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
AGTRAP	57085	hgsc.bcm.edu	hg19	1	11810188	11810188	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	AGTRAP	NM_020350	exon5	c.A419C	p.E140A	CAGCAGAGGCGCC	.	60.0	11.0	75.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA2013	90231	hgsc.bcm.edu	hg19	1	11985315	11985315	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	KIAA2013	NM_138346	exon1	c.C980T	p.A327V	TCCGCCGCTGGCA	.	150.0	25.0	135.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	hg19	1	39901268	39901268	+	Silent	SNP	T	T	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	MACF1	NM_012090	exon66	c.T11637A	p.I3879I	TCATATTGACAAA	.	229.0	45.0	187.0	0.0	.	909	.	.	.	none	.	.	PASS	Atlas-SNP
SMAP2	64744	hgsc.bcm.edu	hg19	1	40880943	40880943	+	Splice_Site	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	SMAP2	NM_022733	exon7	c.572-1G>T	.	TTTCTAGATGCTC	.	105.0	9.0	106.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
S100A7L2	645922	hgsc.bcm.edu	hg19	1	153410759	153410759	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	S100A7L2	NM_001045479	exon2	c.T80A	p.M27K	CGAAACATCGCGA	.	88.0	18.0	91.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CD1D	912	hgsc.bcm.edu	hg19	1	158152692	158152692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	CD1D	NM_001766	exon5	c.G632A	p.R211H	TGTCCCGTGGCCC	.	140.0	22.0	123.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL29	114818	hgsc.bcm.edu	hg19	2	23918521	23918521	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	KLHL29_ENST00000486442,caecum,carcinoma,0,2	KLHL29	NM_052920	exon9	c.G1571T	p.R524L	TGGTCCGCCTCCC	.	45.0	2.0	53.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
CCT4	10575	hgsc.bcm.edu	hg19	2	62099619	62099619	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	CCT4	NM_006430	exon11	c.T1230G	p.C410W	AATAACACATAGG	.	188.0	27.0	177.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	hg19	2	98736067	98736067	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	VWA3B	NM_144992	exon4	c.G383A	p.S128N	TCACCAGCAAGAG	.	137.0	6.0	119.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	hg19	2	196825319	196825319	+	Silent	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	DNAH7	NM_018897	exon18	c.G2556A	p.R852R	CCAGTGCCTGGGG	.	73.0	12.0	88.0	0.0	.	512	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE20	64145	hgsc.bcm.edu	hg19	3	15132018	15132018	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ZFYVE20	NM_022340	exon5	c.G177C	p.K59N	CCTGTCCTTTGCT	.	109.0	15.0	94.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	hg19	3	122437700	122437700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	PARP14	NM_017554	exon14	c.G4702A	p.D1568N	ACAGTTGATGTCA	.	163.0	25.0	113.0	0.0	.	242	.	.	.	none	.	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	hg19	3	122437701	122437701	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	PARP14	NM_017554	exon14	c.A4703T	p.D1568V	CAGTTGATGTCAA	.	161.0	25.0	111.0	0.0	.	242	.	.	.	none	.	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	hg19	3	129285459	129285459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	PLXND1	NM_015103	exon23	c.G4102A	p.E1368K	GCTCTTCATAAAG	.	53.0	18.0	44.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
PLOD2	5352	hgsc.bcm.edu	hg19	3	145841934	145841934	+	Silent	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	PLOD2	NM_182943	exon2	c.T192C	p.Y64Y	CACAGTATAATTG	.	72.0	11.0	57.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
OTUD4	54726	hgsc.bcm.edu	hg19	4	146071985	146071985	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	OTUD4	NM_001102653	exon12	c.A846T	p.K282N	GGAAGGTTTTTTC	.	86.0	18.0	95.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
RXFP1	59350	hgsc.bcm.edu	hg19	4	159568062	159568062	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	RXFP1,NS,carcinoma,-1,1	RXFP1	NM_001253727	exon16	c.G1546C	p.G516R	CTTGTAGGATCTT	.	108.0	16.0	127.0	1.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
FNIP2	57600	hgsc.bcm.edu	hg19	4	159690401	159690401	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	FNIP2	NM_020840	exon1	c.A37G	p.R13G	AACAAAAGGGGCA	.	86.0	4.0	63.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
KCTD16	57528	hgsc.bcm.edu	hg19	5	143586905	143586905	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	KCTD16	NM_020768	exon3	c.A628T	p.N210Y	ACTTTGAATGAAA	.	167.0	31.0	149.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
