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	dbSNP_AF	Algorithm
PRAMEF4	400735	hgsc.bcm.edu	hg19	1	12942173	12942173	+	Missense_Mutation	SNP	C	C	G	rs71232900		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	PRAMEF4,NS,carcinoma,0,1	PRAMEF4	NM_001009611	exon3	c.G377C	p.C126S	AGGAAGCACCCAT	.	32.0	3.0	25.0	1.0	.	62	.	C|0.500;G|0.500	Atlas-SNP
PLEKHM2	23207	hgsc.bcm.edu	hg19	1	16055169	16055169	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PLEKHM2	NM_015164	exon12	c.A1927G	p.T643A	GGGGCCACAGAGA	.	151.0	36.0	130.0	0.0	.	94	.	.	Atlas-SNP
USP24	23358	hgsc.bcm.edu	hg19	1	55604390	55604390	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	USP24	NM_015306	exon26	c.A2819T	p.D940V	TAAAAATCCTTAA	.	100.0	31.0	79.0	0.0	.	323	.	.	Atlas-SNP
LRRIQ3	127255	hgsc.bcm.edu	hg19	1	74540431	74540431	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	LRRIQ3	NM_001105659	exon6	c.G911T	p.R304I	TGTTTTCTGTGTT	.	320.0	75.0	321.0	0.0	.	146	.	.	Atlas-SNP
PALMD	54873	hgsc.bcm.edu	hg19	1	100152711	100152711	+	Silent	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PALMD	NM_017734	exon6	c.T480C	p.N160N	GATAAATGAAGAA	.	362.0	81.0	336.0	0.0	.	64	.	.	Atlas-SNP
TSPAN2	10100	hgsc.bcm.edu	hg19	1	115615540	115615540	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	TSPAN2	NM_005725	exon2	c.A158G	p.E53G	AAATACTCTGGGG	.	76.0	13.0	68.0	0.0	.	37	.	.	Atlas-SNP
PRUNE	58497	hgsc.bcm.edu	hg19	1	151006653	151006653	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PRUNE	NM_021222	exon8	c.G1305T	p.E435D	CTTCGAGAAGTGC	.	83.0	4.0	65.0	0.0	.	40	.	.	Atlas-SNP
LCE1D	353134	hgsc.bcm.edu	hg19	1	152770563	152770563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	LCE1D	NM_178352	exon2	c.G293T	p.G98V	CGGGGGGCTCCAG	.	590.0	161.0	374.0	0.0	.	19	.	.	Atlas-SNP
BCAN	63827	hgsc.bcm.edu	hg19	1	156618414	156618414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	BCAN	NM_198427	exon6	c.C824T	p.A275V	CACGGGCGTACTG	.	181.0	82.0	121.0	0.0	.	174	.	.	Atlas-SNP
SUSD4	55061	hgsc.bcm.edu	hg19	1	223396698	223396698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SUSD4	NM_017982	exon8	c.C1337T	p.P446L	CTGGGAGGTGAAT	.	48.0	10.0	45.0	0.0	.	82	.	.	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225305624	225305624	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DNAH14	NM_001373	exon25	c.G4014A	p.L1338L	ATTATTGATATGG	.	202.0	40.0	169.0	0.0	.	300	.	.	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237729909	237729909	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	RYR2	NM_001035	exon28	c.G3257A	p.R1086Q	GGTTCCGAATCTT	.	125.0	11.0	117.0	0.0	.	1273	.	.	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	hg19	1	247768926	247768926	+	Silent	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	OR2G3	NM_001001914	exon1	c.C39T	p.I13I	TTTCATCCTTCTA	.	94.0	4.0	93.0	0.0	.	108	.	.	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	hg19	2	135763003	135763003	+	Splice_Site	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	.	NM_001018046	exon4	c.235+2T>C	.	CCCAGTACCTTCT	.	75.0	4.0	63.0	0.0	.	.	.	.	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	hg19	2	196788420	196788420	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DNAH7	NM_018897	exon23	c.C3724T	p.L1242L	CATCCAGTACCAC	.	308.0	88.0	263.0	0.0	.	512	.	.	Atlas-SNP
