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
ESPN	83715	hgsc.bcm.edu	hg19	1	6517308	6517308	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ESPN	NM_031475	exon11	c.A2390G	p.K797R	GGAAGAAGCTGGA	.	176.0	48.0	213.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	hg19	1	16199544	16199544	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SPEN	NM_015001	exon2	c.G317T	p.G106V	TTTCTGGGTTCAG	.	119.0	30.0	148.0	0.0	.	374	.	.	.	none	.	.	PASS	Atlas-SNP
AHDC1	27245	hgsc.bcm.edu	hg19	1	27874121	27874121	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	AHDC1	NM_001029882	exon6	c.C4506T	p.A1502A	GTGAGGGGCACTG	.	103.0	25.0	111.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf123	54987	hgsc.bcm.edu	hg19	1	53684086	53684086	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	C1orf123	NM_017887	exon4	c.G229C	p.E77Q	ACCTACCGATGGA	.	96.0	34.0	93.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN7L2	127002	hgsc.bcm.edu	hg19	1	110031671	110031671	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ATXN7L2	NM_153340	exon7	c.G986A	p.S329N	CCAGCAGCACCTT	.	85.0	24.0	87.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	hg19	1	154099879	154099879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	NUP210L	NM_001159484	exon9	c.C1093T	p.P365S	TTCCAGGTTGGAC	.	78.0	14.0	106.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	hg19	1	154842333	154842333	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	KCNN3	NM_001204087	exon1	c.G108A	p.Q36Q	CTGTTGCTGCTGC	.	93.0	6.0	104.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	hg19	1	169528453	169528453	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	F5,NS,carcinoma,0,1	F5	NM_000130	exon5	c.G668T	p.S223I	CTCCAGCTCTTGC	.	77.0	30.0	98.0	0.0	.	301	.	.	.	none	.	.	PASS	Atlas-SNP
LAMC1	3915	hgsc.bcm.edu	hg19	1	183072766	183072766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	LAMC1	NM_002293	exon2	c.A722G	p.Q241R	TGCTGCAGGTAAA	.	96.0	34.0	99.0	0.0	.	176	.	.	.	none	.	.	PASS	Atlas-SNP
PGBD5	79605	hgsc.bcm.edu	hg19	1	230486768	230486768	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PGBD5	NM_001258311	exon3	c.A830C	p.K277T	TTCCTCTTTCGCA	.	55.0	17.0	72.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
ASAP2	8853	hgsc.bcm.edu	hg19	2	9496455	9496455	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ASAP2	NM_001135191	exon14	c.C1308T	p.C436C	CGTCTGCTGTGAC	.	108.0	31.0	111.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
ITGB1BP1	9270	hgsc.bcm.edu	hg19	2	9547719	9547719	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ITGB1BP1	NM_004763	exon6	c.G390T	p.L130F	CCTGTGCAAAACA	.	64.0	23.0	62.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
TTC32	130502	hgsc.bcm.edu	hg19	2	20101507	20101507	+	Silent	SNP	G	G	T	rs138752655	bycluster;alternate_allele	TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TTC32	NM_001008237	exon1	c.C109A	p.R37R	CGCACCGGCGAAT	.	42.0	15.0	57.0	0.0	.	13	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73613036	73613036	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ALMS1	NM_015120	exon1	c.G40C	p.E14Q	CTGGAGGAGGAGG	.	243.0	12.0	203.0	0.0	.	384	.	.	.	none	.	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73613065	73613065	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ALMS1	NM_015120	exon1	c.G69A	p.E23E	GGAGGAGGAGGAA	.	525.0	43.0	527.0	0.0	.	384	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA4F	10505	hgsc.bcm.edu	hg19	2	74902678	74902678	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SEMA4F	NM_004263	exon11	c.C1399T	p.R467W	GCAGTGCGGATCG	.	98.0	24.0	108.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
SLC20A1	6574	hgsc.bcm.edu	hg19	2	113405235	113405235	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SLC20A1	NM_005415	exon4	c.T481G	p.S161A	GTGATGTCTTGGT	.	95.0	31.0	125.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
