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
WRAP73	49856	hgsc.bcm.edu	hg19	1	3548777	3548777	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	WRAP73	NM_017818	exon10	c.G1048A	p.D350N	ACTGACCGTTCCT	.	110.0	18.0	86.0	0.0	.	43	.	.	Atlas-SNP
ARHGAP29	9411	hgsc.bcm.edu	hg19	1	94652058	94652058	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	ARHGAP29	NM_004815	exon16	c.A1777C	p.T593P	TACCAGTTTCTGA	.	108.0	16.0	146.0	0.0	.	132	.	.	Atlas-SNP
DBT	1629	hgsc.bcm.edu	hg19	1	100672083	100672083	+	Missense_Mutation	SNP	C	C	T	rs150934375		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	DBT	NM_001918	exon9	c.G1127A	p.R376H	TGGAGGCGGTTCA	.	84.0	24.0	87.0	0.0	.	39	.	C|1.000;T|0.000	Atlas-SNP
ADAMTSL4	54507	hgsc.bcm.edu	hg19	1	150531572	150531572	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	ADAMTSL4	NM_019032	exon16	c.T2694C	p.P898P	GCCCCCTGACATG	.	90.0	45.0	71.0	0.0	.	101	.	.	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	hg19	1	152185637	152185637	+	Missense_Mutation	SNP	C	C	A	rs150101773	bycluster;byfrequency;alternate_allele	TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	HRNR	NM_001009931	exon3	c.G8468T	p.S2823I	CCAGAACTTCCCC	.	551.0	54.0	358.0	0.0	.	403	.	C|1.000;T|0.000	Atlas-SNP
LY9	4063	hgsc.bcm.edu	hg19	1	160769681	160769681	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	LY9	NM_001261457	exon2	c.C263A	p.A88D	CTCTTGCTTTCGC	.	200.0	13.0	113.0	0.0	.	115	.	.	Atlas-SNP
DARS2	55157	hgsc.bcm.edu	hg19	1	173825830	173825830	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	DARS2	NM_018122	exon16	c.G1701A	p.L567L	CCATCTGCTCCAG	.	107.0	8.0	58.0	0.0	.	61	.	.	Atlas-SNP
NUAK2	81788	hgsc.bcm.edu	hg19	1	205290713	205290713	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	NUAK2	NM_030952	exon1	c.C44T	p.S15L	GCGGCCGAGGGAG	.	81.0	21.0	55.0	0.0	.	107	.	.	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237893654	237893654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	RYR2,NS,chondrosarcoma,0,1	RYR2	NM_001035	exon77	c.G10933A	p.A3645T	GATTTAGCAGTAT	.	144.0	17.0	91.0	0.0	.	1273	.	.	Atlas-SNP
INO80B	83444	hgsc.bcm.edu	hg19	2	74683301	74683301	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	INO80B	NM_031288	exon4	c.G442A	p.E148K	GAAGAGGAGGAAC	.	257.0	19.0	240.0	0.0	.	37	.	.	Atlas-SNP
IWS1	55677	hgsc.bcm.edu	hg19	2	128247508	128247508	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	IWS1	NM_017969	exon11	c.A2059T	p.R687W	TAGGCCTAGACCA	.	391.0	50.0	357.0	0.0	.	61	.	.	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	hg19	2	160194151	160194151	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	BAZ2B	NM_013450	exon32	c.G5587C	p.E1863Q	TCCGTTCTAGTGC	.	185.0	28.0	169.0	0.0	.	196	.	.	Atlas-SNP
PLCD4	84812	hgsc.bcm.edu	hg19	2	219501200	219501200	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PLCD4	NM_032726	exon16	c.G2189A	p.R730H	GTTACCGCCACAT	.	112.0	31.0	117.0	0.0	.	51	.	.	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	hg19	3	129286593	129286593	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PLXND1	NM_015103	exon21	c.G3921T	p.T1307T	CAGCAGCGTCTTC	.	35.0	5.0	64.0	0.0	.	149	.	.	Atlas-SNP
ALB	213	hgsc.bcm.edu	hg19	4	74283866	74283866	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	ALB	NM_000477	exon12	c.T1490A	p.V497D	ACAGAGTCACCAA	.	104.0	24.0	90.0	0.0	.	132	.	.	Atlas-SNP