SLC6A11	6538	hgsc.bcm.edu	hg19	3	10976791	10976791	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SLC6A11	NM_014229	exon13	c.A1652G	p.Y551C	GGGGCTATGGCAT	.	127.0	24.0	137.0	0.0	.	87	.	.	Atlas-SNP
SETD2	29072	hgsc.bcm.edu	hg19	3	47165806	47165806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SETD2	NM_014159	exon3	c.C320T	p.P107L	TGAAGAGGTACAG	.	107.0	21.0	110.0	0.0	.	721	.	.	Atlas-SNP
ARGFX	503582	hgsc.bcm.edu	hg19	3	121303907	121303907	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	ARGFX,NS,carcinoma,0,1	ARGFX	NM_001012659	exon4	c.G364C	p.V122L	TCAACAGTAAAGG	.	77.0	16.0	62.0	0.0	.	36	.	.	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	hg19	3	132172975	132172975	+	Silent	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	DNAJC13_ENST00000260818,NS,carcinoma,0,1	DNAJC13	NM_015268	exon9	c.A906G	p.Q302Q	AGGGCAAGTACGG	.	391.0	79.0	410.0	1.0	.	253	.	.	Atlas-SNP
SLC2A2	6514	hgsc.bcm.edu	hg19	3	170725003	170725003	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SLC2A2	NM_000340	exon5	c.C546T	p.T182T	GAGAGCGGTTGGA	.	131.0	23.0	112.0	0.0	.	71	.	.	Atlas-SNP
ECT2	1894	hgsc.bcm.edu	hg19	3	172473092	172473092	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ECT2	NM_001258315	exon3	c.G138C	p.M46I	AGAGATGCCTCAG	.	311.0	76.0	369.0	0.0	.	79	.	.	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	hg19	4	5691040	5691040	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	EVC2	NM_147127	exon5	c.C550G	p.R184G	ATATGCGGGCTGT	.	56.0	8.0	90.0	0.0	.	202	.	.	Atlas-SNP
ZNF827	152485	hgsc.bcm.edu	hg19	4	146806895	146806895	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ZNF827	NM_178835	exon4	c.C1682T	p.A561V	GCTGACGCACTGT	.	128.0	7.0	134.0	0.0	.	102	.	.	Atlas-SNP
ETFDH	2110	hgsc.bcm.edu	hg19	4	159627390	159627390	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ETFDH	NM_004453	exon11	c.G1335A	p.W445X	GGTATGGAAAGAG	.	78.0	29.0	88.0	0.0	.	57	.	.	Atlas-SNP
SLCO6A1	133482	hgsc.bcm.edu	hg19	5	101815950	101815950	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SLCO6A1	NM_173488	exon2	c.C547G	p.L183V	ATCCAAGTCCTAT	.	83.0	22.0	81.0	0.0	.	153	.	.	Atlas-SNP
EEF1A1	1915	hgsc.bcm.edu	hg19	6	74229620	74229620	+	Missense_Mutation	SNP	T	T	C	rs11266800		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	EEF1A1	NM_001402	exon2	c.A130G	p.K44E	CCTCCTTCTCAAA	.	33.0	6.0	35.0	0.0	.	56	.	.	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	hg19	6	75904617	75904617	+	Silent	SNP	A	A	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	COL12A1	NM_004370	exon3	c.T120A	p.T40T	ATGAACAGTATTT	.	92.0	38.0	74.0	0.0	.	385	.	.	Atlas-SNP
DOPEY1	23033	hgsc.bcm.edu	hg19	6	83847837	83847837	+	Missense_Mutation	SNP	A	A	G	rs145538359		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DOPEY1	NM_015018	exon21	c.A4076G	p.N1359S	CTCCCAATTTCAA	.	122.0	11.0	98.0	0.0	.	190	.	A|1.000;G|0.000	Atlas-SNP
FUT9	10690	hgsc.bcm.edu	hg19	6	96651692	96651692	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	FUT9	NM_006581	exon3	c.G661C	p.A221P	GGGCAAGCATTTG	.	86.0	12.0	83.0	0.0	.	79	.	.	Atlas-SNP
