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
CPSF3L	54973	hgsc.bcm.edu	hg19	1	1248221	1248221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	CPSF3L	NM_001256456	exon14	c.C1258T	p.H420Y	CGCCATGCACCAG	.	40.0	17.0	74.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	hg19	1	17287328	17287328	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	CROCC	NM_014675	exon27	c.C4108T	p.L1370L	GGCTCCCTGGAGG	.	7.0	5.0	14.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	hg19	1	22816649	22816649	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZBTB40	NM_001083621	exon3	c.G208A	p.E70K	CCCGAGGAGTTTG	.	88.0	33.0	92.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
RUNX3	864	hgsc.bcm.edu	hg19	1	25229150	25229150	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RUNX3	NM_001031680	exon6	c.G753A	p.S251S	CAGTTCCGAGGTG	.	117.0	12.0	129.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
ZMYM6	9204	hgsc.bcm.edu	hg19	1	35453543	35453543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZMYM6	NM_007167	exon16	c.C3140T	p.S1047L	ATACGTGAATTTA	.	123.0	48.0	172.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
RASAL2	9462	hgsc.bcm.edu	hg19	1	178063786	178063786	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RASAL2	NM_170692	exon1	c.T159C	p.L53L	GATCCTTCTGGAG	.	193.0	79.0	221.0	0.0	.	334	.	.	.	none	.	.	PASS	Atlas-SNP
CDC73	79577	hgsc.bcm.edu	hg19	1	193119495	193119495	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	CDC73	NM_024529	exon9	c.G890C	p.R297T	AGGAAAGATTCAA	.	90.0	32.0	93.0	0.0	.	163	.	.	.	none	.	.	PASS	Atlas-SNP
DISP1	84976	hgsc.bcm.edu	hg19	1	223176848	223176848	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DISP1	NM_032890	exon10	c.A2109G	p.R703R	ATCTCGAATTTTT	.	106.0	58.0	104.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	hg19	1	232094574	232094574	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DISC1	NM_001164537	exon11	c.A2078G	p.E693G	CCCCAGAAACAAG	.	141.0	77.0	118.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf70	339778	hgsc.bcm.edu	hg19	2	26798881	26798881	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	C2orf70	NM_001105519	exon2	c.T186C	p.T62T	CCACACTCCCTTC	.	86.0	44.0	106.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
MTA3	57504	hgsc.bcm.edu	hg19	2	42931435	42931435	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MTA3	NM_020744	exon12	c.G1127A	p.G376E	TCTTAGGGAGAGC	.	118.0	48.0	140.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ABCG8	64241	hgsc.bcm.edu	hg19	2	44100948	44100948	+	Nonsense_Mutation	SNP	C	C	T	rs137852991	bycluster	TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	ABCG8,NS,carcinoma,0,1	ABCG8	NM_022437	exon9	c.C1234T	p.R412X	GACTTCCGAGACC	.	58.0	3.0	60.0	0.0	.	98	.	.	.	weak	.	.	PASS	Atlas-SNP
WDR33	55339	hgsc.bcm.edu	hg19	2	128482691	128482691	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	WDR33	NM_018383	exon9	c.T950G	p.I317S	TTTCTGATATCAA	.	116.0	48.0	142.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
MBD5	55777	hgsc.bcm.edu	hg19	2	149243320	149243320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MBD5	NM_018328	exon11	c.C2855T	p.S952L	ATATGTCATCAAT	.	133.0	47.0	159.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179606399	179606399	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TTN	NM_001267550	exon48	c.T11561A	p.F3854Y	TTAAAGAACCACT	.	124.0	41.0	168.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	hg19	2	210824431	210824431	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	UNC80	NM_032504	exon50	c.G7607C	p.R2536T	ACATGAGGTACTG	.	87.0	34.0	104.0	0.0	.	280	.	.	.	none	.	.	PASS	Atlas-SNP
