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
GNB1	2782	hgsc.bcm.edu	hg19	1	1720557	1720557	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	GNB1	NM_002074	exon10	c.T851G	p.L284R	AGGAGGAGGCGCC	.	145.0	67.0	143.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC16	23341	hgsc.bcm.edu	hg19	1	15855696	15855696	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	DNAJC16	NM_015291	exon2	c.A96C	p.R32S	ATACAGAGTCCTA	.	120.0	47.0	106.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19500887	19500887	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	UBR4	NM_020765	exon22	c.C2908A	p.L970M	CTGTCAGTGCAGC	.	37.0	11.0	52.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
USP48	84196	hgsc.bcm.edu	hg19	1	22073615	22073615	+	Silent	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	USP48	NM_001032730	exon8	c.T936C	p.N312N	GTAGGTATTCAGC	.	18.0	5.0	18.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
MECR	51102	hgsc.bcm.edu	hg19	1	29520638	29520638	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MECR	NM_016011	exon10	c.C1018G	p.L340V	CTGTGAGCTGGCC	.	96.0	30.0	67.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	hg19	1	62271194	62271194	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	INADL	NM_176877	exon13	c.A1624G	p.M542V	GAAGTAATGGTAT	.	73.0	25.0	54.0	0.0	.	179	.	.	.	none	.	.	PASS	Atlas-SNP
PRMT6	55170	hgsc.bcm.edu	hg19	1	107599742	107599742	+	Silent	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PRMT6	NM_018137	exon1	c.C405T	p.V135V	GCACGTCCTGCCG	.	24.0	8.0	20.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
CRNN	49860	hgsc.bcm.edu	hg19	1	152384603	152384603	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CRNN	NM_016190	exon2	c.T107C	p.L36P	TCCAAGAGTCTTT	.	170.0	74.0	136.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
DENND4B	9909	hgsc.bcm.edu	hg19	1	153907287	153907287	+	Missense_Mutation	SNP	G	G	C	rs199597671		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	DENND4B	NM_014856	exon18	c.C2722G	p.Q908E	GCTGCTGCTGCTG	.	90.0	9.0	45.0	0.0	.	210	.	.	.	weak	.	.	PASS	Atlas-SNP
DENND4B	9909	hgsc.bcm.edu	hg19	1	153907297	153907297	+	Silent	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	DENND4B_ENST00000361217,NS,carcinoma,0,6	DENND4B	NM_014856	exon18	c.G2712A	p.Q904Q	CTGCTGCTGCTGC	.	100.0	20.0	80.0	0.0	.	210	.	.	.	none	.	.	PASS	Atlas-SNP
HDGF	3068	hgsc.bcm.edu	hg19	1	156713547	156713547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	HDGF	NM_001126050	exon5	c.G661A	p.G221S	CAGAGCCGGGCTC	.	63.0	33.0	28.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
IPO9	55705	hgsc.bcm.edu	hg19	1	201842054	201842054	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	IPO9	NM_018085	exon20	c.A2675C	p.D892A	GCATGGATGAGGG	.	181.0	78.0	180.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
CENPF	1063	hgsc.bcm.edu	hg19	1	214813548	214813548	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CENPF	NM_016343	exon12	c.A1867T	p.K623X	TGTTGGAAAAGTG	.	51.0	21.0	64.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
EPRS	2058	hgsc.bcm.edu	hg19	1	220154162	220154162	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	EPRS	NM_004446	exon25	c.C3491G	p.T1164S	TCACGAGTACGTA	.	207.0	80.0	202.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf65	164127	hgsc.bcm.edu	hg19	1	223567036	223567036	+	Silent	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	C1orf65	NM_152610	exon1	c.C219T	p.R73R	CAGGCGCGGGTGC	.	50.0	17.0	1.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
