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
MFN2	9927	hgsc.bcm.edu	hg19	1	12052714	12052714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MFN2	NM_014874	exon4	c.C278T	p.A93V	TGCTGGCTCGGAG	.	153.0	29.0	169.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
SRSF4	6429	hgsc.bcm.edu	hg19	1	29486974	29486974	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SRSF4	NM_005626	exon2	c.C163G	p.L55V	CATTCAGTTCATA	.	205.0	33.0	184.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
FAM151A	338094	hgsc.bcm.edu	hg19	1	55080373	55080373	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	FAM151A	NM_176782	exon4	c.A575G	p.Q192R	ACTCACTGTGTGG	.	127.0	24.0	136.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	hg19	1	75669452	75669452	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SLC44A5	NM_001130058	exon24	c.A2114T	p.K705M	AAAATCTTCAGCA	.	89.0	15.0	82.0	0.0	.	231	.	.	.	none	.	.	PASS	Atlas-SNP
HENMT1	113802	hgsc.bcm.edu	hg19	1	109192980	109192980	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	HENMT1	NM_144584	exon7	c.C609T	p.Y203Y	CACAGAGTAATCA	.	85.0	15.0	84.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ASH1L	55870	hgsc.bcm.edu	hg19	1	155449729	155449729	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ASH1L	NM_018489	exon3	c.T2932C	p.L978L	TCATTAATTGTCC	.	57.0	12.0	55.0	0.0	.	279	.	.	.	none	.	.	PASS	Atlas-SNP
LMNA	4000	hgsc.bcm.edu	hg19	1	156105104	156105104	+	Splice_Site	SNP	G	G	A	rs267607588	alternate_allele	TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	LMNA	NM_170707	exon5	c.936+1G>A	.	AAGCAGGTGATAC	.	165.0	34.0	147.0	0.0	.	31	.	.	.	alt	.	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	hg19	1	156510499	156510499	+	Splice_Site	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	IQGAP3	NM_178229	exon24	c.2739+1G>T	.	CCCATACCTGCAG	.	64.0	10.0	86.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225267022	225267022	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	DNAH14_ENST00000430092,NS,carcinoma,0,2	DNAH14	NM_001373	exon18	c.A2538G	p.K846K	AGAAAAAGAGTTC	.	293.0	51.0	281.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
RSAD2	91543	hgsc.bcm.edu	hg19	2	7035978	7035978	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	RSAD2	NM_080657	exon6	c.G991A	p.E331K	GTAGAAGAAGCTA	.	96.0	19.0	113.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
SRSF7	6432	hgsc.bcm.edu	hg19	2	38977271	38977271	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	SRSF7,NS,carcinoma,0,1	SRSF7	NM_001195446	exon2	c.A94G	p.S32G	AATAACTGAAAGC	.	114.0	15.0	127.0	2.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
SLC8A1	6546	hgsc.bcm.edu	hg19	2	40657412	40657412	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SLC8A1	NM_001252624	exon1	c.C9T	p.N3N	CCGCATGTTGTAC	.	66.0	18.0	66.0	0.0	.	221	.	.	.	none	.	.	PASS	Atlas-SNP
THNSL2	55258	hgsc.bcm.edu	hg19	2	88474889	88474889	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	THNSL2	NM_018271	exon3	c.G540A	p.T180T	GACAACGGTGCTG	.	187.0	28.0	189.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
AFF3	3899	hgsc.bcm.edu	hg19	2	100266104	100266104	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	AFF3,scalp,carcinoma,0,2	AFF3	NM_001025108	exon12	c.C1243G	p.R415G	GAGCGCGGAGAGC	.	359.0	85.0	372.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC115	84317	hgsc.bcm.edu	hg19	2	131096793	131096793	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CCDC115	NM_032357	exon5	c.C443A	p.A148D	TCTGCGGCCAGCT	.	42.0	5.0	49.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141641491	141641491	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	LRP1B	NM_018557	exon25	c.A4064T	p.N1355I	TCCAGATTGCTGT	.	115.0	17.0	81.0	0.0	.	1315	.	.	.	none	.	.	PASS	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	hg19	2	189916160	189916160	+	Silent	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	COL5A2	NM_000393	exon42	c.A2817T	p.G939G	TGGAGGTCCCTCC	.	120.0	26.0	90.0	0.0	.	230	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	hg19	2	196915964	196915964	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DNAH7	NM_018897	exon3	c.G88A	p.A30T	TGCTGGCTAATTT	.	76.0	18.0	87.0	0.0	.	512	.	.	.	none	.	.	PASS	Atlas-SNP