SFXN1	94081	hgsc.bcm.edu	hg19	5	174937182	174937182	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	SFXN1	NM_022754	exon4	c.A406G	p.R136G	ACCAACAGAAGTG	.	105.0	18.0	79.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF318	24149	hgsc.bcm.edu	hg19	6	43316086	43316086	+	Silent	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	ZNF318,NS,carcinoma,-1,1	ZNF318	NM_014345	exon6	c.G3048A	p.S1016S	TGAGAACGATGAC	.	126.0	18.0	109.0	0.0	.	175	.	.	.	none	.	.	PASS	Atlas-SNP
AP4M1	9179	hgsc.bcm.edu	hg19	7	99702504	99702504	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	AP4M1,NS,carcinoma,0,1	AP4M1	NM_004722	exon8	c.T614A	p.L205Q	GATCCCTGCTGAA	.	115.0	29.0	102.0	1.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ACHE	43	hgsc.bcm.edu	hg19	7	100488697	100488697	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ACHE	NM_015831	exon5	c.C1736A	p.P579H	GTGCTGGGAGCCT	.	253.0	23.0	203.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	hg19	7	101882669	101882669	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	CUX1	NM_001202543	exon23	c.A3725C	p.E1242A	GCACCGAGTACAG	.	96.0	24.0	81.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
EFCAB1	79645	hgsc.bcm.edu	hg19	8	49644024	49644024	+	Missense_Mutation	SNP	A	A	T	rs201126478	alternate_allele	TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	EFCAB1	NM_024593	exon2	c.T97A	p.Y33N	AGTCATAAAAAAG	.	93.0	15.0	118.0	0.0	.	27	.	.	.	alt	A|0.999;G|0.001	.	PASS	Atlas-SNP
TMEM65	157378	hgsc.bcm.edu	hg19	8	125335567	125335567	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	TMEM65	NM_194291	exon4	c.T467C	p.M156T	CCTGCCATAGTTG	.	368.0	90.0	339.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	hg19	9	116931634	116931634	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	COL27A1	NM_032888	exon3	c.C1799T	p.S600F	TGTCCTCCAGCCC	.	38.0	8.0	36.0	0.0	.	200	.	.	.	none	.	.	PASS	Atlas-SNP
C5	727	hgsc.bcm.edu	hg19	9	123738998	123738998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	C5	NM_001735	exon29	c.G3844A	p.G1282S	AGCCACCTCCATA	.	157.0	38.0	152.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61956291	61956291	+	Silent	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ANK3	NM_020987	exon15	c.T1782C	p.A594A	CTTCCCAGCAGCA	.	58.0	13.0	56.0	0.0	.	703	.	.	.	none	.	.	PASS	Atlas-SNP
COX15	1355	hgsc.bcm.edu	hg19	10	101480822	101480822	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	COX15	NM_078470	exon6	c.C754G	p.P252A	TTTCAGGCAACTA	.	121.0	14.0	116.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
GDPD5	81544	hgsc.bcm.edu	hg19	11	75160942	75160942	+	Silent	SNP	C	C	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	GDPD5	NM_030792	exon7	c.G462T	p.L154L	GGAGATCAGCAGC	.	106.0	22.0	103.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	hg19	12	12279762	12279762	+	Missense_Mutation	SNP	A	A	G	rs373215297		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	LRP6	NM_002336	exon20	c.T4175C	p.F1392S	CAGATAAAGTATA	.	104.0	8.0	135.0	0.0	.	170	.	.	.	weak	.	.	PASS	Atlas-SNP
RBMS2	5939	hgsc.bcm.edu	hg19	12	56975290	56975290	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	RBMS2	NM_002898	exon7	c.A730G	p.M244V	GCAGACATGGTAA	.	78.0	15.0	80.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
BEST3	144453	hgsc.bcm.edu	hg19	12	70072597	70072597	+	Silent	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	BEST3	NM_032735	exon5	c.C558T	p.I186I	AAACCAGATGAAT	.	74.0	6.0	96.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
GIT2	9815	hgsc.bcm.edu	hg19	12	110403363	110403363	+	Silent	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	GIT2	NM_001135213	exon10	c.T790C	p.L264L	TTGCCAATTCAGA	.	187.0	8.0	183.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
ZIC2	7546	hgsc.bcm.edu	hg19	13	100637680	100637680	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ZIC2	NM_007129	exon3	c.A1343G	p.Q448R	AGCCCCAGAGCAG	.	249.0	35.0	274.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73562439	73562439	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	NEO1	NM_001172623	exon17	c.G2583C	p.Q861H	AGTTCAGGCTTCC	.	101.0	17.0	124.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D2B	23102	hgsc.bcm.edu	hg19	15	78316564	78316564	+	Silent	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	TBC1D2B	NM_144572	exon6	c.C1404A	p.T468T	CGCCACGGTGGGA	.	56.0	4.0	55.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf62	57020	hgsc.bcm.edu	hg19	16	19576253	19576253	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	C16orf62	NM_020314	exon2	c.A365G	p.H122R	ACTATCACCCTCT	.	142.0	25.0	166.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	hg19	16	31424561	31424561	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ITGAD	NM_005353	exon16	c.C1990A	p.Q664K	CTGGACCAGCTAG	.	83.0	10.0	78.0	0.0	.	154	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF423	23090	hgsc.bcm.edu	hg19	16	49764694	49764694	+	Missense_Mutation	SNP	G	G	A	rs146233664		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ZNF423	NM_015069	exon3	c.C265T	p.R89C	GACAGCGGTGGGC	.	98.0	27.0	99.0	0.0	.	463	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