INHBB	3625	hgsc.bcm.edu	hg19	2	121107030	121107030	+	Silent	SNP	C	C	G	rs201383879	by1000genomes;alternate_allele	TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	INHBB	NM_002193	exon2	c.C804G	p.G268G	CCCAGGCGAAGAG	.	143.0	38.0	152.0	0.0	.	29	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
ANKAR	150709	hgsc.bcm.edu	hg19	2	190557049	190557049	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ANKAR	NM_144708	exon4	c.T1108C	p.F370L	CAGAATTTTCACT	.	206.0	48.0	206.0	0.0	.	184	.	.	.	none	.	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	hg19	2	207631966	207631966	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	FASTKD2	NM_001136193	exon2	c.C549A	p.N183K	TAGCAACTATTTC	.	68.0	23.0	103.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
ATG9A	79065	hgsc.bcm.edu	hg19	2	220090237	220090237	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ATG9A	NM_001077198	exon6	c.C270T	p.D90D	TAGGATGTCATAG	.	133.0	38.0	143.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
CHRND	1144	hgsc.bcm.edu	hg19	2	233394851	233394851	+	Splice_Site	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CHRND	NM_001256657	exon6	c.775+2T>C	.	TGACAGTGAGCCT	.	38.0	8.0	55.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
TOP2B	7155	hgsc.bcm.edu	hg19	3	25675377	25675377	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	TOP2B,right_upper_lobe,carcinoma,0,1	TOP2B	NM_001068	exon8	c.A966G	p.K322K	GAATCCTTTTTCA	.	74.0	3.0	77.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	hg19	3	45972569	45972569	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	FYCO1	NM_024513	exon16	c.G4245C	p.Q1415H	CTTACACTGATCC	.	127.0	48.0	147.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCC1	6599	hgsc.bcm.edu	hg19	3	47680268	47680268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SMARCC1	NM_003074	exon22	c.G2323A	p.G775R	CAGCTCCTTCTAC	.	97.0	26.0	128.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
CDC25A	993	hgsc.bcm.edu	hg19	3	48200920	48200920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CDC25A	NM_001789	exon14	c.C1348T	p.R450C	CCAGGCGATCTCT	.	67.0	21.0	92.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNB1	5364	hgsc.bcm.edu	hg19	3	48465669	48465669	+	Missense_Mutation	SNP	C	C	A	rs368626600		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PLXNB1	NM_001130082	exon3	c.G352T	p.V118F	CACAGACCCCCTG	.	106.0	40.0	123.0	0.0	.	150	.	.	.	weak	.	.	PASS	Atlas-SNP
COL7A1	1294	hgsc.bcm.edu	hg19	3	48619024	48619024	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	COL7A1	NM_000094	exon49	c.G4764A	p.K1588K	GTCTCCCTTGGGG	.	90.0	15.0	96.0	0.0	.	320	.	.	.	none	.	.	PASS	Atlas-SNP
IMPDH2	3615	hgsc.bcm.edu	hg19	3	49064477	49064477	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	IMPDH2	NM_000884	exon6	c.A535G	p.M179V	TTGTCATTATCTA	.	65.0	15.0	58.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	hg19	3	49734840	49734840	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	RNF123	NM_022064	exon5	c.C292A	p.H98N	CTGGACCACACAG	.	63.0	18.0	90.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
FXR1	8087	hgsc.bcm.edu	hg19	3	180688019	180688019	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	FXR1	NM_001013438	exon15	c.T1476C	p.D492D	CACTGATGCCAGC	.	138.0	36.0	146.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
IGF2BP2	10644	hgsc.bcm.edu	hg19	3	185364916	185364916	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	IGF2BP2	NM_006548	exon15	c.T1604C	p.L535P	TTCTGCAGTTCGT	.	49.0	9.0	56.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