USP38	84640	hgsc.bcm.edu	hg19	4	144107245	144107245	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	USP38	NM_032557	exon1	c.G642A	p.L214L	ACTACTGCCTTCC	.	126.0	33.0	124.0	0.0	.	92	.	.	Atlas-SNP
NR3C2	4306	hgsc.bcm.edu	hg19	4	149357349	149357349	+	Missense_Mutation	SNP	T	T	A	rs374672844		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	NR3C2	NM_001166104	exon2	c.A664T	p.S222C	GAAAACTGCCAAA	.	68.0	13.0	60.0	0.0	.	94	.	.	Atlas-SNP
PRR16	51334	hgsc.bcm.edu	hg19	5	120021723	120021723	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PRR16	NM_016644	exon3	c.C165A	p.D55E	AACGGACACGCTG	.	97.0	24.0	71.0	0.0	.	71	.	.	Atlas-SNP
GFOD1	54438	hgsc.bcm.edu	hg19	6	13365402	13365402	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	GFOD1	NM_018988	exon2	c.T746C	p.V249A	ACAGTGACATCCT	.	38.0	10.0	38.0	0.0	.	38	.	.	Atlas-SNP
C6orf62	81688	hgsc.bcm.edu	hg19	6	24714631	24714631	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	C6orf62	NM_030939	exon3	c.T344G	p.L115R	GGCCAAAGAATGA	.	143.0	29.0	187.0	0.0	.	18	.	.	Atlas-SNP
LRFN2	57497	hgsc.bcm.edu	hg19	6	40400289	40400289	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	LRFN2	NM_020737	exon2	c.C564T	p.I188I	CTCGGCGATGTGA	.	76.0	13.0	101.0	0.0	.	133	.	.	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	hg19	7	7571282	7571282	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	COL28A1	NM_001037763	exon3	c.A378T	p.L126F	CCCTATTAAATTC	.	168.0	59.0	106.0	0.0	.	113	.	.	Atlas-SNP
COBL	23242	hgsc.bcm.edu	hg19	7	51095517	51095517	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	COBL	NM_015198	exon10	c.G3276A	p.K1092K	TTTTTTCTTCGGC	.	346.0	116.0	397.0	1.0	.	167	.	.	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82595462	82595462	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PCLO	NM_014510	exon4	c.C3642T	p.L1214L	TTCAGGGAGTGGC	.	843.0	325.0	785.0	2.0	.	1506	.	.	Atlas-SNP
ATP5J2-PTCD1	100526740	hgsc.bcm.edu	hg19	7	99030913	99030913	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	.	NM_001198879	exon4	c.C729G	p.N243K	GTAGAGGTTGAAG	.	81.0	34.0	78.0	0.0	.	.	.	.	Atlas-SNP
HAS2	3037	hgsc.bcm.edu	hg19	8	122641077	122641077	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	HAS2	NM_005328	exon2	c.G504A	p.S168S	GTGTTGCGAGCTT	.	307.0	174.0	128.0	0.0	.	87	.	.	Atlas-SNP
AKR1C1	1645	hgsc.bcm.edu	hg19	10	5005692	5005692	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	AKR1C1	NM_001353	exon1	c.T56G	p.L19R	CTGTCCTGGGATT	.	180.0	16.0	222.0	0.0	.	39	.	.	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	hg19	10	129901194	129901194	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	MKI67	NM_002417	exon13	c.C8910T	p.P2970P	TCCCACGGGTTCT	.	98.0	26.0	88.0	0.0	.	363	.	.	Atlas-SNP
SSH3	54961	hgsc.bcm.edu	hg19	11	67077797	67077797	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	SSH3	NM_017857	exon13	c.G1670T	p.S557I	AGACCAGTGACAT	.	74.0	15.0	80.0	0.0	.	54	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92534030	92534030	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	FAT3	NM_001008781	exon9	c.C7851T	p.H2617H	GGGCCACTTGGTC	.	58.0	12.0	77.0	0.0	.	1822	.	.	Atlas-SNP