MAN1A1	4121	hgsc.bcm.edu	hg19	6	119510970	119510970	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	MAN1A1	NM_005907	exon10	c.C1405T	p.H469Y	TCTTGTGCTCCAG	.	131.0	57.0	134.0	0.0	.	77	.	.	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	hg19	7	57188114	57188114	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ZNF479	NM_033273	exon5	c.G1008C	p.W336C	TGAGGACCAGCTA	.	262.0	83.0	203.0	0.0	.	193	.	.	Atlas-SNP
ANKRD7	56311	hgsc.bcm.edu	hg19	7	117876954	117876954	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ANKRD7	NM_019644	exon5	c.A686C	p.N229T	TGAGGAATATGTT	.	133.0	17.0	132.0	0.0	.	44	.	.	Atlas-SNP
CPED1	79974	hgsc.bcm.edu	hg19	7	120782177	120782177	+	Silent	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	.	NM_001105533	exon15	c.A2037G	p.T679T	CTTCACAGCATGT	.	144.0	51.0	111.0	0.0	.	.	.	.	Atlas-SNP
ADAM2	2515	hgsc.bcm.edu	hg19	8	39695697	39695697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	ADAM2,face,carcinoma,0,1	ADAM2	NM_001464	exon1	c.G8A	p.R3H	AAGACGCGCCACA	.	130.0	13.0	160.0	0.0	.	124	.	.	Atlas-SNP
CYP7A1	1581	hgsc.bcm.edu	hg19	8	59404951	59404951	+	Silent	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	CYP7A1	NM_000780	exon5	c.G1176A	p.Q392Q	CATTAACTGTGGG	.	278.0	26.0	186.0	0.0	.	76	.	.	Atlas-SNP
RBM12B	389677	hgsc.bcm.edu	hg19	8	94747750	94747750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	RBM12B	NM_203390	exon3	c.G889A	p.E297K	CTCTTTCGTCAAT	.	126.0	20.0	82.0	0.0	.	78	.	.	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	hg19	8	104427710	104427710	+	Silent	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DCAF13	NM_015420	exon1	c.T492C	p.N164N	GGACAATTATGTC	.	153.0	15.0	116.0	0.0	.	66	.	.	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	hg19	9	711084	711084	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	KANK1	NM_001256876	exon7	c.C318A	p.F106L	CAACTTCCTCATA	.	93.0	30.0	115.0	0.0	.	231	.	.	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	hg19	9	79971726	79971726	+	Silent	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	VPS13A	NM_001018038	exon55	c.A7749G	p.E2583E	TAAGGAATATACT	.	75.0	9.0	79.0	0.0	.	735	.	.	Atlas-SNP
NODAL	4838	hgsc.bcm.edu	hg19	10	72195099	72195099	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	NODAL	NM_018055	exon2	c.C834T	p.G278G	ACACTCGCCCTCA	.	92.0	41.0	103.0	0.0	.	32	.	.	Atlas-SNP
LHPP	64077	hgsc.bcm.edu	hg19	10	126150467	126150467	+	Silent	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	LHPP	NM_022126	exon1	c.C36T	p.R12R	CGTGCGCGGGGTG	.	59.0	34.0	55.0	0.0	.	18	.	.	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	hg19	11	56344592	56344592	+	Silent	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	OR5M10	NM_001004741	exon1	c.T606C	p.V202V	GCCTGCAACTACA	.	254.0	36.0	322.0	0.0	.	56	.	.	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62298786	62298786	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AHNAK	NM_001620	exon5	c.G3103T	p.D1035Y	TAGTATCTACTTT	.	99.0	35.0	135.0	0.0	.	532	.	.	Atlas-SNP
PPP1CA	5499	hgsc.bcm.edu	hg19	11	67166283	67166283	+	Silent	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PPP1CA	NM_001008709	exon6	c.G825A	p.V275V	AAGTGTCACCAGC	.	47.0	19.0	52.0	0.0	.	83	.	.	Atlas-SNP
