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
MAP3K6	9064	hgsc.bcm.edu	hg19	1	27687435	27687435	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MAP3K6	NM_004672	exon14	c.G1897A	p.E633K	CGCCCTCCGCCTC	.	102.0	35.0	71.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
TUFT1	7286	hgsc.bcm.edu	hg19	1	151552139	151552139	+	Silent	SNP	A	A	G	rs201062061	bycluster;alternate_allele	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TUFT1	NM_020127	exon11	c.A939G	p.K313K	TTCAAAAGCTGTG	.	138.0	17.0	170.0	0.0	.	32	.	.	.	alt	.	.	PASS	Atlas-SNP
GATAD2B	57459	hgsc.bcm.edu	hg19	1	153792180	153792180	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	GATAD2B	NM_020699	exon3	c.C367G	p.P123A	TGTCTGGTGAGGG	.	193.0	17.0	241.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA4C	54910	hgsc.bcm.edu	hg19	2	97526794	97526794	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	SEMA4C	NM_017789	exon15	c.C2071T	p.R691W	CTTCCCGCAGCCG	.	100.0	4.0	70.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
CD96	10225	hgsc.bcm.edu	hg19	3	111297955	111297955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	CD96	NM_198196	exon5	c.C673T	p.L225F	GTCAAGCTTGGTA	.	178.0	14.0	178.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
ZIC1	7545	hgsc.bcm.edu	hg19	3	147128794	147128794	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ZIC1	NM_003412	exon1	c.G895T	p.E299X	ACGGGCGAGAAGC	.	160.0	36.0	169.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	hg19	4	1332242	1332242	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MAEA	NM_001017405	exon8	c.G932A	p.S311N	CCAAGAGCCCTGA	.	68.0	18.0	76.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
TLL1	7092	hgsc.bcm.edu	hg19	4	166996130	166996130	+	Silent	SNP	T	T	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TLL1	NM_012464	exon17	c.T2289C	p.H763H	GCTACATGACAAT	.	161.0	18.0	223.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
FCHO2	115548	hgsc.bcm.edu	hg19	5	72359736	72359736	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	FCHO2	NM_138782	exon18	c.C1414A	p.L472I	CCAAAGCTTACTT	.	139.0	43.0	193.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
MTRF1L	54516	hgsc.bcm.edu	hg19	6	153315714	153315714	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MTRF1L	NM_019041	exon4	c.G621C	p.K207N	TTCTGTCTTTGGC	.	112.0	14.0	113.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
AUTS2	26053	hgsc.bcm.edu	hg19	7	70231266	70231266	+	Silent	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	AUTS2	NM_001127231	exon9	c.G1635A	p.P545P	CACGCCGTTCCCC	.	90.0	31.0	63.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
CAMK1D	57118	hgsc.bcm.edu	hg19	10	12856228	12856228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	CAMK1D	NM_153498	exon7	c.G676A	p.D226N	GAAAATGACTCCA	.	99.0	10.0	73.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	hg19	11	2466535	2466535	+	Silent	SNP	G	G	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	KCNQ1	NM_000218	exon1	c.G207T	p.A69A	GGCCGCGCCCGCC	.	4.0	4.0	0.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM68	55128	hgsc.bcm.edu	hg19	11	4621750	4621750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TRIM68	NM_018073	exon7	c.G1214A	p.R405Q	CCTGCTCGGTACT	.	164.0	35.0	196.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