PARD3B	117583	hgsc.bcm.edu	hg19	2	206110541	206110541	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PARD3B	NM_205863	exon16	c.A2180T	p.K727I	GACAAAAATCGGG	.	173.0	41.0	164.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
ACADL	33	hgsc.bcm.edu	hg19	2	211057576	211057576	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ACADL	NM_001608	exon10	c.T1151C	p.V384A	AGCTGTACACAGT	.	92.0	15.0	87.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	hg19	2	232081381	232081381	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ARMC9	NM_025139	exon5	c.T379C	p.Y127H	ATTTCCTACTTCA	.	143.0	33.0	118.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF619	285267	hgsc.bcm.edu	hg19	3	40523745	40523745	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF619	NM_001145082	exon4	c.T203A	p.L68Q	TTCCTCTGGATAC	.	83.0	24.0	48.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	hg19	3	78710202	78710202	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ROBO1	NM_002941	exon16	c.G2298A	p.K766K	GGCAAACTTGATT	.	112.0	30.0	99.0	0.0	.	833	.	.	.	none	.	.	PASS	Atlas-SNP
NMD3	51068	hgsc.bcm.edu	hg19	3	160967299	160967299	+	Silent	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	NMD3	NM_015938	exon14	c.T1261C	p.L421L	TGGAAATTGAAAG	.	337.0	57.0	304.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
ALG3	10195	hgsc.bcm.edu	hg19	3	183963295	183963295	+	Silent	SNP	G	G	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ALG3	NM_005787	exon3	c.C405G	p.T135T	CAGCAAGGTAGCC	.	159.0	45.0	146.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
SENP5	205564	hgsc.bcm.edu	hg19	3	196613001	196613001	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SENP5	NM_152699	exon2	c.A949T	p.K317X	GTGGTGAAGGGGA	.	75.0	28.0	53.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SPON2	10417	hgsc.bcm.edu	hg19	4	1165650	1165650	+	Silent	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SPON2	NM_012445	exon2	c.T210A	p.S70S	CAGCGAAGACCAC	.	76.0	18.0	120.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	hg19	4	6576972	6576972	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MAN2B2	NM_015274	exon1	c.C35A	p.P12Q	TGGCACCGCTCCT	.	76.0	18.0	63.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SEC31A	22872	hgsc.bcm.edu	hg19	4	83748748	83748748	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SEC31A	NM_001077207	exon24	c.C3065A	p.S1022X	ATTGGTGATGTGA	.	155.0	28.0	143.0	0.0	.	227	.	.	.	none	.	.	PASS	Atlas-SNP
USP53	54532	hgsc.bcm.edu	hg19	4	120190931	120190931	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	USP53	NM_019050	exon14	c.A1374G	p.L458L	AAACTTACTTTCT	.	524.0	54.0	489.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
DROSHA	29102	hgsc.bcm.edu	hg19	5	31526232	31526232	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DROSHA	NM_013235	exon4	c.G808T	p.D270Y	CTCGGTCATAATC	.	78.0	17.0	82.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
WDR41	55255	hgsc.bcm.edu	hg19	5	76758982	76758982	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	WDR41,colon,carcinoma,0,1	WDR41	NM_018268	exon4	c.T286C	p.L96L	ATTCCAAGGAAGG	.	97.0	17.0	118.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