PITPNM1	9600	hgsc.bcm.edu	hg19	11	67265462	67265462	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PITPNM1	NM_001130848	exon12	c.C1708G	p.L570V	AGCCCAGGATGCC	.	36.0	10.0	44.0	0.0	.	84	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92564913	92564913	+	Missense_Mutation	SNP	A	A	T	rs139337740	bycluster;by1000genomes;alternate_allele	TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	FAT3	NM_001008781	exon13	c.A9607T	p.I3203F	TACAACATCAGCG	.	61.0	12.0	66.0	0.0	.	1822	.	A|0.999;G|0.001	Atlas-SNP
OR6X1	390260	hgsc.bcm.edu	hg19	11	123625085	123625085	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	OR6X1	NM_001005188	exon1	c.T142C	p.W48R	CAGCCCACACAGT	.	129.0	38.0	119.0	0.0	.	54	.	.	Atlas-SNP
DCP1B	196513	hgsc.bcm.edu	hg19	12	2062188	2062188	+	Silent	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DCP1B	NM_152640	exon7	c.A918G	p.P306P	TGACAATGGGTGG	.	48.0	12.0	55.0	0.0	.	63	.	.	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	hg19	12	80752454	80752454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	OTOGL	NM_173591	exon50	c.G6098A	p.C2033Y	TAGTATGTGAACC	.	48.0	13.0	42.0	0.0	.	235	.	.	Atlas-SNP
FGD6	55785	hgsc.bcm.edu	hg19	12	95500747	95500747	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	FGD6	NM_018351	exon13	c.T3400G	p.S1134A	CCAGTGAGAGCAT	.	173.0	24.0	183.0	0.0	.	127	.	.	Atlas-SNP
CCDC60	160777	hgsc.bcm.edu	hg19	12	119909929	119909929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	CCDC60,NS,malignant_melanoma,0,4	CCDC60	NM_178499	exon3	c.G301A	p.E101K	CCAGCCGAAAAGA	.	138.0	17.0	119.0	0.0	.	84	.	.	Atlas-SNP
HCAR3	8843	hgsc.bcm.edu	hg19	12	123201235	123201235	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	HCAR3	NM_006018	exon1	c.A50T	p.N17I	CAGCAGTTCTTCT	.	93.0	8.0	91.0	0.0	.	49	.	.	Atlas-SNP
PARP4	143	hgsc.bcm.edu	hg19	13	25021314	25021314	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PARP4	NM_006437	exon26	c.A3125G	p.Q1042R	GTCATTTGGTCTT	.	133.0	38.0	188.0	0.0	.	142	.	.	Atlas-SNP
FRY	10129	hgsc.bcm.edu	hg19	13	32759191	32759191	+	Silent	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	FRY	NM_023037	exon26	c.C3225T	p.L1075L	CATGCTCCTAGAA	.	97.0	29.0	144.0	0.0	.	312	.	.	Atlas-SNP
GRK1	6011	hgsc.bcm.edu	hg19	13	114324085	114324085	+	Silent	SNP	C	C	A	rs370686602	alternate_allele	TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	GRK1	NM_002929	exon2	c.C783A	p.A261A	CAAAGCCGACCTC	.	64.0	15.0	49.0	0.0	.	41	.	.	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	hg19	14	24649686	24649686	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	IPO4	NM_024658	exon30	c.A3208C	p.K1070Q	GAGCCTTGTCAAC	.	58.0	12.0	51.0	0.0	.	74	.	.	Atlas-SNP
NKX2-1	7080	hgsc.bcm.edu	hg19	14	36988348	36988348	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	NKX2-1	NM_001079668	exon2	c.C305A	p.A102E	CCCGCCGCCGTCA	.	55.0	15.0	46.0	0.0	.	21	.	.	Atlas-SNP
PSEN1	5663	hgsc.bcm.edu	hg19	14	73637640	73637640	+	Silent	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PSEN1	NM_000021	exon4	c.T223C	p.L75L	CTGACATTGAAAT	.	173.0	59.0	138.0	0.0	.	38	.	.	Atlas-SNP
GPR65	8477	hgsc.bcm.edu	hg19	14	88477913	88477913	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	GPR65	NM_003608	exon2	c.C722A	p.P241H	TTACTCCCTTTCA	.	160.0	42.0	120.0	0.0	.	48	.	.	Atlas-SNP
GABRA5	2558	hgsc.bcm.edu	hg19	15	27159962	27159962	+	Silent	SNP	T	T	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	GABRA5	NM_001165037	exon7	c.T510G	p.S170S	CATCTCTGCAGAG	.	49.0	21.0	67.0	0.0	.	127	.	.	Atlas-SNP