ZNHIT2	741	hgsc.bcm.edu	hg19	11	64884755	64884755	+	Missense_Mutation	SNP	G	G	A	rs200126440	bycluster	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ZNHIT2	NM_014205	exon1	c.C371T	p.P124L	CATGGAGGCAGCA	.	13.0	8.0	1.0	0.0	.	12	.	.	.	weak	.	.	PASS	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	hg19	11	117352683	117352683	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	DSCAML1	NM_020693	exon12	c.C2734G	p.L912V	CCTTCAGTGTGGA	.	97.0	33.0	110.0	0.0	.	286	.	.	.	none	.	.	PASS	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	hg19	11	117869470	117869470	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	IL10RA	NM_001558	exon7	c.G851T	p.R284L	GCCAGCGTCCCTC	.	115.0	18.0	122.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	hg19	12	101720912	101720912	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	UTP20	NM_014503	exon26	c.C3095A	p.S1032Y	GGAAATCTGCTTC	.	82.0	13.0	90.0	0.0	.	222	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0226L	80183	hgsc.bcm.edu	hg19	13	46946278	46946278	+	Silent	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	KIAA0226L	NM_025113	exon3	c.C333T	p.S111S	GCCAACGGAGTCT	.	122.0	6.0	123.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
TPP2	7174	hgsc.bcm.edu	hg19	13	103328750	103328750	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TPP2	NM_003291	exon28	c.G3645T	p.W1215C	AAACTGGAAAAAT	.	117.0	11.0	137.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
IRS2	8660	hgsc.bcm.edu	hg19	13	110435073	110435073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	IRS2	NM_003749	exon1	c.C3328T	p.L1110F	CCATGAGGCTCAG	.	54.0	21.0	8.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	hg19	14	94052953	94052953	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	UNC79	NM_020818	exon21	c.G2284C	p.D762H	AAGAATGATACCG	.	30.0	7.0	24.0	0.0	.	366	.	.	.	none	.	.	PASS	Atlas-SNP
C15orf39	56905	hgsc.bcm.edu	hg19	15	75500838	75500838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	C15orf39	NM_015492	exon2	c.A2449G	p.K817E	CTGGCCAAGCTGC	.	42.0	7.0	22.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
UBE2I	7329	hgsc.bcm.edu	hg19	16	1370453	1370453	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	UBE2I	NM_003345	exon6	c.A348G	p.I116M	AGGAATACAGGAA	.	36.0	5.0	25.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	hg19	16	3817823	3817823	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	CREBBP	NM_004380	exon16	c.G3148T	p.E1050X	TCTTTTCATCCAC	.	110.0	30.0	102.0	0.0	.	546	.	.	.	none	.	.	PASS	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30744761	30744761	+	Silent	SNP	A	A	G	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	SRCAP	NM_006662	exon28	c.A6288G	p.E2096E	AGTTGAACAGAGA	.	100.0	25.0	105.0	0.0	.	298	.	.	.	none	.	.	PASS	Atlas-SNP
CDH8	1006	hgsc.bcm.edu	hg19	16	61823266	61823266	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	CDH8	NM_001796	exon8	c.C1398G	p.I466M	AGCAATGATTGTT	.	157.0	11.0	154.0	0.0	.	273	.	.	.	none	.	.	PASS	Atlas-SNP
RPH3AL	9501	hgsc.bcm.edu	hg19	17	131631	131631	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	RPH3AL	NM_006987	exon6	c.A366T	p.K122N	CCCACATTTGGTG	.	231.0	46.0	211.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
RPL26	6154	hgsc.bcm.edu	hg19	17	8283223	8283223	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	RPL26	NM_000987	exon3	c.T200G	p.I67S	TTGCCAATTTGCT	.	117.0	14.0	101.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
GGA3	23163	hgsc.bcm.edu	hg19	17	73239164	73239164	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	GGA3	NM_138619	exon6	c.G508C	p.D170H	CATCATCAAAAAC	.	284.0	77.0	240.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9058716	9058716	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MUC16	NM_024690	exon3	c.C28730G	p.S9577X	GACATTGACTCTA	.	155.0	31.0	154.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