WDR36	134430	hgsc.bcm.edu	hg19	5	110448824	110448824	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	WDR36	NM_139281	exon16	c.A1936T	p.I646F	TGCTCTATTAGGA	.	90.0	21.0	97.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGC3	5098	hgsc.bcm.edu	hg19	5	140857767	140857767	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PCDHGC3	NM_032402	exon1	c.T2084G	p.L695R	ATCTACTTCTTTC	.	86.0	18.0	80.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
MTCH1	23787	hgsc.bcm.edu	hg19	6	36936732	36936732	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MTCH1	NM_001271641	exon12	c.T1117G	p.S373A	GGCTGGAGCCTCG	.	69.0	16.0	91.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
CYP39A1	51302	hgsc.bcm.edu	hg19	6	46604152	46604152	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CYP39A1	NM_016593	exon5	c.T706G	p.C236G	ATTTACATGCTTT	.	155.0	27.0	163.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	hg19	6	90405588	90405588	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MDN1	NM_014611	exon61	c.C9507A	p.S3169R	CTGGCTGCTCCCA	.	111.0	23.0	104.0	0.0	.	478	.	.	.	none	.	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	hg19	6	109954291	109954291	+	Silent	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	AKD1	NM_145025	exon12	c.C1089A	p.I363I	ACAGTAGATTTTA	.	103.0	33.0	77.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
KATNA1	11104	hgsc.bcm.edu	hg19	6	149944285	149944285	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	KATNA1	NM_007044	exon4	c.T455A	p.V152D	CAACGAACAGCTT	.	92.0	12.0	93.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	hg19	7	57187920	57187920	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	ZNF479,colon,carcinoma,0,1	ZNF479	NM_033273	exon5	c.G1202C	p.R401T	TGAATTCTCTTGT	.	307.0	80.0	241.0	1.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
GTF2IRD1	9569	hgsc.bcm.edu	hg19	7	73953047	73953047	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	GTF2IRD1	NM_001199207	exon13	c.A1581T	p.K527N	GATCAAAATTGAG	.	49.0	8.0	72.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100683876	100683876	+	Missense_Mutation	SNP	T	T	G	rs145514577		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	MUC17,NS,carcinoma,0,1	MUC17	NM_001040105	exon3	c.T9179G	p.I3060S	TGGCCATTCCTGA	.	57.0	5.0	42.0	2.0	.	804	.	.	.	weak	.	.	PASS	Atlas-SNP
MOGAT3	346606	hgsc.bcm.edu	hg19	7	100844043	100844043	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MOGAT3	NM_178176	exon1	c.C93T	p.L31L	GAAAGTGAGCACA	.	78.0	13.0	89.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
RINT1	60561	hgsc.bcm.edu	hg19	7	105187490	105187490	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	RINT1	NM_021930	exon5	c.G649A	p.V217I	GCCACAGTTAAAT	.	184.0	54.0	147.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
NAA38	51691	hgsc.bcm.edu	hg19	7	117828344	117828344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	NAA38,mouth,carcinoma,0,1	NAA38	NM_016200	exon3	c.G85A	p.G29S	CTGAAAGGTTTTG	.	86.0	28.0	68.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	hg19	7	141720863	141720863	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MGAM	NM_004668	exon5	c.T538A	p.S180T	CAGACATCTAATC	.	123.0	17.0	86.0	0.0	.	767	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF786	136051	hgsc.bcm.edu	hg19	7	148767517	148767517	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF786	NM_152411	exon4	c.T2347G	p.X783G	TGCCTCAACTCCA	.	91.0	34.0	67.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ABP1	26	hgsc.bcm.edu	hg19	7	150554944	150554944	+	Silent	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ABP1	NM_001091	exon2	c.T1386C	p.D462D	TTATGATTACATT	.	63.0	23.0	51.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
