGAGATAAGTC	.	127.0	40.0	101.0	0.0	.	30	.	.	Atlas-SNP
TUBB4A	10382	hgsc.bcm.edu	hg19	19	6495192	6495192	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	NM_006087	exon4	c.G1318C	p.E440Q	CCTCCTCCGCCTC	.	164.0	35.0	142.0	0.0	.	.	.	.	Atlas-SNP
TUBB4A	10382	hgsc.bcm.edu	hg19	19	6495193	6495193	+	Silent	SNP	C	C	G	rs201070507	bycluster;alternate_allele	TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	NM_006087	exon4	c.G1317C	p.A439A	CTCCTCCGCCTCC	.	165.0	38.0	142.0	0.0	.	.	.	C|0.999;T|0.001	Atlas-SNP
C3	718	hgsc.bcm.edu	hg19	19	6693493	6693493	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	C3	NM_000064	exon25	c.A3160G	p.T1054A	GCTGGGTGTACCC	.	40.0	21.0	29.0	0.0	.	192	.	.	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	hg19	19	22940609	22940609	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ZNF99	NM_001080409	exon4	c.G2102T	p.G701V	TTCTTTCCAGTAT	.	33.0	9.0	21.0	0.0	.	273	.	.	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	hg19	19	22940610	22940610	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ZNF99	NM_001080409	exon4	c.G2101T	p.G701X	TCTTTCCAGTATG	.	33.0	9.0	21.0	0.0	.	273	.	.	Atlas-SNP
SARS2	54938	hgsc.bcm.edu	hg19	19	39421333	39421333	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SARS2	NM_001145901	exon1	c.G44A	p.R15H	CCCCGACGAGTCA	.	67.0	33.0	56.0	0.0	.	33	.	.	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	hg19	19	44980916	44980916	+	Silent	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ZNF180	NM_013256	exon5	c.A1782T	p.V594V	CTGATGTACAACA	.	92.0	39.0	62.0	0.0	.	103	.	.	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	hg19	19	49573780	49573780	+	Missense_Mutation	SNP	G	G	A	rs376824241		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	KCNA7,NS,carcinoma,0,1	KCNA7	NM_031886	exon2	c.C911T	p.T304M	CGAAGCGTCTGGC	.	133.0	10.0	115.0	1.0	.	30	.	.	Atlas-SNP
ZNF347	84671	hgsc.bcm.edu	hg19	19	53644386	53644386	+	Silent	SNP	T	T	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	ZNF347,NS,carcinoma,0,1	ZNF347	NM_001172675	exon5	c.A1698T	p.G566G	TTTTTCTCCAGTA	.	104.0	6.0	90.0	0.0	.	87	.	.	Atlas-SNP
LENG8	114823	hgsc.bcm.edu	hg19	19	54967843	54967843	+	Silent	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	LENG8	NM_052925	exon11	c.C1474A	p.R492R	CGCAGTCGAAAGA	.	93.0	29.0	60.0	0.0	.	73	.	.	Atlas-SNP
SYT5	6861	hgsc.bcm.edu	hg19	19	55686689	55686689	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SYT5	NM_003180	exon6	c.G559T	p.G187W	TGCCCCCCAGCTC	.	56.0	12.0	35.0	0.0	.	45	.	.	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	hg19	20	33334661	33334661	+	Missense_Mutation	SNP	T	T	G	rs17092079	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NCOA6	NM_014071	exon10	c.A2864C	p.N955T	TCCAAGTTAATTC	.	58.0	6.0	59.0	0.0	.	219	.	T|0.927;C|0.073	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	hg19	20	50273555	50273555	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	ATP9A,colon,carcinoma,0,1	ATP9A	NM_006045	exon14	c.C1428A	p.N476K	CACACCGTTGGAC	.	209.0	22.0	152.0	0.0	.	135	.	.	Atlas-SNP