NF2	4771	hgsc.bcm.edu	hg19	22	30057329	30057329	+	Splice_Site	SNP	G	G	A	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	NF2_ENST00000403999,spinal_cord,glioma,0,4	NF2	NM_016418	exon8	c.810+1G>A	.	AAGGAGGTAGGAC	.	42.0	14.0	68.0	0.0	.	1312	.	.	.	none	.	.	PASS	Atlas-SNP
TOM1	10043	hgsc.bcm.edu	hg19	22	35723290	35723290	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TOM1	NM_001135732	exon7	c.G675T	p.E225D	GCTGGAGATGGTG	.	73.0	10.0	100.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ZXDB	158586	hgsc.bcm.edu	hg19	X	57619114	57619114	+	Silent	SNP	G	G	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ZXDB	NM_007157	exon1	c.G633C	p.P211P	CGCCCCGCAAGCT	.	117.0	5.0	20.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
THOC2	57187	hgsc.bcm.edu	hg19	X	122757675	122757675	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	THOC2	NM_001081550	exon28	c.A3466G	p.K1156E	TCTCTTTTTCTTC	.	42.0	7.0	67.0	0.0	.	310	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	hg19	5	56183244	56183245	+	Frame_Shift_Ins	INS	-	-	TA	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MAP3K1	NM_005921	exon18	c.4154_4155insTA	p.R1385fs	.	.	116.0	15.0	130.0	0.0	.	355	.	0.12931	0	none	.	.	PASS	Atlas-Indel,Pindel
ANKHD1-EIF4EBP3	404734	hgsc.bcm.edu	hg19	5	139928645	139928646	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ANKHD1-EIF4EBP3	NM_020690	exon35	c.7833_7834del	p.2611_2612del	.	.	87.0	12.0	124.0	0.0	.	179	.	0.137931	0	none	.	.	PASS	Atlas-Indel,Pindel
NFKBIZ	64332	hgsc.bcm.edu	hg19	3	101572345	101572345	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	NFKBIZ	NM_031419	exon5	c.974delA	p.N325fs	.	.	91.0	17.0	93.0	0.0	.	55	.	0.186813	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF7	7553	hgsc.bcm.edu	hg19	8	146066868	146066869	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ZNF7	NM_003416	exon5	c.375_376del	p.125_126del	.	.	86.0	10.0	88.0	0.0	.	62	.	0.116279	0	none	.	.	PASS	Atlas-INDEL
LCAT	3931	hgsc.bcm.edu	hg19	16	67974090	67974091	+	Frame_Shift_Ins	INS	-	-	GGGGG	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	LCAT	NM_000229	exon6	c.1040_1041insCCCCC	p.R347fs	.	.	154.0	13.0	124.0	0.0	.	31	.	0.0844156	0	none	.	.	PASS	Atlas-INDEL
ASPRV1	151516	hgsc.bcm.edu	hg19	2	70188625	70188626	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ASPRV1	NM_152792	exon1	c.196_197del	p.66_66del	.	.	162.0	14.0	170.0	0.0	.	41	.	0.0864198	0	none	.	.	PASS	Atlas-Indel,Pindel
RASA1	5921	hgsc.bcm.edu	hg19	5	86564698	86564699	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	RASA1	NM_002890	exon1	c.429_430del	p.143_144del	.	.	35.0	12.0	38.0	0.0	.	213	.	0.342857	0	none	.	.	PASS	Atlas-INDEL
BCOR	54880	hgsc.bcm.edu	hg19	X	39913206	39913207	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	BCOR	NM_001123385	exon14	c.4909_4910del	p.1637_1637del	.	.	234.0	19.0	260.0	0.0	.	351	.	0.0811966	0	none	.	.	PASS	Atlas-Indel,Pindel
SPIRE2	84501	hgsc.bcm.edu	hg19	16	89924825	89924826	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	SPIRE2	NM_032451	exon8	c.1181_1182del	p.394_394del	.	.	101.0	12.0	89.0	0.0	.	63	.	0.118812	0	none	.	.	PASS	Atlas-INDEL
CEP128	145508	hgsc.bcm.edu	hg19	14	81251281	81251284	+	Frame_Shift_Del	DEL	CTTA	CTTA	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CTTA	CTTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	CEP128	NM_152446	exon14	c.2167_2170del	p.723_724del	.	.	75.0	25.0	92.0	0.0	.	146	.	0.333333	0	none	.	.	PASS	Atlas-Indel,Pindel