TNFRSF10D	8793	hgsc.bcm.edu	hg19	8	23012460	23012460	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TNFRSF10D	NM_003840	exon2	c.G183T	p.Q61H	TTCGTCCTGCCGG	.	78.0	13.0	73.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	hg19	8	133953675	133953675	+	Silent	SNP	C	C	A	rs142766592	alternate_allele	TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TG	NM_003235	exon26	c.C5121A	p.P1707P	CAACCCCATTGTG	.	111.0	23.0	113.0	0.0	.	416	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	hg19	8	144999275	144999275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PLEC	NM_201380	exon31	c.G5233A	p.E1745K	CCTCCTCCCGCAG	.	197.0	42.0	204.0	0.0	.	1144	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	hg19	9	8341183	8341183	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PTPRD	NM_002839	exon41	c.T5033G	p.I1678S	GGCATAATATTAA	.	141.0	30.0	152.0	0.0	.	1348	.	.	.	none	.	.	PASS	Atlas-SNP
PSIP1	11168	hgsc.bcm.edu	hg19	9	15472713	15472713	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PSIP1	NM_021144	exon9	c.C894A	p.H298Q	CCTTCTGTGAGCA	.	64.0	6.0	70.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
MAPKAP1	79109	hgsc.bcm.edu	hg19	9	128347834	128347834	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MAPKAP1	NM_001006618	exon5	c.A671G	p.N224S	GATTACTTGAGCT	.	55.0	11.0	74.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
RPL7A	6130	hgsc.bcm.edu	hg19	9	136215842	136215842	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	RPL7A	NM_000972	exon2	c.G69A	p.E23E	GCAGGAGGCTAAG	.	50.0	9.0	54.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	hg19	9	139292750	139292750	+	Splice_Site	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	SNAPC4,NS,malignant_melanoma,0,1	SNAPC4	NM_003086	exon2	c.130+1G>T	.	GGCTTACCTGCTT	.	55.0	14.0	74.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	hg19	9	139292751	139292751	+	Missense_Mutation	SNP	C	C	A	rs7031489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes;alternate_allele	TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SNAPC4	NM_003086	exon1	c.G130T	p.D44Y	GCTTACCTGCTTC	.	59.0	14.0	73.0	0.0	.	82	.	.	.	alt	C|0.991;T|0.009	.	PASS	Atlas-SNP
PIP4K2A	5305	hgsc.bcm.edu	hg19	10	22862322	22862322	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PIP4K2A	NM_005028	exon5	c.T557C	p.V186A	CCATCAACATTAA	.	128.0	19.0	122.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	hg19	10	64976992	64976992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	JMJD1C	NM_032776	exon5	c.G653A	p.R218H	ATGGTGCGGGTGA	.	72.0	10.0	65.0	0.0	.	347	.	.	.	none	.	.	PASS	Atlas-SNP
DDX21	9188	hgsc.bcm.edu	hg19	10	70734488	70734488	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DDX21	NM_004728	exon11	c.A1731C	p.K577N	CAGCAAAGATGCC	.	101.0	24.0	91.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJB12	54788	hgsc.bcm.edu	hg19	10	74114543	74114543	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DNAJB12	NM_017626	exon1	c.A215G	p.Y72C	GTCGGATACAGCC	.	38.0	9.0	44.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	hg19	10	101802229	101802229	+	Silent	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CPN1	NM_001308	exon9	c.A1332G	p.R444R	TTTCTTTCTGGCT	.	61.0	7.0	59.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
GPAM	57678	hgsc.bcm.edu	hg19	10	113924282	113924282	+	Splice_Site	SNP	C	C	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	GPAM	NM_020918	exon14	c.1307+1G>T	.	ATTTTACCTTGAA	.	90.0	22.0	82.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3C2A	5286	hgsc.bcm.edu	hg19	11	17113603	17113603	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PIK3C2A	NM_002645	exon29	c.T4582G	p.C1528G	AAGTACAAACAAG	.	139.0	20.0	173.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
FNBP4	23360	hgsc.bcm.edu	hg19	11	47745677	47745677	+	Silent	SNP	T	T	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	FNBP4	NM_015308	exon14	c.A2367C	p.I789I	CCTCTTTATTCCT	.	79.0	15.0	72.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	hg19	12	1017829	1017829	+	Silent	SNP	G	G	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	WNK1	NM_001184985	exon28	c.G7800C	p.T2600T	TGGGACGGGTGGC	.	110.0	19.0	107.0	0.0	.	403	.	.	.	none	.	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	hg19	12	56669848	56669848	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CS	NM_004077	exon7	c.C720A	p.F240L	GTTGGTGAAATTG	.	146.0	28.0	105.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