PATL2	197135	hgsc.bcm.edu	hg19	15	44961589	44961589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PATL2	NM_001145112	exon11	c.T953C	p.I318T	TCCTCTATTTCTA	.	61.0	20.0	94.0	0.0	.	19	.	.	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	hg19	16	4015980	4015980	+	Missense_Mutation	SNP	C	C	A	rs370863551	alternate_allele	TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ADCY9	NM_001116	exon11	c.G3858T	p.Q1286H	CACATACTGGACA	.	62.0	7.0	74.0	0.0	.	151	.	.	Atlas-SNP
AKTIP	64400	hgsc.bcm.edu	hg19	16	53529086	53529086	+	Splice_Site	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AKTIP	NM_001012398	exon6	c.314-1G>A	.	ACCACACTGTAGG	.	251.0	31.0	171.0	0.0	.	16	.	.	Atlas-SNP
ZC3H18	124245	hgsc.bcm.edu	hg19	16	88677881	88677881	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ZC3H18	NM_144604	exon8	c.A1412T	p.D471V	ACCGCGACCGGGA	.	320.0	158.0	269.0	1.0	.	90	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578235	7578235	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	TP53_ENST00000545858,temporoparietal,glioma,0,24	TP53	NM_000546	exon6	c.A614C	p.Y205S	TCCAAATACTCCA	.	152.0	54.0	175.0	0.0	.	33396	.	.	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	hg19	17	39465082	39465082	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	KRTAP16-1	NM_001146182	exon1	c.T424C	p.S142P	AACAAGAAGGCTC	.	146.0	24.0	192.0	0.0	.	12	.	.	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	hg19	17	60758227	60758227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	MRC2	NM_006039	exon17	c.C2540T	p.A847V	CGTGGGCGCAGGC	.	72.0	25.0	82.0	0.0	.	126	.	.	Atlas-SNP
SF3A2	8175	hgsc.bcm.edu	hg19	19	2245549	2245549	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SF3A2	NM_007165	exon5	c.A350G	p.Y117C	CGGGCTACAAAGG	.	160.0	40.0	174.0	0.0	.	22	.	.	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	hg19	19	14274022	14274022	+	Silent	SNP	G	G	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	LPHN1	NM_001008701	exon6	c.C606A	p.T202T	GGTGGTGGTGTGG	.	52.0	18.0	74.0	0.0	.	107	.	.	Atlas-SNP
CLASRP	11129	hgsc.bcm.edu	hg19	19	45567465	45567465	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	CLASRP	NM_007056	exon12	c.G1101A	p.P367P	CGCCCCGGGACGT	.	129.0	8.0	117.0	0.0	.	44	.	.	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	hg19	19	47763963	47763963	+	Missense_Mutation	SNP	G	G	T	rs368381443	alternate_allele	TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	CCDC9	NM_015603	exon5	c.G329T	p.R110L	CATCGCGCAGCTG	.	66.0	11.0	52.0	0.0	.	37	.	.	Atlas-SNP
PPFIA3	8541	hgsc.bcm.edu	hg19	19	49652850	49652850	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	PPFIA3	NM_003660	exon28	c.T3401C	p.F1134S	AGATGTTCCGGGA	.	182.0	44.0	171.0	0.0	.	71	.	.	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	hg19	20	57767596	57767596	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	ZNF831	NM_178457	exon1	c.C1522G	p.P508A	TCGCTGCCCTTCG	.	132.0	19.0	112.0	0.0	.	287	.	.	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765173	66765173	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AR	NM_000044	exon1	c.A185T	p.Q62L	AGCAGCAGCAGCA	.	132.0	6.0	124.0	0.0	.	249	.	.	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765176	66765176	+	Missense_Mutation	SNP	A	A	T	rs62636527		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AR	NM_000044	exon1	c.A188T	p.Q63L	AGCAGCAGCAGCA	.	