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
RPL22	6146	hgsc.bcm.edu	hg19	1	6257754	6257754	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	RPL22	NM_000983	exon2	c.C75A	p.C25X	GTGGGTGCAATCA	.	57.0	36.0	42.0	0.0	.	24	.	.	Atlas-SNP
THAP3	90326	hgsc.bcm.edu	hg19	1	6688628	6688628	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	THAP3	NM_001195752	exon2	c.C144T	p.P48P	CAAGCCCAAGCAG	.	188.0	84.0	116.0	0.0	.	43	.	.	Atlas-SNP
CELF3	11189	hgsc.bcm.edu	hg19	1	151688481	151688481	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	CELF3	NM_007185	exon1	c.G16C	p.A6P	TGATGGCATCCGG	.	122.0	53.0	58.0	0.0	.	49	.	.	Atlas-SNP
IGSF9	57549	hgsc.bcm.edu	hg19	1	159898638	159898638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	IGSF9	NM_001135050	exon19	c.G2540A	p.R847Q	GGGCCCCGGCAAA	.	26.0	4.0	13.0	0.0	.	123	.	.	Atlas-SNP
GORAB	92344	hgsc.bcm.edu	hg19	1	170508682	170508682	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	GORAB	NM_152281	exon2	c.C468A	p.C156X	AGATTGCAAATTG	.	139.0	31.0	54.0	0.0	.	41	.	.	Atlas-SNP
TNN	63923	hgsc.bcm.edu	hg19	1	175105078	175105078	+	Splice_Site	SNP	G	G	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	TNN	NM_022093	exon16	c.3427+1G>C	.	GGCTTGGTATGAT	.	191.0	41.0	61.0	0.0	.	297	.	.	Atlas-SNP
GEN1	348654	hgsc.bcm.edu	hg19	2	17954051	17954051	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	GEN1	NM_182625	exon8	c.A953G	p.K318R	TTAAGAAGTAAGT	.	63.0	31.0	82.0	0.0	.	79	.	.	Atlas-SNP
SPAST	6683	hgsc.bcm.edu	hg19	2	32341263	32341263	+	Silent	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	SPAST	NM_014946	exon7	c.T1080C	p.L360L	TATTCTTCCTTCT	.	54.0	21.0	68.0	0.0	.	61	.	.	Atlas-SNP
VIT	5212	hgsc.bcm.edu	hg19	2	36982183	36982183	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	VIT	NM_001177969	exon5	c.C395T	p.S132F	GAGAATCCTTTAT	.	244.0	87.0	202.0	0.0	.	138	.	.	Atlas-SNP
CNGA3	1261	hgsc.bcm.edu	hg19	2	99012481	99012481	+	Missense_Mutation	SNP	G	G	T	rs104893614	bycluster;alternate_allele	TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	CNGA3,colon,carcinoma,+1,1	CNGA3	NM_001298	exon8	c.G848T	p.R283L	TTTCCCGGCTCTT	.	238.0	125.0	180.0	1.0	.	118	.	G|1.000;A|0.000	Atlas-SNP
STEAP3	55240	hgsc.bcm.edu	hg19	2	120005536	120005536	+	Silent	SNP	A	A	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	STEAP3	NM_182915	exon4	c.A804T	p.T268T	CACCACACTGCCG	.	57.0	27.0	43.0	0.0	.	44	.	.	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141747101	141747101	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	LRP1B,right_upper_lobe,carcinoma,0,1	LRP1B	NM_018557	exon17	c.G2770C	p.A924P	CTTTACCTGTGCA	.	77.0	31.0	42.0	1.0	.	1315	.	.	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	hg19	2	160807872	160807872	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	PLA2R1,trunk,malignant_melanoma,0,1	PLA2R1	NM_001195641	exon24	c.G3519T	p.W1173C	TCCAATCCAGTGG	.	200.0	86.0	182.0	0.0	.	153	.	.	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	hg19	3	57475398	57475398	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	DNAH12	NM_178504	exon12	c.T1352A	p.L451H	AGACTGAGAAATT	.	49.0	18.0	39.0	0.0	.	182	.	.	Atlas-SNP
SHOX2	6474	hgsc.bcm.edu	hg19	3	157820590	157820590	+	Silent	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	SHOX2	NM_003030	exon3	c.G504C	p.R168R	ATTGGTCCGACTT	.	225.0	110.0	178.0	0.0	.	84	.	.	Atlas-SNP