OR2M5	127059	hgsc.bcm.edu	hg19	1	248309355	248309355	+	Silent	SNP	G	G	A	rs201158893		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	OR2M5	NM_001004690	exon1	c.G906A	p.R302R	ACTCAGGAAAGTG	.	175.0	8.0	137.0	0.0	.	117	.	.	.	weak	G|0.999;A|0.001	0.001	PASS	Atlas-SNP
MXD1	4084	hgsc.bcm.edu	hg19	2	70165384	70165384	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MXD1	NM_002357	exon6	c.C634G	p.Q212E	AAGCTGCAGGACA	.	335.0	22.0	328.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
RGPD4	285190	hgsc.bcm.edu	hg19	2	108488583	108488583	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RGPD4	NM_182588	exon20	c.A4123G	p.K1375E	CAATGGAAAGAAA	.	290.0	198.0	237.0	1.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
SP5	389058	hgsc.bcm.edu	hg19	2	171572792	171572792	+	Silent	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	SP5	NM_001003845	exon2	c.G75A	p.P25P	CTCCCCGGACCTG	.	5.0	5.0	1.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
FZD7	8324	hgsc.bcm.edu	hg19	2	202900342	202900342	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	FZD7	NM_003507	exon1	c.C972G	p.Y324X	TGGCTACCGCACG	.	217.0	67.0	179.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
FAM117B	150864	hgsc.bcm.edu	hg19	2	203500481	203500481	+	Silent	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	FAM117B	NM_173511	exon1	c.A571C	p.R191R	GAGAAGAGGAGCC	.	5.0	5.0	0.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
RPE	6120	hgsc.bcm.edu	hg19	2	210881324	210881324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RPE	NM_199229	exon4	c.G436A	p.G146R	GAACCGGGGTTTG	.	159.0	118.0	177.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
BHLHE40	8553	hgsc.bcm.edu	hg19	3	5024970	5024970	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	BHLHE40	NM_003670	exon5	c.A832C	p.I278L	GGCGCAATTAAGC	.	96.0	38.0	82.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
XPC	7508	hgsc.bcm.edu	hg19	3	14188804	14188804	+	Missense_Mutation	SNP	G	G	C	rs373301509	alternate_allele	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	XPC	NM_004628	exon15	c.C2590G	p.R864G	CGTAGCGACGCTT	.	110.0	8.0	60.0	0.0	.	60	.	.	.	alt	.	.	PASS	Atlas-SNP
DAG1	1605	hgsc.bcm.edu	hg19	3	49568609	49568609	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	DAG1	NM_001177642	exon4	c.T665C	p.L222P	TAGAGCTTCACAA	.	116.0	47.0	124.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
MAPKAPK3	7867	hgsc.bcm.edu	hg19	3	50685441	50685441	+	Silent	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MAPKAPK3	NM_004635	exon11	c.C1113G	p.G371G	GGCAGGCAGCTCC	.	260.0	110.0	246.0	1.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
MAGI1	9223	hgsc.bcm.edu	hg19	3	65425597	65425597	+	Silent	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MAGI1	NM_001033057	exon9	c.G1227A	p.Q409Q	TTGCTGCTGCTGT	.	41.0	7.0	38.0	0.0	.	481	.	.	.	none	.	.	PASS	Atlas-SNP
ABHD10	55347	hgsc.bcm.edu	hg19	3	111710242	111710242	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ABHD10	NM_018394	exon5	c.A595C	p.M199L	GTAGAGATGAAAG	.	151.0	34.0	154.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ARRDC3	57561	hgsc.bcm.edu	hg19	5	90669948	90669948	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ARRDC3	NM_020801	exon6	c.T1016G	p.L339R	TCAGGAAGTGATA	.	113.0	33.0	105.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