TMTC2	160335	hgsc.bcm.edu	hg19	12	83251151	83251151	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TMTC2	NM_152588	exon2	c.T446C	p.L149P	TCTTTCTCCTCTC	.	95.0	16.0	59.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	hg19	13	75898483	75898483	+	Silent	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TBC1D4	NM_014832	exon11	c.T2088A	p.L696L	ACTTGGAAGACTG	.	135.0	26.0	133.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
IRS2	8660	hgsc.bcm.edu	hg19	13	110437628	110437628	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	IRS2	NM_003749	exon1	c.A773T	p.E258V	CCCACCTCGATGA	.	68.0	14.0	72.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
METTL3	56339	hgsc.bcm.edu	hg19	14	21969115	21969115	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	METTL3	NM_019852	exon5	c.G1056C	p.E352D	AGCAAGCTCCTGG	.	126.0	30.0	130.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
SGPP1	81537	hgsc.bcm.edu	hg19	14	64194241	64194241	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	SGPP1	NM_030791	exon1	c.A422T	p.E141V	AAGAGTTCGTTGC	.	51.0	9.0	60.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	hg19	14	71518644	71518644	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PCNX	NM_014982	exon24	c.T4492A	p.S1498T	TTCTTCTCTACTC	.	77.0	19.0	74.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
DDX24	57062	hgsc.bcm.edu	hg19	14	94527306	94527306	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DDX24	NM_020414	exon4	c.A1350C	p.E450D	AATTAATTCCCAC	.	118.0	19.0	115.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY7	113	hgsc.bcm.edu	hg19	16	50325746	50325746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ADCY7	NM_001114	exon3	c.C475T	p.L159F	TCCCACCTCCTGG	.	44.0	11.0	52.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
ASGR2	433	hgsc.bcm.edu	hg19	17	7011820	7011820	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ASGR2	NM_080912	exon4	c.T313A	p.S105T	TGCTCGAGGAGAA	.	64.0	9.0	63.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM97	27346	hgsc.bcm.edu	hg19	17	26646334	26646334	+	Silent	SNP	C	C	A	rs369813368	alternate_allele	TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TMEM97	NM_014573	exon1	c.C69A	p.P23P	CATCCCCATCACC	.	130.0	22.0	109.0	0.0	.	27	.	.	.	alt	.	.	PASS	Atlas-SNP
EXOC7	23265	hgsc.bcm.edu	hg19	17	74090635	74090635	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	EXOC7	NM_001145298	exon6	c.G668A	p.R223H	CTGGAGCGTATCT	.	119.0	7.0	92.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
AFG3L2	10939	hgsc.bcm.edu	hg19	18	12329586	12329586	+	Missense_Mutation	SNP	G	G	A	rs372136184		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	AFG3L2	NM_006796	exon17	c.C2372T	p.P791L	TCACCCGGGGGCT	.	98.0	17.0	108.0	0.0	.	60	.	.	.	weak	.	.	PASS	Atlas-SNP
ILVBL	10994	hgsc.bcm.edu	hg19	19	15226999	15226999	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ILVBL	NM_006844	exon12	c.G1435C	p.V479L	GCTGTACCAGATG	.	59.0	11.0	51.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	hg19	19	15587251	15587251	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	PGLYRP2	NM_052890	exon2	c.A230T	p.N77I	GTAGCATTGAGGC	.	81.0	14.0	91.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