CDH18	1016	hgsc.bcm.edu	hg19	5	19473544	19473544	+	Missense_Mutation	SNP	C	C	T	rs376117433		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CDH18	NM_004934	exon13	c.G2164A	p.E722K	CTGCTTCTGCCAG	.	108.0	33.0	147.0	0.0	.	561	.	.	.	weak	.	.	PASS	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	hg19	5	60825930	60825930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ZSWIM6	NM_020928	exon8	c.G1889A	p.G630E	GGGTTGGACATCC	.	128.0	35.0	162.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	hg19	5	79031309	79031309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CMYA5	NM_153610	exon2	c.G6721A	p.V2241I	TCAGAGGTAAAAC	.	231.0	60.0	270.0	0.0	.	643	.	.	.	none	.	.	PASS	Atlas-SNP
COX7C	1350	hgsc.bcm.edu	hg19	5	85915264	85915264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	COX7C	NM_001867	exon2	c.G170A	p.R57K	TAGTAAGACACCA	.	50.0	11.0	69.0	0.0	.	5	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHB1	29930	hgsc.bcm.edu	hg19	5	140431589	140431589	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PCDHB1	NM_013340	exon1	c.C534T	p.F178F	GTATTTCCACCTG	.	89.0	21.0	86.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
GLRA1	2741	hgsc.bcm.edu	hg19	5	151231124	151231124	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	GLRA1	NM_000171	exon7	c.C739T	p.Q247X	CCATCTGCCGCTC	.	123.0	38.0	124.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
GRIA1	2890	hgsc.bcm.edu	hg19	5	153078598	153078598	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	GRIA1	NM_001258021	exon10	c.G1447T	p.A483S	ACGAAGGCCTGGA	.	79.0	24.0	97.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
GRM4	2914	hgsc.bcm.edu	hg19	6	34100828	34100828	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	GRM4	NM_001256811	exon2	c.G446T	p.R149L	ACCACACGTTCAG	.	63.0	21.0	85.0	0.0	.	317	.	.	.	none	.	.	PASS	Atlas-SNP
RSPH10B	222967	hgsc.bcm.edu	hg19	7	6797488	6797488	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	RSPH10B2,NS,carcinoma,0,2	RSPH10B	NM_173565	exon3	c.C180A	p.D60E	AAAAGACCGCCAA	.	311.0	61.0	294.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
HOXA1	3198	hgsc.bcm.edu	hg19	7	27135159	27135159	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	HOXA1	NM_005522	exon1	c.C373T	p.Q125X	CGCACTGGGGGTA	.	122.0	25.0	94.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
TAX1BP1	8887	hgsc.bcm.edu	hg19	7	27809433	27809433	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TAX1BP1	NM_006024	exon5	c.C592A	p.Q198K	TGTGACCAACTGC	.	320.0	74.0	264.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF727	442319	hgsc.bcm.edu	hg19	7	63538066	63538066	+	Silent	SNP	A	A	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ZNF727	NM_001159522	exon4	c.A639T	p.S213S	GTTCTCAAACCTT	.	170.0	79.0	177.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
GNAI1	2770	hgsc.bcm.edu	hg19	7	79840317	79840317	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	GNAI1,colon,carcinoma,0,1	GNAI1	NM_002069	exon6	c.G623C	p.R208P	CTGAGCGGAAGAA	.	108.0	28.0	98.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
HGF	3082	hgsc.bcm.edu	hg19	7	81331961	81331961	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	HGF	NM_000601	exon18	c.G2123A	p.R708Q	GCTACTCGGACAA	.	386.0	175.0	346.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	hg19	7	98576479	98576479	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	TRRAP_ENST00000359863,NS,carcinoma,0,2	TRRAP	NM_001244580	exon57	c.C8565T	p.C2855C	GGAGTGCGCCTGG	.	58.0	10.0	72.0	0.0	.	863	.	.	.	none	.	.	PASS	Atlas-SNP
POP7	10248	hgsc.bcm.edu	hg19	7	100304790	100304790	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	POP7	NM_005837	exon2	c.C337A	p.P113T	CTGGAGCCAGAGA	.	177.0	42.0	172.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241055	131241055	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PODXL	NM_001018111	exon1	c.T64C	p.S22P	GCGACGACGGCAG	.	139.0	14.0	112.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	hg19	8	8654999	8654999	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	MFHAS1	NM_004225	exon2	c.G3001C	p.E1001Q	GCAACTCCCCTGT	.	84.0	17.0	93.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