ETS1	2113	hgsc.bcm.edu	hg19	11	128426289	128426289	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	ETS1	NM_001143820	exon3	c.C111G	p.N37K	ACCACAGTTCATT	.	164.0	38.0	147.0	0.0	.	123	.	.	Atlas-SNP
USP5	8078	hgsc.bcm.edu	hg19	12	6974387	6974387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	USP5	NM_001098536	exon19	c.G2458A	p.V820I	CACTACGTCTGCC	.	131.0	13.0	114.0	0.0	.	124	.	.	Atlas-SNP
PZP	5858	hgsc.bcm.edu	hg19	12	9344850	9344850	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PZP	NM_002864	exon13	c.C1485A	p.I495I	AGCCATGATCTGA	.	90.0	7.0	77.0	0.0	.	422	.	.	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	hg19	12	11214459	11214459	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	TAS2R46,NS,carcinoma,0,1	TAS2R46	NM_176887	exon1	c.T435G	p.F145L	TATCACAAAAAGA	.	275.0	13.0	256.0	0.0	.	43	.	.	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	hg19	12	11214707	11214707	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	TAS2R46	NM_176887	exon1	c.G187T	p.V63L	TTAATACTAATAC	.	280.0	20.0	236.0	0.0	.	43	.	.	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	hg19	12	11214720	11214720	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	TAS2R46	NM_176887	exon1	c.A174G	p.L58L	CCAGAGTAAACCA	.	297.0	19.0	279.0	0.0	.	43	.	.	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	hg19	12	11214756	11214756	+	Silent	SNP	T	T	C	rs375315747		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	TAS2R46	NM_176887	exon1	c.A138G	p.Q46Q	GAGAATTTGGTCA	.	343.0	20.0	308.0	0.0	.	43	.	.	Atlas-SNP
NCKAP5L	57701	hgsc.bcm.edu	hg19	12	50185782	50185782	+	Missense_Mutation	SNP	G	G	A	rs372382126		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	NCKAP5L	NM_001037806	exon13	c.C3845T	p.T1282M	TGGGGCGTAGGGG	.	65.0	19.0	38.0	0.0	.	142	.	.	Atlas-SNP
NR4A1	3164	hgsc.bcm.edu	hg19	12	52448249	52448249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	NR4A1	NM_001202233	exon3	c.C176T	p.A59V	CCGCTGCCCCCAC	.	56.0	7.0	74.0	0.0	.	77	.	.	Atlas-SNP
OLFM4	10562	hgsc.bcm.edu	hg19	13	53617269	53617269	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	OLFM4	NM_006418	exon4	c.G600A	p.K200K	AGAGAAGCTTGAG	.	119.0	13.0	104.0	0.0	.	94	.	.	Atlas-SNP
BCL2L2-PABPN1	100529063	hgsc.bcm.edu	hg19	14	23793427	23793427	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	.	NM_001199864	exon8	c.C891T	p.T297T	CCGGACCACCAAC	.	88.0	9.0	104.0	0.0	.	.	.	.	Atlas-SNP
WHAMM	123720	hgsc.bcm.edu	hg19	15	83491939	83491939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	WHAMM	NM_001080435	exon6	c.A1358G	p.D453G	AGGATGATAAGAA	.	230.0	45.0	295.0	0.0	.	63	.	.	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	hg19	15	90189142	90189142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	KIF7	NM_198525	exon8	c.G1904A	p.R635Q	AAGGTCCGCCTGG	.	36.0	5.0	48.0	0.0	.	130	.	.	Atlas-SNP
CLEC19A	728276	hgsc.bcm.edu	hg19	16	19310149	19310149	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	CLEC19A	NM_001256720	exon2	c.C243T	p.A81A	GCTGGCCTCCATC	.	94.0	25.0	88.0	0.0	.	4	.	.	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	hg19	16	51173341	51173341	+	Missense_Mutation	SNP	G	G	T	rs140924793	alternate_allele	TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	SALL1	NM_002968	exon2	c.C2792A	p.P931Q	TTGGACGGGGACA	.	125.0	5.0	122.0	0.0	.	301	.	G|1.000;A|0.000	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	hg19	17	1564062	1564062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PRPF8	NM_006445	exon29	c.G4568T	p.R1523L	CCTGATCGCTGAG	.	128.0	22.0	112.0	0.0	.	169	.	.	Atlas-SNP