SENP2	59343	hgsc.bcm.edu	hg19	3	185332412	185332412	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	SENP2	NM_021627	exon11	c.G994C	p.G332R	CGCCTGGGCAGTG	.	225.0	91.0	150.0	0.0	.	88	.	.	Atlas-SNP
LCORL	254251	hgsc.bcm.edu	hg19	4	17886148	17886148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	LCORL	NM_001166139	exon7	c.C1004T	p.S335L	TTATATGAATAAC	.	67.0	15.0	55.0	0.0	.	60	.	.	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	hg19	4	57244474	57244474	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	AASDH	NM_181806	exon4	c.A508C	p.I170L	AACTTATGCTTTT	.	108.0	46.0	109.0	0.0	.	101	.	.	Atlas-SNP
HMGCS1	3157	hgsc.bcm.edu	hg19	5	43297200	43297200	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	HMGCS1	NM_001098272	exon5	c.A643G	p.I215V	CTACTATAGGATA	.	121.0	54.0	91.0	0.0	.	33	.	.	Atlas-SNP
ACOT12	134526	hgsc.bcm.edu	hg19	5	80628350	80628350	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ACOT12	NM_130767	exon13	c.A1337G	p.D446G	GGTTTGTCATCAT	.	100.0	42.0	76.0	0.0	.	57	.	.	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	hg19	5	111643179	111643179	+	Silent	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	EPB41L4A	NM_022140	exon2	c.G108C	p.T36T	ACCTTTCGTTGAC	.	102.0	47.0	72.0	0.0	.	130	.	.	Atlas-SNP
CDKN1A	1026	hgsc.bcm.edu	hg19	6	36652323	36652323	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	CDKN1A	NM_001220778	exon2	c.G445C	p.D149H	ATGACAGGTGCGG	.	154.0	116.0	55.0	0.0	.	27	.	.	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	hg19	6	41166123	41166123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	TREML2	NM_024807	exon2	c.G100A	p.G34R	TCTCCCCTTCAAG	.	157.0	7.0	55.0	0.0	.	41	.	.	Atlas-SNP
PRDM13	59336	hgsc.bcm.edu	hg19	6	100062539	100062539	+	Silent	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	PRDM13	NM_021620	exon4	c.T2028C	p.P676P	GGAGCCTGGGGAT	.	28.0	6.0	32.0	0.0	.	65	.	.	Atlas-SNP
EZR	7430	hgsc.bcm.edu	hg19	6	159206580	159206580	+	Silent	SNP	G	G	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	EZR	NM_003379	exon4	c.C228A	p.L76L	GAACTGGAGGGGA	.	202.0	78.0	128.0	0.0	.	44	.	.	Atlas-SNP
GPR85	54329	hgsc.bcm.edu	hg19	7	112723996	112723996	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	GPR85	NM_001146265	exon3	c.C781A	p.Q261K	CATTTTGCCTGAT	.	97.0	20.0	82.0	0.0	.	49	.	.	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	hg19	7	138602612	138602612	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	KIAA1549	NM_020910	exon2	c.G1760T	p.S587I	AAAACACTCGGGT	.	129.0	61.0	104.0	0.0	.	314	.	.	Atlas-SNP
CHD7	55636	hgsc.bcm.edu	hg19	8	61749438	61749438	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	CHD7	NM_017780	exon17	c.G4052A	p.R1351K	TCGACAGATTCTC	.	144.0	62.0	99.0	0.0	.	534	.	.	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77618153	77618153	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ZFHX4	NM_024721	exon2	c.C1830T	p.G610G	ACCGGGCAGTGGC	.	110.0	60.0	92.0	0.0	.	878	.	.	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	hg19	8	139824126	139824126	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	COL22A1	NM_152888	exon9	c.C1365T	p.P455P	GGGTGGGGGTGGA	.	31.0	6.0	18.0	0.0	.	390	.	.	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	hg19	9	34726986	34726986	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	FAM205A	NM_001141917	exon5	c.252-1G>T	.	CCCTGGCTAGGAA	.	43.0	21.0	36.0	0.0	.	45	.	.	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	17026254	17026254	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	CUBN	NM_001081	exon30	c.T4375C	p.S1459P	TGGGAGAGTGGAA	.	122.0	45.0	89.0	0.0	.	515	.	.	Atlas-SNP