TERF1	7013	hgsc.bcm.edu	hg19	8	73921213	73921213	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TERF1	NM_017489	exon1	c.C92G	p.T31R	CAGAAACAGAGAG	.	183.0	38.0	198.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
FAM91A1	157769	hgsc.bcm.edu	hg19	8	124799974	124799974	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	FAM91A1	NM_144963	exon14	c.T1262A	p.L421H	GCTTTCTTATAGA	.	66.0	23.0	75.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY8	114	hgsc.bcm.edu	hg19	8	132051979	132051979	+	Silent	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ADCY8	NM_001115	exon1	c.T601C	p.L201L	GGCTCAAGTGTAG	.	111.0	18.0	148.0	0.0	.	291	.	.	.	none	.	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	hg19	8	135596131	135596131	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ZFAT	NM_020863	exon10	c.A2831G	p.K944R	AATTTCTTGCCAC	.	105.0	27.0	128.0	0.0	.	265	.	.	.	none	.	.	PASS	Atlas-SNP
CER1	9350	hgsc.bcm.edu	hg19	9	14722265	14722265	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CER1	NM_005454	exon1	c.C406G	p.H136D	TGAAGTGGTGCCA	.	99.0	39.0	155.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	hg19	9	19372144	19372144	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	DENND4C	NM_017925	exon32	c.G5703A	p.R1901R	GTGCAGGAAGTGT	.	87.0	23.0	156.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	hg19	9	130480052	130480052	+	Splice_Site	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TTC16	NM_144965	exon4	c.426+1G>A	.	CTACAGGTGCCTG	.	49.0	23.0	78.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	hg19	9	136249679	136249679	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	C9orf96	NM_153710	exon3	c.G214A	p.E72K	GCCCTGGAGGAGG	.	74.0	29.0	85.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
RNF208	727800	hgsc.bcm.edu	hg19	9	140115231	140115231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	RNF208	NM_031297	exon1	c.C434T	p.T145I	CCACAGGTGGGGC	.	95.0	35.0	146.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
BMS1	9790	hgsc.bcm.edu	hg19	10	43326332	43326332	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	BMS1	NM_014753	exon23	c.G3637C	p.A1213P	CTGGATGCTCTGA	.	115.0	32.0	123.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM26	219623	hgsc.bcm.edu	hg19	10	63188776	63188776	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TMEM26	NM_178505	exon4	c.A513G	p.R171R	TTGATCTCGAGTG	.	97.0	30.0	126.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	hg19	10	64966402	64966402	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	JMJD1C	NM_032776	exon10	c.G5027T	p.R1676M	GCACTCCTGCTGA	.	86.0	21.0	81.0	0.0	.	347	.	.	.	none	.	.	PASS	Atlas-SNP
IFIT1	3434	hgsc.bcm.edu	hg19	10	91162887	91162887	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	IFIT1	NM_001270927	exon3	c.C855T	p.V285V	TTCTGTCTTACTG	.	92.0	25.0	118.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35G1	159371	hgsc.bcm.edu	hg19	10	95660559	95660559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	.	NM_001134658	exon3	c.G410A	p.G137E	TCAGAGGAGTCCT	.	96.0	24.0	91.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	hg19	10	97143753	97143753	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SORBS1	NM_001034955	exon15	c.A1593G	p.S531S	TGAGCTTGACTTC	.	108.0	26.0	136.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
GAL3ST3	89792	hgsc.bcm.edu	hg19	11	65810751	65810751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	GAL3ST3,NS,carcinoma,0,1	GAL3ST3	NM_033036	exon3	c.G523A	p.V175I	TGGGTACGCGCCG	.	98.0	22.0	160.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