PAM	5066	hgsc.bcm.edu	hg19	5	102285295	102285295	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PAM	NM_138822	exon9	c.C698T	p.A233V	TCTTTGCCTATAG	.	259.0	24.0	264.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	hg19	5	140788348	140788348	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PCDHGB6	NM_032100	exon1	c.G579T	p.E193D	CCCAGAGTTATCT	.	53.0	22.0	38.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
SPINK1	6690	hgsc.bcm.edu	hg19	5	147207646	147207646	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	SPINK1	NM_003122	exon3	c.C133T	p.P45S	AGACAGGGTCATA	.	114.0	24.0	106.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
FNDC9	408263	hgsc.bcm.edu	hg19	5	156770121	156770121	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	FNDC9	NM_001001343	exon2	c.G424T	p.E142X	GCGGCTCATGGCA	.	136.0	43.0	116.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
FAM65B	9750	hgsc.bcm.edu	hg19	6	24843494	24843494	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	FAM65B	NM_014722	exon14	c.G1516C	p.E506Q	GCTCCTCTGGGTC	.	99.0	33.0	83.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
HLA-E	3133	hgsc.bcm.edu	hg19	6	30459405	30459405	+	Silent	SNP	T	T	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	HLA-E	NM_005516	exon5	c.T978C	p.A326A	TGCTGCTGTGATA	.	100.0	27.0	100.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
PRICKLE4	29964	hgsc.bcm.edu	hg19	6	41751890	41751890	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PRICKLE4	NM_013397	exon4	c.G154A	p.G52S	AGCTTGGGTTCCC	.	169.0	58.0	154.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
CASP8AP2	9994	hgsc.bcm.edu	hg19	6	90578032	90578032	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CASP8AP2	NM_001137667	exon8	c.G5023C	p.V1675L	CACTCTGTTGGGG	.	62.0	29.0	75.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
NFE2L3	9603	hgsc.bcm.edu	hg19	7	26224503	26224503	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	NFE2L3,colon,carcinoma,0,1	NFE2L3	NM_004289	exon4	c.G1185T	p.M395I	CTTAATGTCATTG	.	80.0	29.0	93.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
POU6F2	11281	hgsc.bcm.edu	hg19	7	39500162	39500162	+	Silent	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	POU6F2	NM_007252	exon10	c.G1419T	p.A473A	GGCAGCGGGTGAG	.	100.0	4.0	122.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	hg19	8	121357692	121357692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	COL14A1	NM_021110	exon45	c.C4967T	p.P1656L	GGCCTCCTGGGGA	.	97.0	40.0	103.0	0.0	.	292	.	.	.	none	.	.	PASS	Atlas-SNP
AGO2	27161	hgsc.bcm.edu	hg19	8	141557696	141557696	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_012154	exon13	c.T1619C	p.L540P	ATCCCCAGCACCG	.	110.0	38.0	111.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	hg19	9	77435298	77435298	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	TRPM6	NM_017662	exon9	c.G1056C	p.Q352H	AGTGTTCTGAATC	.	87.0	8.0	83.0	0.0	.	377	.	.	.	none	.	.	PASS	Atlas-SNP
TEX10	54881	hgsc.bcm.edu	hg19	9	103109141	103109141	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	TEX10	NM_001161584	exon3	c.G737C	p.S246T	AACCTACTGGATC	.	84.0	28.0	83.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
EGFL7	51162	hgsc.bcm.edu	hg19	9	139564703	139564703	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	EGFL7	NM_016215	exon8	c.G492C	p.W164C	GTGTTGGGAGGGG	.	157.0	47.0	129.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
TRAF2	7186	hgsc.bcm.edu	hg19	9	139794876	139794876	+	Silent	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	TRAF2	NM_021138	exon4	c.C270G	p.A90A	CCAGGCCTTCCCA	.	50.0	14.0	51.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