UGT1A9	54600	hgsc.bcm.edu	hg19	2	234581095	234581095	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	UGT1A9	NM_021027	exon1	c.T515C	p.I172T	GGGGAATACTTTG	.	86.0	38.0	117.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF660	285349	hgsc.bcm.edu	hg19	3	44636593	44636593	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF660	NM_173658	exon3	c.A908T	p.K303I	CCTATAAATGTAG	.	243.0	151.0	228.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ITIH1	3697	hgsc.bcm.edu	hg19	3	52822035	52822035	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ITIH1	NM_002215	exon17	c.C1958A	p.T653N	CTCCTACTCATTC	.	173.0	41.0	194.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	hg19	3	57419454	57419454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DNAH12	NM_178504	exon31	c.A4688G	p.E1563G	ACCTTTTCTTCCT	.	92.0	9.0	82.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF717	100131827	hgsc.bcm.edu	hg19	3	75786895	75786895	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.,1	ZNF717	NM_001128223	exon5	c.A1879C	p.T627P	GAAAGGTTTTTCC	.	46.0	4.0	54.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
EPHA6	285220	hgsc.bcm.edu	hg19	3	97311466	97311466	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	EPHA6	NM_001080448	exon12	c.G2397A	p.P799P	CTTCCCGGCCATT	.	119.0	33.0	117.0	0.0	.	439	.	.	.	none	.	.	PASS	Atlas-SNP
MBNL1	4154	hgsc.bcm.edu	hg19	3	152132779	152132779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MBNL1	NM_207292	exon3	c.T224C	p.L75S	CACATTTAAAAAC	.	191.0	115.0	135.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
TNFSF10	8743	hgsc.bcm.edu	hg19	3	172224318	172224318	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TNFSF10	NM_003810	exon5	c.T810C	p.H270H	GGCTTCATGGTCC	.	275.0	175.0	262.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
EHHADH	1962	hgsc.bcm.edu	hg19	3	184947277	184947277	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	EHHADH	NM_001966	exon4	c.A406G	p.T136A	GCTGGGTTCCTCT	.	90.0	36.0	60.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM156	80008	hgsc.bcm.edu	hg19	4	38990469	38990469	+	Splice_Site	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TMEM156	NM_024943	exon5	c.739+2T>G	.	ATACTTACTCTGC	.	61.0	30.0	72.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
RASGEF1B	153020	hgsc.bcm.edu	hg19	4	82369435	82369435	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RASGEF1B	NM_152545	exon5	c.A442G	p.T148A	TGTATGTCTGCTA	.	79.0	23.0	96.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85731169	85731169	+	Nonsense_Mutation	SNP	G	G	T	rs79515377	bycluster	TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	WDFY3	NM_014991	exon14	c.C2216A	p.S739X	GTATTTGAGGGGA	.	155.0	61.0	154.0	0.0	.	314	.	.	.	weak	.	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	hg19	4	114153415	114153415	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ANK2	NM_001148	exon5	c.G483A	p.E161E	TACAGAGGTAAGA	.	55.0	23.0	74.0	0.0	.	576	.	.	.	none	.	.	PASS	Atlas-SNP
CCNA2	890	hgsc.bcm.edu	hg19	4	122740067	122740067	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	CCNA2	NM_001237	exon6	c.T1004G	p.F335C	CCCAAAAACTGGA	.	151.0	65.0	158.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF827	152485	hgsc.bcm.edu	hg19	4	146686704	146686704	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF827	NM_178835	exon12	c.A3047G	p.E1016G	CCTTTCTCTGGCT	.	57.0	29.0	58.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