TDRD12	91646	hgsc.bcm.edu	hg19	19	33233749	33233749	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	TDRD12	NM_001110822	exon4	c.A383G	p.Y128C	GCCTGTACTGCAC	.	209.0	39.0	210.0	0.0	.	23	.	.	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	hg19	19	41600227	41600227	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	CYP2A13	NM_000766	exon7	c.T1051C	p.Y351H	ATGCCCTACACAG	.	212.0	39.0	215.0	0.0	.	90	.	.	Atlas-SNP
AP2A1	160	hgsc.bcm.edu	hg19	19	50302171	50302171	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	AP2A1	NM_130787	exon8	c.C927T	p.I309I	CGCCATCCTCTTC	.	90.0	17.0	104.0	0.0	.	108	.	.	Atlas-SNP
SNRPB	6628	hgsc.bcm.edu	hg19	20	2443295	2443295	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	SNRPB	NM_003091	exon6	c.C672G	p.P224P	CCCAGGGGGAGGA	.	86.0	10.0	114.0	0.0	.	29	.	.	Atlas-SNP
WFDC8	90199	hgsc.bcm.edu	hg19	20	44181869	44181869	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	WFDC8	NM_181510	exon5	c.G492A	p.E164E	TGGACACTCCTTA	.	91.0	9.0	108.0	0.0	.	28	.	.	Atlas-SNP
RBFOX2	23543	hgsc.bcm.edu	hg19	22	36164375	36164375	+	Missense_Mutation	SNP	C	C	T	rs199852787	bycluster;by1000genomes;alternate_allele	TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	RBFOX2_ENST00000438146,NS,carcinoma,0,2	RBFOX2	NM_001082578	exon6	c.G685A	p.E229K	TATTCTCGAAAGT	.	90.0	8.0	111.0	0.0	.	62	.	C|1.000;G|0.000	Atlas-SNP
XRCC6	2547	hgsc.bcm.edu	hg19	22	42042966	42042966	+	Silent	SNP	T	T	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	XRCC6	NM_001469	exon7	c.T840A	p.A280A	GAAGGCTCTCAAG	.	153.0	47.0	137.0	0.0	.	64	.	.	Atlas-SNP
PCDH19	57526	hgsc.bcm.edu	hg19	X	99662112	99662112	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	PCDH19	NM_001184880	exon1	c.C1484T	p.S495L	ACCTGCGACGGCA	.	101.0	47.0	94.0	0.0	.	269	.	.	Atlas-SNP
MMGT1	93380	hgsc.bcm.edu	hg19	X	135049605	135049605	+	Silent	SNP	T	T	G	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	MMGT1	NM_173470	exon3	c.A180C	p.I60I	ATGAACTATACCG	.	220.0	106.0	193.0	0.0	.	14	.	.	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	6177	6177	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	.	ENST00000361624	exon1	c.A274T	p.M92L	CCCGATATGGCGT	.	794.0	59.0	1196.0	0.0	.	.	.	.	Atlas-SNP
ND4L	0	hgsc.bcm.edu	hg19	MT	10635	10635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	.	ENST00000361335	exon1	c.G166A	p.A56T	CTCTTAGCCAATA	.	1001.0	56.0	1292.0	0.0	.	.	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12677	12677	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	.	ENST00000361567	exon1	c.T341C	p.I114T	CAAACATTAATCA	.	947.0	144.0	1353.0	0.0	.	.	.	.	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	hg19	2	47707967	47707993	+	In_Frame_Del	DEL	ATATCATGGAACCAGCAGCAAAGAAGT	ATATCATGGAACCAGCAGCAAAGAAGT	-	novel		TCGA-DD-A1E9-01A-21D-A152-10	TCGA-DD-A1E9-11A-11D-A152-10	ATATCATGGAACCAGCAGCAAAGAAGT	ATATCATGGAACCAGCAGCAAAGAAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84a0bc36-9f29-4b23-aee1-bf5ff71f697b	f37fe995-4af3-489f-988e-ca04430e4e57	.	MSH2	NM_000251	exon15	c.2590_2616del	p.864_872del	.	.	147.0	18.0	183.0	0.0	.	198	.	.	Atlas-Indel,Pindel