VIM	7431	hgsc.bcm.edu	hg19	10	17278345	17278345	+	Silent	SNP	T	T	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	VIM	NM_003380	exon9	c.T1326G	p.L442L	GACACTTCTGATT	.	91.0	39.0	75.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	hg19	10	24873742	24873742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	ARHGAP21,right_upper_lobe,carcinoma,0,1	ARHGAP21	NM_020824	exon26	c.G5476A	p.G1826R	TCTCCCCGCTCTG	.	101.0	53.0	93.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
RBP3	5949	hgsc.bcm.edu	hg19	10	48388918	48388918	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RBP3	NM_002900	exon1	c.C1960G	p.P654A	CCTCTGGCCGAGC	.	102.0	43.0	58.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	hg19	10	50681040	50681040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ERCC6	NM_000124	exon15	c.C2744A	p.T915N	CCCACCCGCGTGG	.	231.0	92.0	224.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
CSTF2T	23283	hgsc.bcm.edu	hg19	10	53458361	53458361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	CSTF2T,rectum,carcinoma,0,1	CSTF2T	NM_015235	exon1	c.G949A	p.G317R	CGGGTCCGCGAGG	.	64.0	14.0	59.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
COL13A1	1305	hgsc.bcm.edu	hg19	10	71562297	71562297	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	COL13A1	NM_080802	exon1	c.C118T	p.P40S	CGGCTGCCGAGTC	.	17.0	4.0	0.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
RNLS	55328	hgsc.bcm.edu	hg19	10	90342858	90342858	+	Silent	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RNLS	NM_001031709	exon1	c.T90G	p.L30L	CACAGCAAGGTAC	.	164.0	57.0	121.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
NOC3L	64318	hgsc.bcm.edu	hg19	10	96121495	96121495	+	Silent	SNP	T	T	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	NOC3L	NM_022451	exon2	c.A144G	p.K48K	CCTTAGTTTCCTC	.	79.0	27.0	93.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
PDZD8	118987	hgsc.bcm.edu	hg19	10	119134718	119134718	+	Silent	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PDZD8	NM_173791	exon1	c.C21A	p.I7I	CGCCAGGATCATG	.	59.0	38.0	10.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
ZFP91	80829	hgsc.bcm.edu	hg19	11	58346868	58346868	+	Silent	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ZFP91	NM_001197051	exon1	c.G114A	p.A38A	GGTCGCGGCGGCG	.	15.0	8.0	0.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
ATG2A	23130	hgsc.bcm.edu	hg19	11	64681557	64681557	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ATG2A	NM_015104	exon3	c.G483T	p.E161D	ACCAGTCTCAATG	.	154.0	54.0	129.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
C11orf80	79703	hgsc.bcm.edu	hg19	11	66610492	66610492	+	Silent	SNP	C	C	T	rs369989753		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	C11orf80,right_upper_lobe,carcinoma,0,1	C11orf80	NM_024650	exon16	c.C1920T	p.H640H	GGCTCACGGCAGG	.	9.0	6.0	1.0	1.0	.	31	.	.	.	weak	.	.	PASS	Atlas-SNP
FOLR2	2350	hgsc.bcm.edu	hg19	11	71931920	71931920	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	FOLR2,NS,carcinoma,0,1	FOLR2	NM_001113535	exon3	c.C157A	p.P53T	TGCAGTCCCTGGA	.	105.0	37.0	103.0	2.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
LIPT2	387787	hgsc.bcm.edu	hg19	11	74204479	74204479	+	Silent	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	LIPT2	NM_001144869	exon1	c.C270A	p.T90T	GTGGAAGGTGGCC	.	6.0	6.0	0.0	0.0	.	5	.	.	.	none	.	.	PASS	Atlas-SNP