POLR2C	5432	hgsc.bcm.edu	hg19	16	57499934	57499934	+	Splice_Site	SNP	G	G	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	POLR2C	NM_032940	exon3	c.205+1G>C	.	GGCTTGGTGAGTA	.	133.0	15.0	125.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
C17orf104	284071	hgsc.bcm.edu	hg19	17	42744973	42744973	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	C17orf104	NM_001145080	exon5	c.T1694C	p.L565P	AAGGACTAACAAA	.	118.0	50.0	96.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9075997	9075997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	MUC16	NM_024690	exon3	c.C11449T	p.L3817F	TGGGAAGCTGAGT	.	127.0	22.0	117.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF493	284443	hgsc.bcm.edu	hg19	19	21607521	21607521	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ZNF493	NM_001076678	exon4	c.G2060T	p.C687F	ACAAATGTGAAAA	.	247.0	36.0	216.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
ERCC2	2068	hgsc.bcm.edu	hg19	19	45867362	45867362	+	Silent	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ERCC2	NM_000400	exon10	c.C831T	p.D277D	CTGCTCGTCTGTC	.	91.0	17.0	81.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
NXT1	29107	hgsc.bcm.edu	hg19	20	23334728	23334728	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	NXT1	NM_013248	exon2	c.C50A	p.A17D	GAGCTGCTGAGGA	.	108.0	17.0	113.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
CLIC6	54102	hgsc.bcm.edu	hg19	21	36042470	36042470	+	Silent	SNP	A	A	G	rs62213790		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	CLIC6,NS,carcinoma,0,1	CLIC6	NM_053277	exon1	c.A783G	p.E261E	CGTAGAAGCGGGG	.	29.0	3.0	14.0	2.0	.	49	.	.	.	weak	.	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	hg19	22	30860885	30860885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	SEC14L3	NM_174975	exon8	c.A586G	p.K196E	ACAGTTTGGTAGC	.	66.0	10.0	79.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
APOBEC3G	60489	hgsc.bcm.edu	hg19	22	39479829	39479829	+	Silent	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	APOBEC3G	NM_021822	exon5	c.G675A	p.E225E	GGTGGAGCGCATG	.	89.0	16.0	88.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
PPP6R2	9701	hgsc.bcm.edu	hg19	22	50876323	50876323	+	Silent	SNP	G	G	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	PPP6R2	NM_001242898	exon17	c.G1833A	p.E611E	TGACGAGGACAGT	.	38.0	6.0	34.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	hg19	X	53641606	53641606	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	HUWE1	NM_031407	exon23	c.G2150C	p.R717T	TTAGACCTTGGGG	.	51.0	11.0	68.0	0.0	.	724	.	.	.	none	.	.	PASS	Atlas-SNP
ARR3	407	hgsc.bcm.edu	hg19	X	69500417	69500417	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	ARR3	NM_004312	exon14	c.G998C	p.G333A	TCCTAGGAGACCT	.	25.0	12.0	25.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
NHSL2	340527	hgsc.bcm.edu	hg19	X	71354534	71354534	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	NHSL2	NM_001013627	exon4	c.T740A	p.I247N	CTGACATTGTGCC	.	44.0	13.0	44.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
VAMP7	6845	hgsc.bcm.edu	hg19	X	155171620	155171620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	VAMP7	NM_001185183	exon7	c.G600T	p.K200N	AGGAAAGAAGAAG	.	339.0	83.0	476.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	hg19	MT	14671	14671	+	Silent	SNP	C	C	T	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	.	ENST00000361681	exon1	c.G3A	p.M1M	ATACATCATTATT	.	407.0	43.0	285.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
POU3F4	5456	hgsc.bcm.edu	hg19	X	82763464	82763464	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	POU3F4	NM_000307	exon1	c.131delA	p.Q44fs	.	.	87.0	33.0	93.0	0.0	.	136	.	0.37931	0	none	.	.	PASS	Atlas-Indel,Pindel
SETBP1	26040	hgsc.bcm.edu	hg19	18	42643077	42643077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	SETBP1	NM_015559	exon6	c.4204delC	p.R1402fs	.	.	140.0	22.0	139.0	0.0	.	577	.	0.157143	0	none	.	.	PASS	Atlas-Indel,Pindel
KHDRBS1	10657	hgsc.bcm.edu	hg19	1	32479924	32479929	+	In_Frame_Del	DEL	GAGAAG	GAGAAG	-	novel		TCGA-UZ-A9PM-01A-21D-A382-10	TCGA-UZ-A9PM-10A-01D-A385-10	GAGAAG	GAGAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3dfef537-01d1-4b16-a21d-4e9503040705	0ec588cf-97a6-49af-a772-c55a2af2cf9b	.	KHDRBS1	NM_006559	exon1	c.327_332del	p.109_111del	.	.	131.0	12.0	98.0	0.0	.	34	.	0.0916031	0	none	.	.	PASS	Atlas-Indel,Pindel