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
ZYG11A	440590	hgsc.bcm.edu	hg19	1	53352671	53352671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	ZYG11A	NM_001004339	exon13	c.C2050T	p.P684S	TCTCAACCAGAGG	.	21.0	9.0	49.0	0.0	.	46	.	.	Atlas-SNP
FLG	2312	hgsc.bcm.edu	hg19	1	152285002	152285002	+	Missense_Mutation	SNP	G	G	T	rs77032592	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	FLG	NM_002016	exon3	c.C2360A	p.S787Y	CGTCGAGACCTTT	.	191.0	143.0	123.0	0.0	.	900	.	G|0.988;A|0.012	Atlas-SNP
RGSL1	353299	hgsc.bcm.edu	hg19	1	182499495	182499495	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	RGSL1	NM_001137669	exon12	c.T2242G	p.W748G	GAAAAGTGGTGAG	.	152.0	34.0	59.0	0.0	.	111	.	.	Atlas-SNP
EIF2D	1939	hgsc.bcm.edu	hg19	1	206775799	206775799	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	EIF2D	NM_006893	exon7	c.G793T	p.D265Y	GCTCATCCATTTG	.	96.0	20.0	52.0	0.0	.	42	.	.	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	hg19	1	209799342	209799342	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	LAMB3	NM_000228	exon14	c.G1627T	p.G543C	CCGGGCCCTCTGT	.	183.0	44.0	102.0	0.0	.	136	.	.	Atlas-SNP
TTC13	79573	hgsc.bcm.edu	hg19	1	231044767	231044767	+	Splice_Site	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	TTC13	NM_001122835	exon20	c.2148-1G>A	.	ATTACACTATTTA	.	155.0	11.0	78.0	0.0	.	74	.	.	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	hg19	2	1647159	1647159	+	Silent	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	PXDN	NM_012293	exon19	c.G3933A	p.V1311V	CTGCCACACCCGG	.	58.0	20.0	56.0	0.0	.	255	.	.	Atlas-SNP
AFTPH	54812	hgsc.bcm.edu	hg19	2	64779985	64779985	+	Silent	SNP	C	C	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	AFTPH	NM_017657	exon2	c.C1377G	p.A459A	TGATGCCACTTTT	.	98.0	38.0	108.0	0.0	.	117	.	.	Atlas-SNP
TEX37	200523	hgsc.bcm.edu	hg19	2	88828588	88828588	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	.	NM_152670	exon4	c.C139T	p.Q47X	GATGCTCAACTCC	.	273.0	134.0	295.0	0.0	.	.	.	.	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	hg19	2	109088333	109088333	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	GCC2	NM_181453	exon6	c.A2548T	p.I850L	GAAGAAATACAGT	.	387.0	173.0	409.0	0.0	.	129	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179426149	179426149	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	TTN	NM_001267550	exon326	c.T84710C	p.I28237T	TTACCAATTCCAG	.	78.0	22.0	62.0	0.0	.	18412	.	.	Atlas-SNP
SPATS2L	26010	hgsc.bcm.edu	hg19	2	201337678	201337678	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	SPATS2L_ENST00000409755,NS,carcinoma,0,3	SPATS2L	NM_001100423	exon12	c.A1184G	p.N395S	CTCACAATAAGCC	.	116.0	46.0	118.0	0.0	.	88	.	.	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	hg19	2	207172127	207172127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	ZDBF2	NM_020923	exon5	c.G2875A	p.D959N	AGTTTGGATTCTG	.	133.0	53.0	100.0	0.0	.	531	.	.	Atlas-SNP
ABTB1	80325	hgsc.bcm.edu	hg19	3	127398864	127398864	+	Missense_Mutation	SNP	G	G	A	rs376513209		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	ABTB1	NM_172027	exon11	c.G1066A	p.A356T	AGCGTCGCCGACA	.	50.0	6.0	43.0	0.0	.	36	.	.	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195512929	195512929	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	MUC4	NM_018406	exon2	c.T5522A	p.L1841H	ACAGGAAGAGAGG	.	394.0	58.0	443.0	0.0	.	1505	.	.	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	hg19	5	140389296	140389296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	PCDHAC2	NM_018899	exon4	c.C2798T	p.P933L	GCAACCCCAAACA	.	194.0	90.0	209.0	0.0	.	142	.	.	Atlas-SNP