SLC45A2	51151	hgsc.bcm.edu	hg19	5	33954590	33954590	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SLC45A2	NM_016180	exon4	c.T908A	p.L303X	GACTTTAATGTCA	.	86.0	39.0	114.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
DAB2	1601	hgsc.bcm.edu	hg19	5	39383191	39383191	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DAB2	NM_001343	exon10	c.T870C	p.P290P	AGGATTAGGGGTG	.	135.0	51.0	162.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
FTMT	94033	hgsc.bcm.edu	hg19	5	121187742	121187742	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FTMT	NM_177478	exon1	c.C84A	p.L28L	CGCGCTCCCGCTG	.	26.0	12.0	33.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB3	56102	hgsc.bcm.edu	hg19	5	140751854	140751854	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PCDHGB3	NM_018924	exon1	c.C1893A	p.T631T	GCGTACCTTGGGC	.	58.0	25.0	66.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
WWC1	23286	hgsc.bcm.edu	hg19	5	167812372	167812372	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	WWC1	NM_015238	exon3	c.A386T	p.Q129L	AGTACCAGCAACT	.	68.0	34.0	92.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
MCM3	4172	hgsc.bcm.edu	hg19	6	52141273	52141273	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MCM3	NM_002388	exon9	c.A1302T	p.G434G	GCGCTCTCCTGGG	.	68.0	56.0	88.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1586	57691	hgsc.bcm.edu	hg19	6	56917572	56917572	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	KIAA1586	NM_020931	exon4	c.A275C	p.E92A	ATAATGAAGTGAG	.	176.0	144.0	233.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	hg19	6	135358037	135358037	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	HBS1L_ENST00000367822,NS,carcinoma,0,1	HBS1L	NM_001145207	exon5	c.C1558G	p.L520V	AACTTAGAACTTT	.	120.0	97.0	97.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82578940	82578940	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PCLO	NM_014510	exon6	c.A10964C	p.K3655T	AGTACTTTCTGTG	.	150.0	75.0	111.0	0.0	.	1506	.	.	.	none	.	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	hg19	7	150773188	150773188	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SLC4A2	NM_003040	exon22	c.T3560C	p.L1187P	CCTCCCTGGCCTT	.	84.0	41.0	44.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
AP3M2	10947	hgsc.bcm.edu	hg19	8	42015584	42015584	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	AP3M2	NM_001134296	exon4	c.C399T	p.L133L	AGAACTCATAAAG	.	90.0	35.0	101.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
ARMC1	55156	hgsc.bcm.edu	hg19	8	66517664	66517664	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ARMC1	NM_018120	exon5	c.A575C	p.K192T	TCAGCTTTCAAAT	.	201.0	86.0	209.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	hg19	9	35697810	35697810	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TLN1	NM_006289	exon57	c.C7604A	p.S2535X	AGCTCTGAAGGCA	.	84.0	45.0	97.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf3	84909	hgsc.bcm.edu	hg19	9	97522664	97522664	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	C9orf3	NM_001193331	exon2	c.G599C	p.R200T	GTTGGAGGGAGCA	.	52.0	19.0	73.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
TTLL11	158135	hgsc.bcm.edu	hg19	9	124751966	124751966	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TTLL11	NM_001139442	exon4	c.C1047G	p.I349M	GAGGTAGATTCCA	.	78.0	27.0	109.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	hg19	10	70182647	70182647	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DNA2	NM_001080449	exon15	c.C2209A	p.L737I	CTATAAGCTAAAA	.	170.0	108.0	138.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	hg19	10	70432683	70432683	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TET1	NM_030625	exon8	c.G4705C	p.E1569Q	GATCCAGAGACTT	.	96.0	54.0	89.0	0.0	.	255	.	.	.	none	.	.	PASS	Atlas-SNP