OR2AT4	341152	hgsc.bcm.edu	hg19	11	74800264	74800264	+	Silent	SNP	T	T	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	OR2AT4	NM_001005285	exon1	c.A495G	p.V165V	CCTTACTACTGCT	.	60.0	15.0	74.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ANKK1	255239	hgsc.bcm.edu	hg19	11	113270138	113270138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ANKK1	NM_178510	exon8	c.C1447T	p.R483C	GTCTCCCGTCAGG	.	60.0	14.0	54.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
CLSTN3	9746	hgsc.bcm.edu	hg19	12	7293886	7293886	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CLSTN3	NM_014718	exon9	c.A1372C	p.T458P	TTCCCCACAGTCA	.	147.0	36.0	137.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
PUS7L	83448	hgsc.bcm.edu	hg19	12	44142290	44142290	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	PUS7L,NS,carcinoma,0,1	PUS7L	NM_001098614	exon3	c.T1033C	p.Y345H	CTTGATAGGTGAT	.	110.0	24.0	128.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	hg19	13	25284611	25284611	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ATP12A	NM_001185085	exon20	c.G2795C	p.R932T	ACCAGAGGGAATA	.	143.0	38.0	141.0	0.0	.	172	.	.	.	none	.	.	PASS	Atlas-SNP
TSC22D1	8848	hgsc.bcm.edu	hg19	13	45148256	45148256	+	Missense_Mutation	SNP	G	G	A	rs370025988		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	TSC22D1	NM_183422	exon1	c.C1955T	p.P652L	GAAGCAGGATTTT	.	53.0	21.0	55.0	0.0	.	88	.	.	.	weak	.	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	hg19	13	115008769	115008769	+	Silent	SNP	G	G	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CDC16	NM_003903	exon7	c.G579T	p.L193L	CAAGCTGTGTAAT	.	467.0	135.0	565.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
CHMP4A	29082	hgsc.bcm.edu	hg19	14	24682658	24682658	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CHMP4A	NM_014169	exon1	c.A117T	p.R39S	CTCGCCTCTCCCG	.	88.0	23.0	99.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	hg19	14	52534874	52534874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	NID2	NM_007361	exon2	c.C236T	p.T79I	CCGTTGGTGCCCA	.	47.0	9.0	54.0	0.0	.	201	.	.	.	none	.	.	PASS	Atlas-SNP
NAA30	122830	hgsc.bcm.edu	hg19	14	57863579	57863579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	NAA30	NM_001011713	exon3	c.G881A	p.R294K	AATACAGGAGAAA	.	95.0	37.0	96.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	hg19	14	88935278	88935278	+	Silent	SNP	G	G	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PTPN21	NM_007039	exon18	c.C3378G	p.A1126A	CAGGCAGGCGATC	.	92.0	28.0	99.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF839	55778	hgsc.bcm.edu	hg19	14	102800982	102800982	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ZNF839	NM_018335	exon4	c.A1508C	p.K503T	TGATGAAGGTGAG	.	97.0	33.0	90.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
RORA	6095	hgsc.bcm.edu	hg19	15	60797807	60797807	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	RORA	NM_134260	exon7	c.C941T	p.S314F	GATTTAGATATAT	.	48.0	20.0	102.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
PSMD7	5713	hgsc.bcm.edu	hg19	16	74335517	74335517	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PSMD7	NM_002811	exon4	c.C324G	p.I108M	TGCCATCAACGAA	.	74.0	15.0	108.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
CLUH	23277	hgsc.bcm.edu	hg19	17	2595757	2595757	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	.	NM_015229	exon22	c.T3341G	p.L1114R	CCGTGCAGCACCA	.	36.0	11.0	55.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	hg19	17	8049997	8049997	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PER1	NM_002616	exon15	c.C1822A	p.L608I	AGGCTAGTGGGGC	.	38.0	9.0	34.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP17-1	83902	hgsc.bcm.edu	hg19	17	39471774	39471774	+	Silent	SNP	G	G	A	rs368577794		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	KRTAP17-1,colon,carcinoma,0,3	KRTAP17-1	NM_031964	exon1	c.C129T	p.C43C	GCCCCCGCAGCCA	.	52.0	8.0	60.0	0.0	.	14	.	.	.	weak	.	.	PASS	Atlas-SNP