ZRSR2	8233	hgsc.bcm.edu	hg19	X	15841231	15841236	+	In_Frame_Del	DEL	AGCCGG	AGCCGG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AGCCGG	AGCCGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	ZRSR2	NM_005089	exon11	c.1314_1319del	p.438_440del	.	.	62.0	19.0	23.0	0.0	.	78	.	0.306452	0	none	.	.	PASS	Atlas-Indel,Pindel
EPHA2	1969	hgsc.bcm.edu	hg19	1	16459720	16459721	+	Frame_Shift_Ins	INS	-	-	TG	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	EPHA2	NM_004431	exon11	c.2008_2009insCA	p.F670fs	.	.	56.0	13.0	84.0	0.0	.	102	.	0.232143	0	none	.	.	PASS	Atlas-Indel,Pindel
AHNAK	79026	hgsc.bcm.edu	hg19	11	62285795	62285796	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	AHNAK	NM_001620	exon5	c.16094_16095del	p.5365_5365del	.	.	151.0	16.0	177.0	0.0	.	532	.	0.10596	0	none	.	.	PASS	Atlas-INDEL
PHTF1	10745	hgsc.bcm.edu	hg19	1	114255942	114255943	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	PHTF1	NM_006608	exon7	c.742_743del	p.248_248del	.	.	81.0	20.0	93.0	0.0	.	69	.	0.246914	0	none	.	.	PASS	Atlas-Indel,Pindel
GOLGA4	2803	hgsc.bcm.edu	hg19	3	37365077	37365078	+	Splice_Site	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	GOLGA4	.	.	.	.	.	.	128.0	33.0	141.0	0.0	.	173	.	0.257812	0	none	.	.	PASS	Atlas-Indel,Pindel
TEX33	339669	hgsc.bcm.edu	hg19	22	37396006	37396008	+	In_Frame_Del	DEL	TCA	TCA	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TEX33	NM_001163857	exon4	c.508_510del	p.170_170del	.	.	88.0	25.0	92.0	0.0	.	25	.	0.284091	0	none	.	.	PASS	Atlas-Indel,Pindel
MTA2	9219	hgsc.bcm.edu	hg19	11	62364175	62364176	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	MTA2	NM_004739	exon9	c.816_817del	p.272_273del	.	.	134.0	24.0	128.0	0.0	.	54	.	0.179104	0	none	.	.	PASS	Atlas-Indel,Pindel
GLCE	26035	hgsc.bcm.edu	hg19	15	69553563	69553564	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	GLCE	NM_015554	exon4	c.723_724del	p.241_242del	.	.	105.0	22.0	157.0	0.0	.	48	.	0.209524	0	none	.	.	PASS	Atlas-Indel,Pindel
PCDHB5	26167	hgsc.bcm.edu	hg19	5	140515133	140515134	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	PCDHB5	NM_015669	exon1	c.116_117del	p.39_39del	.	.	102.0	11.0	141.0	0.0	.	184	.	0.107843	0	none	.	.	PASS	Atlas-INDEL
C17orf80	55028	hgsc.bcm.edu	hg19	17	71232036	71232037	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	C17orf80	NM_001100621	exon3	c.414_415del	p.138_139del	.	.	194.0	12.0	137.0	0.0	.	37	.	0.0618557	0	none	.	.	PASS	Atlas-INDEL
OR8D1	283159	hgsc.bcm.edu	hg19	11	124180084	124180085	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	OR8D1	NM_001002917	exon1	c.579_580del	p.193_194del	.	.	214.0	45.0	198.0	0.0	.	53	.	0.21028	0	none	.	.	PASS	Atlas-Indel,Pindel
TTL	150465	hgsc.bcm.edu	hg19	2	113260608	113260609	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	TTL	NM_153712	exon5	c.724_725del	p.242_242del	.	.	123.0	33.0	130.0	0.0	.	27	.	0.268293	0	none	.	.	PASS	Atlas-Indel,Pindel
NASP	4678	hgsc.bcm.edu	hg19	1	46073053	46073073	+	In_Frame_Del	DEL	CCAAAAAAACAGAAGACAAGT	CCAAAAAAACAGAAGACAAGT	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CCAAAAAAACAGAAGACAAGT	CCAAAAAAACAGAAGACAAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	NASP	NM_002482	exon6	c.469_489del	p.157_163del	.	.	174.0	13.0	222.0	0.0	.	77	.	0.0747126	0	none	.	.	PASS	Atlas-INDEL
LRRK2	120892	hgsc.bcm.edu	hg19	12	40742258	40742261	+	Frame_Shift_Del	DEL	TTAA	TTAA	-	novel		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TTAA	TTAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	.	LRRK2	NM_198578	exon43	c.6327_6330del	p.2109_2110del	.	.	143.0	10.0	200.0	0.0	.	763	.	0.070	.	none	.	.	PASS	Pindel