NEUROG3	50674	hgsc.bcm.edu	hg19	10	71332496	71332496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	NEUROG3	NM_020999	exon2	c.G304A	p.A102T	CCAGTGCCGAGTT	.	103.0	53.0	124.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
DUPD1	338599	hgsc.bcm.edu	hg19	10	76818209	76818209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DUPD1	NM_001003892	exon1	c.C64T	p.P22S	TCTTCGGCGACAG	.	79.0	45.0	56.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
BTRC	8945	hgsc.bcm.edu	hg19	10	103294516	103294516	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	BTRC	NM_033637	exon10	c.G1196C	p.C399S	TGACCTGCTCCAA	.	133.0	35.0	128.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
FTH1	2495	hgsc.bcm.edu	hg19	11	61732247	61732247	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FTH1	NM_002032	exon4	c.A504C	p.E168D	GAGATATTCCGCC	.	289.0	114.0	343.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL49	740	hgsc.bcm.edu	hg19	11	64892052	64892052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MRPL49	NM_004927	exon2	c.C157T	p.P53S	CTGTTACCGGCTA	.	129.0	61.0	169.0	0.0	.	5	.	.	.	none	.	.	PASS	Atlas-SNP
C11orf54	28970	hgsc.bcm.edu	hg19	11	93494797	93494797	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	C11orf54	NM_014039	exon8	c.A741G	p.A247A	ACCTGCAGAGTTT	.	104.0	45.0	123.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
GPR19	2842	hgsc.bcm.edu	hg19	12	12814283	12814283	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	GPR19	NM_006143	exon4	c.C1100G	p.A367G	TTTTTGGCCATCC	.	125.0	41.0	120.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
IPO8	10526	hgsc.bcm.edu	hg19	12	30792466	30792466	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	IPO8	NM_006390	exon21	c.T2472C	p.D824D	ATCTGTATCATTC	.	184.0	62.0	166.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
GTF3A	2971	hgsc.bcm.edu	hg19	13	28006937	28006937	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	GTF3A,NS,carcinoma,0,1	GTF3A	NM_002097	exon5	c.C558G	p.H186Q	GGCCCACGAGGGT	.	140.0	54.0	155.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
TOX4	9878	hgsc.bcm.edu	hg19	14	21961062	21961062	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	TOX4,NS,carcinoma,0,2	TOX4	NM_014828	exon7	c.T1287A	p.A429A	AGCAGCTGCTGCT	.	64.0	3.0	75.0	1.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
DHRS4	10901	hgsc.bcm.edu	hg19	14	24424419	24424419	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DHRS4	NM_021004	exon2	c.A304T	p.T102S	GTGGCCACGGTGA	.	170.0	76.0	202.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
TTC7B	145567	hgsc.bcm.edu	hg19	14	91142993	91142993	+	Silent	SNP	G	G	A	rs149388931		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	TTC7B,NS,carcinoma,0,1	TTC7B	NM_001010854	exon9	c.C1026T	p.D342D	CACAGCGTCCCGG	.	48.0	15.0	47.0	0.0	.	93	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
MAPKBP1	23005	hgsc.bcm.edu	hg19	15	42109123	42109123	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MAPKBP1	NM_001128608	exon15	c.C1619A	p.A540E	TGCTAGCATCGGC	.	42.0	16.0	70.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
RCN2	5955	hgsc.bcm.edu	hg19	15	77227974	77227974	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RCN2	NM_002902	exon3	c.G358C	p.D120H	ACTTGGGATGAAT	.	103.0	43.0	145.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