NR2F6	2063	hgsc.bcm.edu	hg19	19	17343235	17343235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	NR2F6	NM_005234	exon4	c.C1141T	p.P381S	CAATGGGCGTCTT	.	102.0	18.0	108.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	hg19	19	22940373	22940373	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	ZNF99,NS,carcinoma,0,4	ZNF99	NM_001080409	exon4	c.A2338G	p.K780E	TTATCTTATGTTT	.	30.0	2.0	21.0	0.0	.	273	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	hg19	19	23544826	23544826	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF91	NM_003430	exon4	c.G955C	p.E319Q	GTTTCTCTCCAGT	.	77.0	15.0	79.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
CLASRP	11129	hgsc.bcm.edu	hg19	19	45555367	45555367	+	Silent	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CLASRP	NM_007056	exon3	c.A138C	p.R46R	TGGCCGAGCTTGC	.	41.0	10.0	30.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
FTL	2512	hgsc.bcm.edu	hg19	19	49469662	49469662	+	Missense_Mutation	SNP	A	A	G	rs17856437		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	FTL	NM_000146	exon3	c.A374G	p.H125R	ACCCCCATGTACG	.	119.0	8.0	85.0	0.0	.	19	.	.	.	weak	.	.	PASS	Atlas-SNP
ZNF628	89887	hgsc.bcm.edu	hg19	19	55992961	55992961	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF628	NM_033113	exon3	c.A401T	p.H134L	CGTCCCACTACCA	.	93.0	15.0	101.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
C21orf62	56245	hgsc.bcm.edu	hg19	21	34166443	34166443	+	Missense_Mutation	SNP	G	G	A	rs377322005		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	C21orf62	NM_001162495	exon4	c.C290T	p.T97M	ACCAGCGTGAAGT	.	89.0	20.0	93.0	0.0	.	26	.	.	.	weak	.	.	PASS	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	hg19	22	21990901	21990901	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	CCDC116,lower_third,carcinoma,0,1	CCDC116	NM_152612	exon5	c.G1384C	p.G462R	CAGCTGGGCTTCT	.	76.0	13.0	74.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
MN1	4330	hgsc.bcm.edu	hg19	22	28194894	28194894	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MN1	NM_002430	exon1	c.G1638A	p.Q546Q	CTGCTGCTGCTGT	.	53.0	6.0	62.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K15	389840	hgsc.bcm.edu	hg19	X	19389154	19389154	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MAP3K15	NM_001001671	exon24	c.T3323G	p.I1108S	GGCCTAATTAAGT	.	191.0	78.0	202.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9242	9242	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	.	ENST00000362079	exon1	c.A36C	p.K12N	AGTAAAACCCAGC	.	82.0	5.0	30.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11126	11126	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	.	ENST00000361381	exon1	c.G367A	p.E123K	TTCTTCGAAACCA	.	81.0	9.0	28.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	15786	15786	+	Missense_Mutation	SNP	T	T	C	rs373696707	bycluster	TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	.	ENST00000361789	exon1	c.T1040C	p.F347S	ACCCTTTTACCAT	.	76.0	11.0	22.0	0.0	.	.	.	.	.	weak	T|0.999;C|0.001	0.001	PASS	Atlas-SNP
ADCY6	112	hgsc.bcm.edu	hg19	12	49171962	49171964	+	In_Frame_Del	DEL	GCT	GCT	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ADCY6	NM_015270	exon2	c.942_944del	p.314_315del	.	.	159.0	61.0	137.0	0.0	.	81	.	0.383648	0	none	.	.	PASS	Atlas-Indel,Pindel
DIDO1	11083	hgsc.bcm.edu	hg19	20	61527694	61527695	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	DIDO1	NM_080797	exon8	c.2105_2106insA	p.I702fs	.	.	118.0	30.0	128.0	0.0	.	321	.	0.254237	0	none	.	.	PASS	Atlas-Indel,Pindel
ARHGAP24	83478	hgsc.bcm.edu	hg19	4	86916509	86916510	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.,2	ARHGAP24	NM_001025616	exon9	c.1702_1703insC	p.S568fs	.	.	101.0	14.0	112.0	0.0	.	116	.	0.138614	0	none	.	.	PASS	Atlas-INDEL
SIMC1	375484	hgsc.bcm.edu	hg19	5	175772284	175772294	+	Frame_Shift_Del	DEL	GAGAAGCAGAT	GAGAAGCAGAT	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	GAGAAGCAGAT	GAGAAGCAGAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	.	NM_198567	exon9	c.1209_1219del	p.403_407del	.	.	182.0	25.0	187.0	0.0	.	.	.	0.137363	0	none	.	.	PASS	Atlas-Indel,Pindel