BARX2	8538	hgsc.bcm.edu	hg19	11	129321185	129321185	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	BARX2	NM_003658	exon4	c.T728A	p.L243H	AGGAGCTCTGTGA	.	134.0	53.0	143.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SHMT2	6472	hgsc.bcm.edu	hg19	12	57624649	57624649	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	SHMT2	NM_005412	exon2	c.C97G	p.Q33E	GCAGCCCAGACTC	.	402.0	161.0	346.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
FAM216A	29902	hgsc.bcm.edu	hg19	12	110906786	110906786	+	Missense_Mutation	SNP	C	C	T	rs202079205	bycluster	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_013300	exon1	c.C106T	p.P36S	GCAGAGCCGCCCG	.	22.0	15.0	0.0	0.0	.	.	.	.	.	weak	.	.	PASS	Atlas-SNP
CLYBL	171425	hgsc.bcm.edu	hg19	13	100258999	100258999	+	Missense_Mutation	SNP	C	C	T	rs200020595		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CLYBL	NM_206808	exon1	c.C50T	p.A17V	CGGCGGCGCTGCT	.	16.0	12.0	0.0	0.0	.	48	.	.	.	weak	.	.	PASS	Atlas-SNP
LGALS3	3958	hgsc.bcm.edu	hg19	14	55604955	55604955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	LGALS3	NM_002306	exon3	c.C211T	p.P71S	GCTTATCCCGGAG	.	78.0	29.0	61.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	hg19	14	68268851	68268851	+	Silent	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ZFYVE26	NM_015346	exon10	c.C1584A	p.L528L	CTCAGAGAGGCTG	.	188.0	71.0	128.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
GPR65	8477	hgsc.bcm.edu	hg19	14	88478074	88478074	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	GPR65	NM_003608	exon2	c.G883A	p.E295K	GTAACCGAAACAG	.	185.0	10.0	204.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
CEP170B	283638	hgsc.bcm.edu	hg19	14	105350539	105350539	+	Missense_Mutation	SNP	C	C	T	rs373443985		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_001112726	exon9	c.C1423T	p.R475W	GAGGAACGGCTGG	.	8.0	4.0	0.0	0.0	.	.	.	.	.	weak	.	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	hg19	15	24923447	24923447	+	Silent	SNP	T	T	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_018958	exon1	c.T2433A	p.S811S	TGCCTCTGCAGCA	.	69.0	4.0	50.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
OTUD7A	161725	hgsc.bcm.edu	hg19	15	31818596	31818596	+	Silent	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	OTUD7A	NM_130901	exon6	c.C828T	p.S276S	CGGCTCGCTGGAG	.	22.0	5.0	25.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
C15orf53	400359	hgsc.bcm.edu	hg19	15	38988831	38988831	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	C15orf53	NM_207444	exon1	c.A23C	p.E8A	CCCAAGAGGACCT	.	159.0	46.0	134.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	hg19	15	52680095	52680095	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MYO5A	NM_000259	exon14	c.T1683G	p.C561W	TCCTTCACACTGG	.	15.0	5.0	13.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	hg19	15	52680096	52680096	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MYO5A	NM_000259	exon14	c.G1682T	p.C561F	CCTTCACACTGGT	.	13.0	5.0	13.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	hg19	16	707787	707787	+	Silent	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	WDR90	NM_145294	exon21	c.C2499T	p.P833P	TGCCCCCGCGAGC	.	281.0	89.0	35.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
VASN	114990	hgsc.bcm.edu	hg19	16	4432672	4432672	+	Silent	SNP	T	T	C	rs370088997		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	VASN	NM_138440	exon2	c.T1794C	p.C598C	CTACTGTGTGCGG	.	19.0	4.0	2.0	0.0	.	21	.	.	.	weak	.	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	hg19	16	24788401	24788401	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	TNRC6A,NS,carcinoma,0,1	TNRC6A	NM_014494	exon5	c.C311A	p.P104Q	AGCAGCCGCAGCA	.	128.0	8.0	49.0	1.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	hg19	16	31414951	31414951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ITGAD	NM_005353	exon7	c.G689A	p.G230D	CCACGGGCATCCT	.	157.0	59.0	143.0	0.0	.	154	.	.	.	none	.	.	PASS	Atlas-SNP