AMDHD2	51005	hgsc.bcm.edu	hg19	16	2577574	2577574	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	AMDHD2	NM_001145815	exon4	c.A373C	p.I125L	CCTCAGATCCCTG	.	56.0	14.0	82.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	hg19	16	16267179	16267179	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ABCC6	NM_001171	exon21	c.G2749T	p.G917X	GCCATCCTGCCCT	.	101.0	35.0	117.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
TAOK2	9344	hgsc.bcm.edu	hg19	16	29998173	29998173	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TAOK2	NM_016151	exon16	c.C2580A	p.S860R	GAGGAGCATTGTT	.	166.0	111.0	140.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	hg19	16	71101222	71101222	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	HYDIN	NM_001198542	exon15	c.A2127G	p.E709E	CACCTCTTCTCCG	.	58.0	16.0	44.0	0.0	.	788	.	.	.	none	.	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	hg19	16	84189316	84189316	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DNAAF1	NM_178452	exon5	c.C703T	p.P235S	AGTGACCCGGAGA	.	130.0	28.0	95.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	hg19	16	84778731	84778731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	USP10	NM_001272075	exon5	c.C656T	p.S219F	AGAACTCCACAGA	.	137.0	35.0	157.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	hg19	16	88503562	88503562	+	Silent	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF469	NM_001127464	exon2	c.G9600C	p.L3200L	CCTTCTGAACAGC	.	114.0	31.0	120.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	hg19	17	10366192	10366192	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MYH4	NM_017533	exon11	c.T998A	p.M333K	GTGGCCATCAGCT	.	94.0	36.0	65.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
RNF112	7732	hgsc.bcm.edu	hg19	17	19315946	19315946	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RNF112	NM_007148	exon3	c.C231A	p.C77X	CTTCTGCATACGG	.	65.0	22.0	79.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
SRCIN1	80725	hgsc.bcm.edu	hg19	17	36708714	36708714	+	Missense_Mutation	SNP	C	C	T	rs370322301		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	SRCIN1,NS,carcinoma,0,1	SRCIN1	NM_025248	exon13	c.G2449A	p.G817R	TGACCCCGCGGCA	.	113.0	33.0	114.0	0.0	.	66	.	.	.	weak	.	.	PASS	Atlas-SNP
NBR1	4077	hgsc.bcm.edu	hg19	17	41343586	41343586	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	NBR1	NM_031862	exon10	c.C1061G	p.S354C	TCCAGTCTAATAC	.	281.0	76.0	213.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K3	4215	hgsc.bcm.edu	hg19	17	61767096	61767096	+	Splice_Site	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MAP3K3	NM_203351	exon12	c.1156+1G>A	.	CCAAGTGTGAGGA	.	99.0	20.0	108.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	hg19	17	74288747	74288747	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	QRICH2	NM_032134	exon4	c.G1563A	p.Q521Q	GCCAGGCTGATAT	.	90.0	5.0	87.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
FSCN2	25794	hgsc.bcm.edu	hg19	17	79503808	79503808	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FSCN2	NM_001077182	exon4	c.G1338A	p.R446R	CTACCGGATCCGA	.	441.0	128.0	368.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
ROCK1	6093	hgsc.bcm.edu	hg19	18	18624118	18624118	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ROCK1	NM_005406	exon6	c.A620T	p.D207V	GATTTATCCAGCA	.	108.0	29.0	81.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	hg19	18	50589777	50589777	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DCC	NM_005215	exon6	c.A1088C	p.N363T	CTGTGAATTGGAT	.	143.0	76.0	113.0	0.0	.	360	.	.	.	none	.	.	PASS	Atlas-SNP
RAX	30062	hgsc.bcm.edu	hg19	18	56936510	56936510	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RAX	NM_013435	exon3	c.C767G	p.A256G	TGCAGCGCCGTGG	.	77.0	50.0	59.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