131.0	9.0	122.0	0.0	.	249	.	A|0.982;T|0.018	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765179	66765179	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AR	NM_000044	exon1	c.A191T	p.Q64L	AGCAGCAGCAGCA	.	131.0	12.0	116.0	0.0	.	249	.	.	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765207	66765207	+	Silent	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	AR	NM_000044	exon1	c.G219A	p.Q73Q	GCAGCAGCAGCAG	.	103.0	8.0	107.0	0.0	.	249	.	.	Atlas-SNP
DLG3	1741	hgsc.bcm.edu	hg19	X	69712085	69712085	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DLG3	NM_021120	exon11	c.C1649G	p.T550S	TGGTGACCCCACA	.	153.0	11.0	112.0	0.0	.	100	.	.	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	6069	6069	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	.	ENST00000361624	exon1	c.G166A	p.V56I	TACAACGTTATCG	.	39.0	18.0	28.0	0.0	.	.	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13042	13042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	.	ENST00000361567	exon1	c.G706A	p.A236T	CCCTCAGCCATAG	.	26.0	13.0	24.0	0.0	.	.	.	.	Atlas-SNP
NFATC2	4773	hgsc.bcm.edu	hg19	20	50048660	50048675	+	Frame_Shift_Del	DEL	GGTAATACTTCCTTTT	GGTAATACTTCCTTTT	-	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	GGTAATACTTCCTTTT	GGTAATACTTCCTTTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	NFATC2	NM_012340	exon9	c.2652_2667del	p.884_889del	.	.	115.0	14.0	131.0	0.0	.	112	.	.	Atlas-INDEL
IP6K1	9807	hgsc.bcm.edu	hg19	3	49785257	49785257	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	IP6K1	NM_153273	exon2	c.218delA	p.Y73fs	.	.	132.0	26.0	127.0	0.0	.	41	.	.	Atlas-INDEL
GUCY2D	3000	hgsc.bcm.edu	hg19	17	7909969	7909969	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	GUCY2D	NM_000180	exon4	c.1314delT	p.R438fs	.	.	33.0	12.0	57.0	0.0	.	82	.	.	Atlas-INDEL
NEFH	4744	hgsc.bcm.edu	hg19	22	29885572	29885573	+	In_Frame_Ins	INS	-	-	CCCTGAGAAGGCCAAGTC	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	NEFH	NM_021076	exon4	c.1943_1944insCCCTGAGAAGGCCAAGTC	p.S648delinsSPEKAKS	.	.	280.0	45.0	234.0	0.0	.	178	.	.	Atlas-INDEL
KRTAP4-5	85289	hgsc.bcm.edu	hg19	17	39305781	39305782	+	In_Frame_Ins	INS	-	-	AGCTGGGGCGGCAGC	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	KRTAP4-5	NM_033188	exon1	c.239_240insGCTGCCGCCCCAGCT	p.C80delinsCCRPSC	.	.	48.0	22.0	65.0	0.0	.	34	.	.	Atlas-INDEL
APOB	338	hgsc.bcm.edu	hg19	2	21236200	21236201	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	APOB	NM_000384	exon25	c.4048_4049insA	p.V1350fs	.	.	113.0	25.0	119.0	0.0	.	761	.	.	Atlas-INDEL
DSPP	1834	hgsc.bcm.edu	hg19	4	88537208	88537216	+	In_Frame_Del	DEL	AGCAGTGAT	AGCAGTGAT	-	rs200486992		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	AGCAGTGAT	AGCAGTGAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	DSPP	NM_014208	exon5	c.3393_3401del	p.1131_1134del	.	.	98.0	58.0	127.0	0.0	.	174	.	.	Atlas-INDEL
SNX27	81609	hgsc.bcm.edu	hg19	1	151641091	151641091	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-YA-A8S7-01A-11D-A36X-10	TCGA-YA-A8S7-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	0669d47b-cc46-4b77-ad30-b3f1adbbfd9f	71d7d669-128a-455a-b4c9-898b7e7a4a61	.	SNX27	NM_030918	exon7	c.1128delT	p.A376fs	.	.	170.0	83.0	102.0	0.0	.	44	.	.	Atlas-INDEL