PHKB	5257	hgsc.bcm.edu	hg19	16	47622955	47622955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PHKB	NM_000293	exon10	c.G1010A	p.G337E	GAGATGGGTATAG	.	107.0	27.0	69.0	0.0	.	298	.	.	.	none	.	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	hg19	16	88800408	88800408	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	PIEZO1	NM_001142864	exon17	c.G2235T	p.Q745H	CTGCTGCTGATGC	.	159.0	16.0	88.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
DBNDD1	79007	hgsc.bcm.edu	hg19	16	90075270	90075270	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	DBNDD1	NM_024043	exon3	c.A301T	p.T101S	TGTCGGTGAGCTC	.	119.0	28.0	61.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	hg19	17	5086862	5086862	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	ZNF594,NS,carcinoma,0,1	ZNF594	NM_032530	exon2	c.G690C	p.Q230H	GATTCTCTGGTGC	.	68.0	32.0	73.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26971163	26971163	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	KIAA0100	NM_014680	exon2	c.G111T	p.K37N	CTGCAGCTTCCGC	.	77.0	25.0	90.0	0.0	.	175	.	.	.	none	.	.	PASS	Atlas-SNP
NUFIP2	57532	hgsc.bcm.edu	hg19	17	27614566	27614566	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	NUFIP2	NM_020772	exon2	c.T446C	p.I149T	GTTTTAATTCCTG	.	67.0	4.0	60.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL11	55175	hgsc.bcm.edu	hg19	17	40011371	40011371	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	KLHL11	NM_018143	exon2	c.A748G	p.R250G	AGTCTCTAATGAG	.	61.0	33.0	64.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
KAT2A	2648	hgsc.bcm.edu	hg19	17	40269761	40269761	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	KAT2A	NM_021078	exon9	c.C1363G	p.P455A	CCATGGGGATGTC	.	132.0	53.0	107.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
KAT7	11143	hgsc.bcm.edu	hg19	17	47869395	47869395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_001199158	exon2	c.G163A	p.G55R	TCTCAAGGTAAAA	.	36.0	11.0	25.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CELF5	60680	hgsc.bcm.edu	hg19	19	3285978	3285978	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CELF5	NM_021938	exon10	c.A1141T	p.S381C	GCGCACAGCGTCC	.	67.0	37.0	4.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ATP13A1	57130	hgsc.bcm.edu	hg19	19	19758062	19758062	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ATP13A1	NM_020410	exon22	c.A2981G	p.N994S	AGGGCATTGAGCG	.	99.0	19.0	63.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
GRAMD1A	57655	hgsc.bcm.edu	hg19	19	35506763	35506763	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	GRAMD1A	NM_020895	exon11	c.C1105T	p.R369C	TCCGGCCGCCTCC	.	106.0	43.0	93.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
RSPH6A	81492	hgsc.bcm.edu	hg19	19	46305454	46305454	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RSPH6A	NM_030785	exon4	c.G1722C	p.E574D	TGCCTTCTCTTCC	.	139.0	50.0	107.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	hg19	19	48183987	48183987	+	Silent	SNP	G	G	T	rs377326337	alternate_allele	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	GLTSCR1	NM_015711	exon6	c.G1560T	p.L520L	GAACCTGGCGGGC	.	108.0	42.0	25.0	0.0	.	79	.	.	.	alt	.	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	hg19	20	62378613	62378613	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ZBTB46	NM_025224	exon5	c.C1440A	p.S480R	GACGCGGCTGCAC	.	138.0	52.0	64.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