ZNF853	54753	hgsc.bcm.edu	hg19	7	6661653	6661653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	ZNF853	NM_017560	exon3	c.G1031A	p.R344Q	TGGAGCGGCAGCA	.	30.0	14.0	25.0	0.0	.	32	.	.	Atlas-SNP
GIGYF1	64599	hgsc.bcm.edu	hg19	7	100279816	100279816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	GIGYF1	NM_022574	exon22	c.A2804G	p.Y935C	ACATCATAGGGGG	.	25.0	13.0	24.0	0.0	.	113	.	.	Atlas-SNP
STMN4	81551	hgsc.bcm.edu	hg19	8	27094373	27094373	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	STMN4	NM_030795	exon7	c.C641A	p.A214D	CTGGAGGCCTCTT	.	53.0	22.0	64.0	0.0	.	28	.	.	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	hg19	8	145003368	145003368	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	PLEC	NM_201380	exon25	c.G3574C	p.E1192Q	ATGGCTCTGGTAG	.	66.0	18.0	71.0	0.0	.	1144	.	.	Atlas-SNP
RHOBTB1	9886	hgsc.bcm.edu	hg19	10	62637748	62637748	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	RHOBTB1	NM_014836	exon8	c.G1644T	p.L548F	AGGAGACAACTGC	.	90.0	75.0	129.0	0.0	.	61	.	.	Atlas-SNP
BTAF1	9044	hgsc.bcm.edu	hg19	10	93699785	93699785	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	BTAF1	NM_003972	exon3	c.A215T	p.N72I	TGAAAAATGTACC	.	94.0	81.0	157.0	0.0	.	148	.	.	Atlas-SNP
SEC23IP	11196	hgsc.bcm.edu	hg19	10	121677401	121677401	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SEC23IP	NM_007190	exon9	c.A1598T	p.N533I	TTACCAATGAAAC	.	52.0	40.0	99.0	0.0	.	100	.	.	Atlas-SNP
C10orf90	118611	hgsc.bcm.edu	hg19	10	128153427	128153427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	C10orf90	NM_001004298	exon4	c.G1372A	p.D458N	AGTCATCGCTTGG	.	83.0	61.0	130.0	0.0	.	121	.	.	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	hg19	11	6643315	6643315	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	DCHS1	NM_003737	exon21	c.C9592T	p.R3198C	CGATACGGGGAGC	.	31.0	16.0	42.0	0.0	.	277	.	.	Atlas-SNP
CELF1	10658	hgsc.bcm.edu	hg19	11	47506044	47506044	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	CELF1	NM_001172639	exon7	c.G420T	p.M140I	GGAAATCATACCA	.	184.0	78.0	178.0	0.0	.	43	.	.	Atlas-SNP
TUT1	64852	hgsc.bcm.edu	hg19	11	62343081	62343081	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	TUT1	NM_022830	exon9	c.G2224A	p.A742T	GCATGGCCCAGTC	.	126.0	31.0	62.0	0.0	.	122	.	.	Atlas-SNP
SIPA1	6494	hgsc.bcm.edu	hg19	11	65414996	65414996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SIPA1	NM_006747	exon9	c.G2173A	p.G725R	CGGCCCGGGGCGC	.	17.0	11.0	7.0	0.0	.	45	.	.	Atlas-SNP
PPP2R1B	5519	hgsc.bcm.edu	hg19	11	111622945	111622945	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	PPP2R1B	NM_002716	exon10	c.G1276C	p.D426H	TGGCATCTTCTGC	.	72.0	58.0	130.0	0.0	.	44	.	.	Atlas-SNP
KCNA6	3742	hgsc.bcm.edu	hg19	12	4920655	4920655	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	KCNA6	NM_002235	exon1	c.G1448C	p.G483A	CTTGTGGGCAGCC	.	69.0	30.0	80.0	0.0	.	122	.	.	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	hg19	12	21353510	21353510	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SLCO1B1	NM_006446	exon9	c.T1039G	p.L347V	ACGTTGTTACAAG	.	88.0	41.0	98.0	0.0	.	151	.	.	Atlas-SNP