FSD1	79187	hgsc.bcm.edu	hg19	19	4306010	4306010	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FSD1	NM_024333	exon2	c.C83A	p.S28Y	TCTACTCCCTGAA	.	82.0	34.0	118.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
CATSPERD	257062	hgsc.bcm.edu	hg19	19	5739405	5739405	+	Silent	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	.	NM_152784	exon7	c.A528T	p.S176S	TTATTCAAATACT	.	67.0	20.0	81.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9068211	9068211	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MUC16	NM_024690	exon3	c.A19235G	p.Q6412R	GTGCCTTGGATGG	.	146.0	6.0	165.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	hg19	19	18180414	18180414	+	Silent	SNP	G	G	A	rs371543581		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	IL12RB1	NM_005535	exon10	c.C1131T	p.D377D	GCCCCCGTCCTGG	.	20.0	10.0	39.0	0.0	.	92	.	.	.	weak	.	.	PASS	Atlas-SNP
NCAN	1463	hgsc.bcm.edu	hg19	19	19338444	19338444	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	NCAN	NM_004386	exon8	c.C2015A	p.A672D	CCCCTGCTGCAGA	.	46.0	19.0	71.0	0.0	.	277	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF737	100129842	hgsc.bcm.edu	hg19	19	20728068	20728068	+	Missense_Mutation	SNP	T	T	G	rs146757334	by1000genomes;alternate_allele	TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF737	NM_001159293	exon4	c.A941C	p.K314T	TCACATTTGTAGG	.	67.0	29.0	91.0	0.0	.	50	.	.	.	alt	T|0.998;C|0.002	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	hg19	19	38949843	38949843	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RYR1	NM_001042723	exon19	c.T2225G	p.V742G	AAGACGTGATCAG	.	51.0	17.0	62.0	0.0	.	708	.	.	.	none	.	.	PASS	Atlas-SNP
SUPT5H	6829	hgsc.bcm.edu	hg19	19	39964953	39964953	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SUPT5H	NM_003169	exon26	c.T2731C	p.Y911H	CAGAGCTACCACC	.	168.0	59.0	282.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF324B	388569	hgsc.bcm.edu	hg19	19	58966867	58966867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF324B	NM_207395	exon4	c.G556T	p.G186W	GTGCCTGGGAGGC	.	51.0	24.0	89.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ZNFX1	57169	hgsc.bcm.edu	hg19	20	47865692	47865692	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNFX1	NM_021035	exon14	c.T3869A	p.L1290Q	CAGGGCAGGCTGC	.	145.0	86.0	125.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
SLC9A8	23315	hgsc.bcm.edu	hg19	20	48429466	48429466	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SLC9A8	NM_001260491	exon1	c.G7C	p.E3Q	ATGGGGGAGAAGA	.	29.0	19.0	29.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	hg19	20	56099187	56099187	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.,1	CTCFL	NM_001269044	exon1	c.A75G	p.K25K	CAGGCCTTTTTCC	.	54.0	3.0	49.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
DONSON	29980	hgsc.bcm.edu	hg19	21	34951869	34951869	+	Splice_Site	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	DONSON	NM_017613	exon10	c.1351-1G>T	.	CCGTGCCTTCATG	.	66.0	26.0	116.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
NIPSNAP1	8508	hgsc.bcm.edu	hg19	22	29957632	29957632	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	NIPSNAP1	NM_003634	exon6	c.T442A	p.Y148N	CCAGGTACTCCTG	.	30.0	19.0	49.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