RRP7A	27341	hgsc.bcm.edu	hg19	22	42912080	42912080	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RRP7A	NM_015703	exon3	c.G279T	p.K93N	GTCCGGCTTCTCC	.	121.0	50.0	119.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	hg19	1	226924770	226924784	+	In_Frame_Del	DEL	CTTCCTCTTGGCCTC	CTTCCTCTTGGCCTC	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	CTTCCTCTTGGCCTC	CTTCCTCTTGGCCTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	ITPKB	NM_002221	exon2	c.377_391del	p.126_131del	.	.	78.0	17.0	58.0	0.0	.	158	.	0.217949	0	none	.	.	PASS	Atlas-Indel,Pindel
TLR5	7100	hgsc.bcm.edu	hg19	1	223285316	223285316	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	TLR5	NM_003268	exon6	c.1059delT	p.S353fs	.	.	57.0	25.0	46.0	0.0	.	86	.	0.438596	0	none	.	.	PASS	Atlas-Indel,Pindel
MICAL3	57553	hgsc.bcm.edu	hg19	22	18300505	18300505	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MICAL3	NM_015241	exon26	c.4923delG	p.Q1641fs	.	.	29.0	12.0	4.0	0.0	.	53	.	0.413793	0	none	.	.	PASS	Atlas-INDEL
YOD1	55432	hgsc.bcm.edu	hg19	1	207222409	207222409	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	YOD1	NM_018566	exon2	c.1004delA	p.E335fs	.	.	131.0	40.0	141.0	0.0	.	24	.	0.305344	0	none	.	.	PASS	Atlas-Indel,Pindel
GAREM	64762	hgsc.bcm.edu	hg19	18	29867165	29867165	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	.	NM_022751	exon4	c.1396delC	p.Q466fs	.	.	66.0	27.0	93.0	0.0	.	.	.	0.409091	0	none	.	.	PASS	Atlas-Indel,Pindel
UMOD	7369	hgsc.bcm.edu	hg19	16	20355497	20355497	+	Splice_Site	DEL	G	G	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	UMOD	NM_003361	exon7	c.1183-2C>-	.	.	.	169.0	99.0	109.0	0.0	.	128	.	0.585799	0	none	.	.	PASS	Atlas-Indel,Pindel
CUL3	8452	hgsc.bcm.edu	hg19	2	225449678	225449678	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CUL3	NM_001257197	exon1	c.50delG	p.R17fs	.	.	126.0	89.0	76.0	0.0	.	96	.	0.706349	0	none	.	.	PASS	Atlas-INDEL
RFX6	222546	hgsc.bcm.edu	hg19	6	117203548	117203548	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	RFX6	NM_173560	exon4	c.522delT	p.F174fs	.	.	77.0	35.0	54.0	0.0	.	141	.	0.454545	0	none	.	.	PASS	Atlas-Indel,Pindel
NEFH	4744	hgsc.bcm.edu	hg19	22	29885589	29885590	+	In_Frame_Ins	INS	-	-	CCCCTGAGAAGGCCAAGT	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.,4	NEFH	NM_021076	exon4	c.1960_1961insCCCCTGAGAAGGCCAAGT	p.S654delinsSPEKAKS	.	.	201.0	77.0	158.0	0.0	.	178	.	0.383085	0	none	.	.	PASS	Atlas-INDEL
MYH15	22989	hgsc.bcm.edu	hg19	3	108174686	108174687	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	MYH15	NM_014981	exon21	c.2219_2220insA	p.R740fs	.	.	55.0	15.0	38.0	0.0	.	223	.	0.272727	0	none	.	.	PASS	Atlas-Indel,Pindel
CCDC41	51134	hgsc.bcm.edu	hg19	12	94763803	94763804	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CCDC41	NM_001042399	exon8	c.943_944insA	p.L315fs	.	.	58.0	21.0	62.0	0.0	.	59	.	0.362069	0	none	.	.	PASS	Atlas-Indel,Pindel
CUL3	8452	hgsc.bcm.edu	hg19	2	225449678	225449679	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CUL3	NM_001257197	exon1	c.49_50del	p.17_17del	.	.	129.0	50.0	79.0	0.0	.	96	.	0.388	.	none	.	.	PASS	Pindel
CCDC18	343099	hgsc.bcm.edu	hg19	1	93705010	93705043	+	Frame_Shift_Del	DEL	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	-	novel		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	.	CCDC18	NM_206886	exon20	c.2746_2767del	p.916_923del	.	.	130.0	14.0	168.0	0.0	.	93	.	0.108	.	none	.	.	PASS	Pindel