EYS	346007	hgsc.bcm.edu	hg19	6	64574111	64574111	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	EYS	NM_001142800	exon36	c.7197delA	p.P2399fs	.	.	93.0	19.0	77.0	0.0	.	527	.	0.204301	0	none	.	.	PASS	Atlas-Indel,Pindel
KSR1	8844	hgsc.bcm.edu	hg19	17	25919630	25919630	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	KSR1	NM_014238	exon9	c.865delC	p.L289fs	.	.	78.0	20.0	50.0	0.0	.	151	.	0.25641	0	none	.	.	PASS	Atlas-Indel,Pindel
FAT1	2195	hgsc.bcm.edu	hg19	4	187629592	187629593	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	FAT1	NM_005245	exon2	c.1390_1391insT	p.T464fs	.	.	103.0	25.0	109.0	0.0	.	500	.	0.242718	0	none	.	.	PASS	Atlas-Indel,Pindel
TLR1	7096	hgsc.bcm.edu	hg19	4	38800432	38800432	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TLR1	NM_003263	exon4	c.22delG	p.A8fs	.	.	317.0	70.0	285.0	0.0	.	70	.	0.22082	0	none	.	.	PASS	Atlas-Indel,Pindel
MLL3	58508	hgsc.bcm.edu	hg19	7	151856014	151856014	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	MLL3	NM_170606	exon44	c.11605delA	p.K3869fs	.	.	98.0	14.0	63.0	0.0	.	1564	.	0.142857	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF627	199692	hgsc.bcm.edu	hg19	19	11728063	11728063	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF627	NM_145295	exon4	c.744delT	p.D248fs	.	.	132.0	21.0	138.0	0.0	.	43	.	0.159091	0	none	.	.	PASS	Atlas-Indel,Pindel
POMT1	10585	hgsc.bcm.edu	hg19	9	134394275	134394276	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	POMT1	NM_007171	exon15	c.1482_1483del	p.494_495del	.	.	110.0	17.0	124.0	0.0	.	59	.	0.154545	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF628	89887	hgsc.bcm.edu	hg19	19	55992958	55992958	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF628	NM_033113	exon3	c.397delT	p.S133fs	.	.	90.0	15.0	98.0	0.0	.	75	.	0.166667	0	none	.	.	PASS	Atlas-INDEL
HTR3D	200909	hgsc.bcm.edu	hg19	3	183756708	183756709	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	HTR3D	NM_001163646	exon8	c.1310_1311insT	p.Y437fs	.	.	140.0	33.0	139.0	0.0	.	65	.	0.235714	0	none	.	.	PASS	Atlas-Indel,Pindel
FOXJ1	2302	hgsc.bcm.edu	hg19	17	74136299	74136299	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	FOXJ1	NM_001454	exon2	c.179delA	p.H60fs	.	.	45.0	18.0	60.0	0.0	.	11	.	0.4	0	none	.	.	PASS	Atlas-Indel,Pindel
CROCC	9696	hgsc.bcm.edu	hg19	1	17256398	17256398	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	CROCC	NM_014675	exon4	c.408delG	p.G136fs	.	.	54.0	10.0	54.0	0.0	.	185	.	0.185185	0	none	.	.	PASS	Atlas-INDEL
TRIP11	9321	hgsc.bcm.edu	hg19	14	92469868	92469876	+	In_Frame_Del	DEL	CTCTTGTAA	CTCTTGTAA	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	CTCTTGTAA	CTCTTGTAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TRIP11	NM_004239	exon11	c.4445_4453del	p.1482_1485del	.	.	99.0	13.0	83.0	0.0	.	184	.	0.131313	0	none	.	.	PASS	Atlas-Indel,Pindel
C3orf22	152065	hgsc.bcm.edu	hg19	3	126270916	126270916	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	C3orf22	NM_152533	exon3	c.140delT	p.V47fs	.	.	61.0	18.0	45.0	0.0	.	17	.	0.295082	0	none	.	.	PASS	Atlas-Indel,Pindel
TSR1	55720	hgsc.bcm.edu	hg19	17	2238104	2238110	+	Frame_Shift_Del	DEL	AGCGCTT	AGCGCTT	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	AGCGCTT	AGCGCTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	TSR1	NM_018128	exon5	c.638_644del	p.213_215del	.	.	92.0	23.0	86.0	0.0	.	57	.	0.25	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF628	89887	hgsc.bcm.edu	hg19	19	55992960	55992961	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-GL-A9DD-01A-11D-A36X-10	TCGA-GL-A9DD-10A-01D-A370-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7bd84624-b7e4-417d-aff5-1b303bb9d686	62afbca2-3422-4619-8efb-351ae7a8221a	.	ZNF628	NM_033113	exon3	c.399_400del	p.133_134del	.	.	93.0	12.0	100.0	0.0	.	75	.	0.129	.	none	.	.	PASS	Pindel