KRTAP17-1	83902	hgsc.bcm.edu	hg19	17	39471781	39471781	+	Missense_Mutation	SNP	G	G	C	rs62640394	bycluster	TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	KRTAP17-1,caecum,carcinoma,0,1	KRTAP17-1	NM_031964	exon1	c.C122G	p.S41C	CAGCCAGAGCCCC	.	51.0	3.0	63.0	0.0	.	14	.	.	.	weak	G|0.984;C|0.016	0.016	PASS	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	hg19	18	5397279	5397279	+	Silent	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	EPB41L3,NS,carcinoma,0,1	EPB41L3	NM_012307	exon18	c.G2619A	p.S873S	TCCCGCCGAGTAA	.	54.0	16.0	54.0	0.0	.	222	.	.	.	none	.	.	PASS	Atlas-SNP
KCTD1	284252	hgsc.bcm.edu	hg19	18	24056561	24056561	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	KCTD1	NM_001142730	exon3	c.T2051C	p.F684S	TCAATGAAATAGT	.	82.0	24.0	100.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
POLI	11201	hgsc.bcm.edu	hg19	18	51820257	51820257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	POLI	NM_007195	exon10	c.C1643A	p.S548Y	GAAAATCTAGGGA	.	231.0	67.0	231.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
PDE4A	5141	hgsc.bcm.edu	hg19	19	10563956	10563956	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PDE4A	NM_006202	exon1	c.T17A	p.F6Y	TGGATTTCTTCTG	.	36.0	12.0	54.0	0.0	.	236	.	.	.	none	.	.	PASS	Atlas-SNP
PDE4A	5141	hgsc.bcm.edu	hg19	19	10563957	10563957	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PDE4A	NM_006202	exon1	c.C18A	p.F6L	GGATTTCTTCTGC	.	36.0	12.0	54.0	0.0	.	236	.	.	.	none	.	.	PASS	Atlas-SNP
ELL	8178	hgsc.bcm.edu	hg19	19	18555598	18555598	+	Silent	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ELL	NM_006532	exon12	c.C1830T	p.A610A	GTACTCGGCGATG	.	22.0	5.0	25.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
PSG1	5669	hgsc.bcm.edu	hg19	19	43376066	43376066	+	Missense_Mutation	SNP	G	G	A	rs368581835		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PSG1	NM_001184826	exon3	c.C562T	p.P188S	TCATAGGGAGGCT	.	103.0	26.0	104.0	0.0	.	196	.	.	.	weak	.	.	PASS	Atlas-SNP
MBOAT7	79143	hgsc.bcm.edu	hg19	19	54684568	54684568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	MBOAT7	NM_001146082	exon6	c.C776T	p.A259V	AAGCCGGCGGCAA	.	104.0	27.0	113.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
ADIG	149685	hgsc.bcm.edu	hg19	20	37216742	37216742	+	Splice_Site	SNP	A	A	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ADIG	NM_001018082	exon3	c.354-2A>C	.	GTTTCTAGTTTGG	.	118.0	29.0	149.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
SGK2	10110	hgsc.bcm.edu	hg19	20	42198049	42198049	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SGK2	NM_016276	exon5	c.A433G	p.S145G	GAGCGCAGTGTGC	.	40.0	11.0	54.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
SGK2	10110	hgsc.bcm.edu	hg19	20	42199282	42199282	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	SGK2,NS,carcinoma,0,1	SGK2	NM_016276	exon6	c.G566A	p.R189H	GGGAGCGCCGGTT	.	47.0	8.0	58.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
SLC2A4RG	56731	hgsc.bcm.edu	hg19	20	62373951	62373951	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SLC2A4RG	NM_020062	exon6	c.A943T	p.S315C	TGTCACAGTGACC	.	99.0	27.0	113.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
MYT1	4661	hgsc.bcm.edu	hg19	20	62851316	62851316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	MYT1	NM_004535	exon13	c.G2222A	p.R741K	GCCTGAGAGAGGA	.	83.0	26.0	110.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	hg19	21	43529755	43529755	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	UMODL1	NM_173568	exon10	c.C1603T	p.Q535X	ACCTGCCAGTGCC	.	34.0	8.0	48.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
OGT	8473	hgsc.bcm.edu	hg19	X	70756180	70756180	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	OGT	NM_181672	exon2	c.A190C	p.I64L	TCATCTATACACT	.	79.0	46.0	102.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