COL2A1	1280	hgsc.bcm.edu	hg19	12	48373812	48373812	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	COL2A1	NM_001844	exon40	c.C2659T	p.R887X	CACCTCGGGCTCC	.	184.0	85.0	170.0	0.0	.	368	.	.	Atlas-SNP
OR2AP1	121129	hgsc.bcm.edu	hg19	12	55968693	55968693	+	Silent	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	OR2AP1	NM_001258285	exon1	c.C495T	p.D165D	GCAGGACTTTTGT	.	7.0	4.0	2.0	0.0	.	11	.	.	Atlas-SNP
AGAP2	116986	hgsc.bcm.edu	hg19	12	58131312	58131312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	AGAP2_ENST00000547588,NS,carcinoma,0,1	AGAP2	NM_001122772	exon1	c.G718A	p.A240T	CGGCGGCGGTGGC	.	66.0	4.0	75.0	0.0	.	167	.	.	Atlas-SNP
CUX2	23316	hgsc.bcm.edu	hg19	12	111471987	111471987	+	Silent	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	CUX2	NM_015267	exon1	c.C6T	p.A2A	GATGGCCGCCAAT	.	60.0	52.0	71.0	0.0	.	145	.	.	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	hg19	13	21742126	21742126	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SKA3	NM_001166017	exon5	c.743+1G>T	.	TGCTTACCTTTTA	.	53.0	8.0	72.0	0.0	.	76	.	.	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64686099	64686099	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SYNE2	NM_182914	exon110	c.G19831T	p.E6611X	ATCCAGGAAATAG	.	171.0	79.0	136.0	0.0	.	577	.	.	Atlas-SNP
HDC	3067	hgsc.bcm.edu	hg19	15	50535066	50535066	+	Silent	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	HDC	NM_002112	exon12	c.C1380T	p.I460I	TCTCAGGATGTCA	.	96.0	8.0	97.0	0.0	.	86	.	.	Atlas-SNP
VPS13C	54832	hgsc.bcm.edu	hg19	15	62207992	62207992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	VPS13C	NM_020821	exon61	c.G8285A	p.S2762N	ATCCGGCTGCCAA	.	106.0	8.0	127.0	0.0	.	506	.	.	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	64067763	64067763	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	HERC1	NM_003922	exon2	c.G60T	p.W20C	TGTAATCCAGGAG	.	124.0	58.0	124.0	0.0	.	624	.	.	Atlas-SNP
MYH2	4620	hgsc.bcm.edu	hg19	17	10447311	10447311	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	MYH2	NM_017534	exon7	c.A556C	p.T186P	TCACAGTCTTCCC	.	96.0	78.0	136.0	0.0	.	390	.	.	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	16042476	16042476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	NCOR1	NM_001190440	exon11	c.C1198T	p.L400F	CAGAGAGCTGCCG	.	138.0	106.0	255.0	0.0	.	240	.	.	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	hg19	17	17700212	17700212	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	RAI1	NM_030665	exon3	c.A3950G	p.K1317R	AGACCAAGGTGCT	.	40.0	33.0	56.0	0.0	.	121	.	.	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	hg19	18	44229147	44229147	+	Silent	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	LOXHD1	NM_144612	exon2	c.G216A	p.G72G	AGAGAGCCCATTC	.	78.0	43.0	95.0	0.0	.	367	.	.	Atlas-SNP
GGN	199720	hgsc.bcm.edu	hg19	19	38876399	38876399	+	Silent	SNP	A	A	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	GGN	NM_152657	exon3	c.T1503C	p.A501A	GGTGGGAGCTGGA	.	51.0	5.0	43.0	0.0	.	50	.	.	Atlas-SNP
GGN	199720	hgsc.bcm.edu	hg19	19	38876402	38876402	+	Silent	SNP	T	T	C	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	GGN	NM_152657	exon3	c.A1500G	p.P500P	GGGAGCTGGAGCC	.	52.0	5.0	42.0	0.0	.	50	.	.	Atlas-SNP
BAX	581	hgsc.bcm.edu	hg19	19	49464086	49464086	+	Missense_Mutation	SNP	C	C	T	rs369660551		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	BAX	NM_004324	exon5	c.C389T	p.P130L	AGGTGCCGGAACT	.	60.0	32.0	55.0	0.0	.	69	.	.	Atlas-SNP