SMTN	6525	hgsc.bcm.edu	hg19	22	31486118	31486118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SMTN	NM_001207018	exon7	c.C985A	p.P329T	GAGACCCCTGCTG	.	101.0	37.0	152.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	hg19	22	46656408	46656408	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PKDREJ	NM_006071	exon1	c.G2812T	p.D938Y	CGTTATCTGCAAC	.	89.0	4.0	128.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D22A	25771	hgsc.bcm.edu	hg19	22	47290719	47290719	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TBC1D22A	NM_014346	exon7	c.A877C	p.I293L	GCGTTGATCCTGC	.	76.0	26.0	105.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
KDM6A	7403	hgsc.bcm.edu	hg19	X	44937747	44937747	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	KDM6A	NM_021140	exon19	c.T2935G	p.L979V	CTTAAGTTAGGTA	.	340.0	283.0	437.0	0.0	.	274	.	.	.	none	.	.	PASS	Atlas-SNP
HDAC6	10013	hgsc.bcm.edu	hg19	X	48661330	48661330	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	HDAC6	NM_006044	exon3	c.A146G	p.E49G	TAGCGGAGGTAAA	.	149.0	120.0	202.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
AMER1	139285	hgsc.bcm.edu	hg19	X	63412149	63412149	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	.	NM_152424	exon2	c.A1018G	p.M340V	CTGTCATACTGTC	.	27.0	27.0	53.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11126	11126	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	.	ENST00000361381	exon1	c.G367A	p.E123K	TTCTTCGAAACCA	.	73.0	29.0	39.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12838	12838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	.	ENST00000361567	exon1	c.G502A	p.A168T	ACAGCAGCCATTC	.	63.0	16.0	30.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PPOX	5498	hgsc.bcm.edu	hg19	1	161140540	161140541	+	Frame_Shift_Ins	INS	-	-	CTTGGTCCATCTA	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PPOX	NM_001122764	exon11	c.1229_1230insCTTGGTCCATCTA	p.C410fs	.	.	60.0	10.0	78.0	0.0	.	34	.	0.166667	0	none	.	.	PASS	Atlas-Indel,Pindel
PYROXD2	84795	hgsc.bcm.edu	hg19	10	100152221	100152222	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PYROXD2	NM_032709	exon10	c.1030_1031insA	p.P344fs	.	.	67.0	45.0	60.0	0.0	.	43	.	0.671642	0	none	.	.	PASS	Atlas-Indel,Pindel
MYO1B	4430	hgsc.bcm.edu	hg19	2	192206229	192206230	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	MYO1B	NM_012223	exon5	c.389_390insA	p.G130fs	.	.	86.0	32.0	154.0	0.0	.	160	.	0.372093	0	none	.	.	PASS	Atlas-Indel,Pindel
PALB2	79728	hgsc.bcm.edu	hg19	16	23641617	23641624	+	Frame_Shift_Del	DEL	CAAAGTCT	CAAAGTCT	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	CAAAGTCT	CAAAGTCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	PALB2	NM_024675	exon5	c.1852_1859del	p.618_620del	.	.	201.0	102.0	207.0	0.0	.	108	.	0.507463	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF490	57474	hgsc.bcm.edu	hg19	19	12693708	12693709	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZNF490	NM_020714	exon4	c.306_307insA	p.D102fs	.	.	79.0	32.0	108.0	0.0	.	42	.	0.405063	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC23A1	9963	hgsc.bcm.edu	hg19	5	138716053	138716054	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SLC23A1	NM_152685	exon6	c.503_504insA	p.S168fs	.	.	94.0	33.0	110.0	0.0	.	51	.	0.351064	0	none	.	.	PASS	Atlas-Indel,Pindel
ANKIB1	54467	hgsc.bcm.edu	hg19	7	92021609	92021609	+	Splice_Site	DEL	A	A	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ANKIB1	NM_019004	exon17	c.2283+2A>-	.	.	.	200.0	74.0	127.0	0.0	.	92	.	0.37	0	none	.	.	PASS	Atlas-Indel,Pindel
ZBTB25	7597	hgsc.bcm.edu	hg19	14	64957106	64957106	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZBTB25	NM_006977	exon2	c.147delC	p.F49fs	.	.	285.0	113.0	364.0	0.0	.	27	.	0.396491	0	none	.	.	PASS	Atlas-Indel,Pindel
JHDM1D	80853	hgsc.bcm.edu	hg19	7	139818990	139818990	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	JHDM1D	NM_030647	exon9	c.1170delA	p.T390fs	.	.	221.0	95.0	128.0	0.0	.	54	.	0.429864	0	none	.	.	PASS	Atlas-Indel,Pindel