KRTAP6-3	337968	hgsc.bcm.edu	hg19	21	31964987	31964987	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	KRTAP6-3	NM_181605	exon1	c.G223C	p.G75R	TACAGAGGCCTGG	.	175.0	13.0	132.0	0.0	.	30	.	.	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	hg19	22	26706735	26706735	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	SEZ6L	NM_021115	exon7	c.C1614A	p.N538K	AGGCAACACCATC	.	194.0	58.0	182.0	0.0	.	174	.	.	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	hg19	22	29885446	29885446	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NEFH	NM_021076	exon4	c.C1817A	p.S606Y	CCAAGTCCCCAGT	.	217.0	61.0	155.0	0.0	.	178	.	.	Atlas-SNP
GRAMD4	23151	hgsc.bcm.edu	hg19	22	47073042	47073042	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	GRAMD4	NM_015124	exon18	c.1633-2A>T	.	CCTGCCAGCCGCT	.	93.0	6.0	71.0	0.0	.	53	.	.	Atlas-SNP
CHM	1121	hgsc.bcm.edu	hg19	X	85302520	85302520	+	Missense_Mutation	SNP	G	G	A	rs201252021		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	CHM	NM_001145414	exon1	c.C17T	p.P6L	TCCGAAGGGAGAG	.	188.0	117.0	154.0	0.0	.	57	.	.	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3434	3434	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	ENST00000361390	exon1	c.A128T	p.Y43F	GCCCCTACGGGCT	.	12.0	8.0	8.0	0.0	.	.	.	.	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	6321	6321	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	.	ENST00000361624	exon1	c.G418A	p.G140X	CACCCTGGAGCCT	.	37.0	10.0	7.0	0.0	.	.	.	.	Atlas-SNP
ALB	213	hgsc.bcm.edu	hg19	4	74283832	74283834	+	In_Frame_Del	DEL	GTG	GTG	-	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	GTG	GTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ALB	NM_000477	exon12	c.1455_1457del	p.485_486del	.	.	96.0	20.0	55.0	0.0	.	132	.	.	Atlas-Indel,Pindel
NUFIP1	26747	hgsc.bcm.edu	hg19	13	45563368	45563368	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NUFIP1	NM_012345	exon1	c.205delA	p.M69fs	.	.	36.0	11.0	38.0	0.0	.	41	.	.	Atlas-INDEL
PECR	55825	hgsc.bcm.edu	hg19	2	216946374	216946397	+	In_Frame_Del	DEL	CGATGCCCGTGGCCCCGCCGGTGA	CGATGCCCGTGGCCCCGCCGGTGA	-	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	CGATGCCCGTGGCCCCGCCGGTGA	CGATGCCCGTGGCCCCGCCGGTGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	PECR	NM_018441	exon1	c.69_92del	p.23_31del	.	.	226.0	42.0	183.0	0.0	.	22	.	.	Atlas-Indel,Pindel
NUP133	55746	hgsc.bcm.edu	hg19	1	229596501	229596502	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NUP133	NM_018230	exon20	c.2701_2702insT	p.L901fs	.	.	130.0	33.0	65.0	0.0	.	111	.	.	Atlas-Indel,Pindel
ANKFY1	51479	hgsc.bcm.edu	hg19	17	4086813	4086825	+	Frame_Shift_Del	DEL	GAGCCCAGCAGCT	GAGCCCAGCAGCT	-	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	GAGCCCAGCAGCT	GAGCCCAGCAGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	ANKFY1	NM_001257999	exon14	c.1947_1959del	p.649_653del	.	.	85.0	13.0	83.0	0.0	.	81	.	.	Pindel
NCOA3	8202	hgsc.bcm.edu	hg19	20	46255749	46255749	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A4NI-01A-11D-A27I-10	TCGA-DD-A4NI-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c154a63e-d2e1-4abb-83fe-62a5a5a70b33	63af893a-b381-43ba-8feb-c3221799df94	.	NCOA3	NM_181659	exon6	c.360delA	p.A120fs	.	.	248.0	52.0	156.0	0.0	.	156	.	.	Pindel