ND4L	0	hgsc.bcm.edu	hg19	MT	10635	10635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	.	ENST00000361335	exon1	c.G166A	p.A56T	CTCTTAGCCAATA	.	12.0	9.0	17.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
UBE4A	9354	hgsc.bcm.edu	hg19	11	118250311	118250315	+	Frame_Shift_Del	DEL	CATGA	CATGA	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	CATGA	CATGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	UBE4A	NM_004788	exon11	c.1742_1746del	p.581_582del	.	.	104.0	38.0	152.0	0.0	.	97	.	0.365385	0	none	.	.	PASS	Atlas-Indel,Pindel
NEFH	4744	hgsc.bcm.edu	hg19	22	29885589	29885590	+	In_Frame_Ins	INS	-	-	CCCCTGAGAAGGCCAAGT	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.,4	NEFH	NM_021076	exon4	c.1960_1961insCCCCTGAGAAGGCCAAGT	p.S654delinsSPEKAKS	.	.	132.0	41.0	245.0	0.0	.	178	.	0.310606	0	none	.	.	PASS	Atlas-INDEL
SALL1	6299	hgsc.bcm.edu	hg19	16	51173002	51173006	+	Frame_Shift_Del	DEL	AAATT	AAATT	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	AAATT	AAATT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	SALL1	NM_002968	exon2	c.3128_3132del	p.1043_1044del	.	.	95.0	30.0	83.0	0.0	.	301	.	0.315789	0	none	.	.	PASS	Atlas-Indel,Pindel
NF2	4771	hgsc.bcm.edu	hg19	22	30060995	30060996	+	Frame_Shift_Ins	INS	-	-	GG	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	NF2	NM_181832	exon9	c.827_828insGG	p.L276fs	.	.	84.0	36.0	155.0	0.0	.	1312	.	0.428571	0	none	.	.	PASS	Atlas-Indel,Pindel
CAMK1D	57118	hgsc.bcm.edu	hg19	10	12870792	12870792	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	CAMK1D	NM_153498	exon11	c.1063delA	p.S355fs	.	.	47.0	12.0	48.0	0.0	.	99	.	0.255319	0	none	.	.	PASS	Atlas-INDEL
UBA5	79876	hgsc.bcm.edu	hg19	3	132395353	132395353	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	UBA5	NM_024818	exon12	c.1197delC	p.A399fs	.	.	133.0	31.0	149.0	0.0	.	33	.	0.233083	0	none	.	.	PASS	Atlas-Indel,Pindel
ABCC5	10057	hgsc.bcm.edu	hg19	3	183700580	183700580	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ABCC5	NM_005688	exon6	c.808delG	p.E270fs	.	.	149.0	31.0	165.0	0.0	.	142	.	0.208054	0	none	.	.	PASS	Atlas-Indel,Pindel
AXDND1	126859	hgsc.bcm.edu	hg19	1	179494536	179494538	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	AXDND1	NM_144696	exon22	c.2563_2565del	p.855_855del	.	.	705.0	192.0	741.0	0.0	.	142	.	0.27234	0	none	.	.	PASS	Atlas-Indel,Pindel
PDE4A	5141	hgsc.bcm.edu	hg19	19	10563954	10563954	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PDE4A	NM_006202	exon1	c.14delA	p.D5fs	.	.	36.0	12.0	57.0	0.0	.	236	.	0.333333	0	none	.	.	PASS	Atlas-INDEL
LBX2	85474	hgsc.bcm.edu	hg19	2	74725195	74725196	+	Frame_Shift_Ins	INS	-	-	GCGA	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	LBX2	NM_001009812	exon2	c.444_445insTCGC	p.A148fs	.	.	112.0	29.0	154.0	0.0	.	13	.	0.258929	0	none	.	.	PASS	Atlas-Indel,Pindel
NCF4	4689	hgsc.bcm.edu	hg19	22	37266586	37266587	+	Splice_Site	DEL	TA	TA	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	NCF4	.	.	.	.	.	.	29.0	11.0	43.0	0.0	.	66	.	0.37931	0	none	.	.	PASS	Atlas-INDEL
ZNF24	7572	hgsc.bcm.edu	hg19	18	32920341	32920349	+	In_Frame_Del	DEL	AGATTTGTT	AGATTTGTT	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	AGATTTGTT	AGATTTGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	ZNF24	NM_006965	exon2	c.267_275del	p.89_92del	.	.	148.0	41.0	165.0	0.0	.	40	.	0.277027	0	none	.	.	PASS	Atlas-Indel,Pindel
PDE4A	5141	hgsc.bcm.edu	hg19	19	10563955	10563957	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-Y8-A896-01A-11D-A35Z-10	TCGA-Y8-A896-10A-01D-A35Z-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1d456468-7272-4470-892b-437ed167c716	35a2ebd1-9aa7-4978-92e8-f2b148b69622	.	PDE4A	NM_006202	exon1	c.15_17del	p.5_6del	.	.	37.0	10.0	56.0	0.0	.	236	.	0.270	.	none	.	.	PASS	Pindel