APBA2	321	hgsc.bcm.edu	hg19	15	29346965	29346966	+	Frame_Shift_Ins	INS	-	-	CT	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	APBA2	NM_005503	exon3	c.878_879insCT	p.P293fs	.	.	26.0	10.0	32.0	0.0	.	132	.	0.384615	0	none	.	.	PASS	Atlas-INDEL
ELL2	22936	hgsc.bcm.edu	hg19	5	95234239	95234240	+	Frame_Shift_Ins	INS	-	-	AGGTCTTG	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ELL2	NM_012081	exon8	c.1230_1231insCAAGACCT	p.L410fs	.	.	137.0	32.0	170.0	0.0	.	63	.	0.233577	0	none	.	.	PASS	Atlas-Indel,Pindel
IGSF22	283284	hgsc.bcm.edu	hg19	11	18738437	18738444	+	Frame_Shift_Del	DEL	ACTTCCAC	ACTTCCAC	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	ACTTCCAC	ACTTCCAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	IGSF22	NM_173588	exon10	c.1078_1085del	p.360_362del	.	.	101.0	23.0	159.0	0.0	.	211	.	0.227723	0	none	.	.	PASS	Atlas-Indel,Pindel
FAM71F2	346653	hgsc.bcm.edu	hg19	7	128315824	128315824	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FAM71F2	NM_001012454	exon2	c.275delA	p.N92fs	.	.	69.0	34.0	50.0	0.0	.	19	.	0.492754	0	none	.	.	PASS	Atlas-INDEL
ZFC3H1	196441	hgsc.bcm.edu	hg19	12	72017305	72017306	+	Frame_Shift_Ins	INS	-	-	CCATG	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	ZFC3H1	NM_144982	exon24	c.4579_4580insCATGG	p.L1527fs	.	.	204.0	77.0	106.0	0.0	.	172	.	0.377451	0	none	.	.	PASS	Atlas-Indel,Pindel
CREB3	10488	hgsc.bcm.edu	hg19	9	35736483	35736484	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	CREB3	NM_006368	exon9	c.876_877insA	p.H292fs	.	.	44.0	19.0	77.0	0.0	.	24	.	0.431818	0	none	.	.	PASS	Atlas-Indel,Pindel
HIC2	23119	hgsc.bcm.edu	hg19	22	21799452	21799458	+	Frame_Shift_Del	DEL	TCCACAG	TCCACAG	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	TCCACAG	TCCACAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	HIC2	NM_015094	exon3	c.267_273del	p.89_91del	.	.	40.0	11.0	72.0	0.0	.	42	.	0.275	0	none	.	.	PASS	Atlas-INDEL
KRT19	3880	hgsc.bcm.edu	hg19	17	39684113	39684113	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	KRT19	NM_002276	exon1	c.388delT	p.Y130fs	.	.	76.0	28.0	93.0	0.0	.	41	.	0.368421	0	none	.	.	PASS	Atlas-Indel,Pindel
RNF123	63891	hgsc.bcm.edu	hg19	3	49740161	49740162	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	RNF123	NM_022064	exon20	c.1725_1726insA	p.S575fs	.	.	68.0	14.0	65.0	0.0	.	100	.	0.205882	0	none	.	.	PASS	Atlas-Indel,Pindel
TNRC18	84629	hgsc.bcm.edu	hg19	7	5352663	5352665	+	In_Frame_Del	DEL	GAT	GAT	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	TNRC18	NM_001080495	exon27	c.7858_7860del	p.2620_2620del	.	.	18.0	11.0	8.0	0.0	.	311	.	0.611111	0	none	.	.	PASS	Atlas-INDEL
FAM71F2	346653	hgsc.bcm.edu	hg19	7	128315818	128315818	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	FAM71F2	NM_001012454	exon2	c.269delT	p.L90fs	.	.	65.0	10.0	52.0	0.0	.	19	.	0.154	.	none	.	.	PASS	Pindel
COL4A3	1285	hgsc.bcm.edu	hg19	2	228176530	228176530	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	COL4A3	NM_000091	exon52	c.4956delT	p.A1652fs	.	.	502.0	112.0	642.0	0.0	.	293	.	0.223	.	none	.	.	PASS	Pindel
SPTLC1	10558	hgsc.bcm.edu	hg19	9	94821586	94821604	+	In_Frame_Del	DEL	TATCTCTGCAAGGAAAAGA	TATCTCTGCAAGGAAAAGA	-	novel		TCGA-SX-A7SS-01A-11D-A35Z-10	TCGA-SX-A7SS-10A-01D-A35Z-10	TATCTCTGCAAGGAAAAGA	TATCTCTGCAAGGAAAAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	8a5b9c2f-52f8-4f4c-864e-288f4a31f85f	b78095c0-dd7d-406b-9d5c-0e0a56f03118	.	SPTLC1	NM_006415	exon7	c.561_566del	p.187_189del	.	.	52.0	10.0	82.0	0.0	.	42	.	0.192	.	none	.	.	PASS	Pindel