ZNF175	7728	hgsc.bcm.edu	hg19	19	52090771	52090771	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	ZNF175,NS,carcinoma,0,1	ZNF175	NM_007147	exon5	c.G1187T	p.C396F	GTGAATGTGGCAA	.	131.0	62.0	119.0	0.0	.	65	.	.	Atlas-SNP
GZF1	64412	hgsc.bcm.edu	hg19	20	23345920	23345920	+	Silent	SNP	A	A	G	rs146870841		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.,1	GZF1	NM_022482	exon1	c.A900G	p.E300E	GGAGGAAGAGGAG	.	93.0	4.0	98.0	0.0	.	61	.	A|1.000;G|0.000	Atlas-SNP
POFUT1	23509	hgsc.bcm.edu	hg19	20	30803116	30803116	+	Silent	SNP	G	G	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	POFUT1	NM_172236	exon3	c.G291A	p.Q97Q	CCTCCAGGCTTAC	.	96.0	32.0	91.0	0.0	.	52	.	.	Atlas-SNP
SIM2	6493	hgsc.bcm.edu	hg19	21	38098520	38098520	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SIM2	NM_005069	exon6	c.A644G	p.Q215R	TGGGCCAGTCGCT	.	24.0	17.0	33.0	0.0	.	55	.	.	Atlas-SNP
MX2	4600	hgsc.bcm.edu	hg19	21	42770888	42770888	+	Missense_Mutation	SNP	G	G	A	rs368866145		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	MX2	NM_002463	exon9	c.G1214A	p.R405Q	AGCTGCGGCGTTG	.	55.0	5.0	87.0	0.0	.	84	.	.	Atlas-SNP
NLGN4X	57502	hgsc.bcm.edu	hg19	X	6069247	6069247	+	Silent	SNP	C	C	G	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	NLGN4X	NM_181332	exon2	c.G261C	p.R87R	CTGAAACCGCCTC	.	176.0	73.0	203.0	0.0	.	191	.	.	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	hg19	X	27766594	27766594	+	Silent	SNP	T	T	C	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	DCAF8L2	NM_001136533	exon1	c.T1582C	p.L528L	CCTGTGTTGGCGT	.	214.0	97.0	227.0	0.0	.	79	.	.	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765173	66765173	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	AR	NM_000044	exon1	c.A185T	p.Q62L	AGCAGCAGCAGCA	.	155.0	14.0	171.0	0.0	.	249	.	.	Atlas-SNP
ATP2B3	492	hgsc.bcm.edu	hg19	X	152825344	152825344	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	ATP2B3	NM_001001344	exon16	c.A2783T	p.N928I	TGAAGAACATTCT	.	93.0	10.0	110.0	0.0	.	552	.	.	Atlas-SNP
UBL4A	8266	hgsc.bcm.edu	hg19	X	153714302	153714302	+	Silent	SNP	C	C	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	UBL4A	NM_014235	exon3	c.G171A	p.S57S	ATAATCCGAGAGT	.	42.0	23.0	45.0	0.0	.	12	.	.	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	hg19	9	131378105	131378121	+	Frame_Shift_Del	DEL	GGAGTCCTGGATCAAGT	GGAGTCCTGGATCAAGT	-	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	GGAGTCCTGGATCAAGT	GGAGTCCTGGATCAAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	SPTAN1	NM_001130438	exon41	c.5342_5357del	p.1781_1786del	.	.	71.0	21.0	69.0	0.0	.	266	.	.	Atlas-INDEL
PBRM1	55193	hgsc.bcm.edu	hg19	3	52668670	52668671	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	PBRM1	NM_018313	exon12	c.1249_1250insA	p.Y417fs	.	.	73.0	55.0	135.0	0.0	.	1252	.	.	Atlas-INDEL
NCOR1	9611	hgsc.bcm.edu	hg19	17	16029456	16029457	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.,1	NCOR1	NM_001190440	exon14	c.1574_1575insA	p.T525fs	.	.	117.0	90.0	163.0	0.0	.	240	.	.	Atlas-INDEL
CEP350	9857	hgsc.bcm.edu	hg19	1	180023062	180023063	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-AADY-01A-11D-A40R-10	TCGA-DD-AADY-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	43286c0b-a477-4ef8-91a6-7a6703b6d1d8	2ffa15b7-17be-48ce-a5af-e25e022f0bb2	.	CEP350	NM_014810	exon24	c.5167_5168insA	p.Q1723fs	.	.	310.0	64.0	183.0	0.0	.	418	.	.	Atlas-INDEL