MYOZ1	58529	hgsc.bcm.edu	hg19	10	75391726	75391726	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	MYOZ1	NM_021245	exon6	c.A862G	p.I288V	TGCCAATATCCAC	.	167.0	8.0	115.0	0.0	.	24	.	.	Atlas-SNP
PTEN	5728	hgsc.bcm.edu	hg19	10	89717712	89717712	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	PTEN,NS,carcinoma,-1,8	PTEN	NM_000314	exon7	c.C737G	p.P246R	CTCAGCCGTTACC	.	139.0	110.0	193.0	0.0	.	3652	.	.	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	hg19	11	56237770	56237770	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	OR5M3	NM_001004742	exon1	c.T204C	p.D68D	CCACACATCAACA	.	435.0	67.0	247.0	0.0	.	103	.	.	Atlas-SNP
GLYAT	10249	hgsc.bcm.edu	hg19	11	58491955	58491955	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.,1	GLYAT	NM_005838	exon2	c.G15A	p.L5L	ACCTTGCAATGGT	.	76.0	21.0	27.0	0.0	.	53	.	.	Atlas-SNP
SSH3	54961	hgsc.bcm.edu	hg19	11	67077629	67077629	+	Missense_Mutation	SNP	C	C	T	rs370197853		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	SSH3	NM_017857	exon13	c.C1502T	p.P501L	CTCTTCCGCCAGA	.	121.0	38.0	53.0	0.0	.	54	.	.	Atlas-SNP
CD4	920	hgsc.bcm.edu	hg19	12	6927621	6927621	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	CD4,NS,carcinoma,0,1	CD4	NM_000616	exon8	c.G1191T	p.M397I	GCCAATGGCCCTG	.	44.0	26.0	43.0	0.0	.	47	.	.	Atlas-SNP
C12orf68	387856	hgsc.bcm.edu	hg19	12	48577984	48577984	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	C12orf68	NM_001013635	exon1	c.G79C	p.A27P	GTGCCGGCAGTGG	.	15.0	6.0	23.0	0.0	.	11	.	.	Atlas-SNP
LUM	4060	hgsc.bcm.edu	hg19	12	91498002	91498002	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	LUM	NM_002345	exon3	c.C957T	p.T319T	AAGACTGGTTTCT	.	89.0	4.0	64.0	0.0	.	65	.	.	Atlas-SNP
ATP8A2	51761	hgsc.bcm.edu	hg19	13	26145823	26145823	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ATP8A2	NM_016529	exon18	c.T1655C	p.I552T	TCATCATAGAAGC	.	63.0	28.0	69.0	0.0	.	181	.	.	Atlas-SNP
TSR3	115939	hgsc.bcm.edu	hg19	16	1400190	1400190	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	.	NM_001001410	exon4	c.G572C	p.G191A	CCCTTGCCCCATT	.	26.0	11.0	19.0	0.0	.	.	.	.	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	hg19	17	10304673	10304673	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	MYH8	NM_002472	exon24	c.C3027T	p.T1009T	ATCCAGGGTCTGC	.	111.0	51.0	80.0	0.0	.	346	.	.	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	hg19	17	10352333	10352333	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	MYH4	NM_017533	exon31	c.G4213T	p.E1405X	GTTCTTCTGCATC	.	75.0	24.0	55.0	0.0	.	349	.	.	Atlas-SNP
ITGB3	3690	hgsc.bcm.edu	hg19	17	45361990	45361990	+	Silent	SNP	A	A	G	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ITGB3	NM_000212	exon4	c.A543G	p.A181A	CGGGGCATTTGTG	.	136.0	49.0	122.0	0.0	.	157	.	.	Atlas-SNP
DNMT1	1786	hgsc.bcm.edu	hg19	19	10286294	10286294	+	Silent	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	DNMT1	NM_001130823	exon7	c.C570T	p.G190G	GGCAGGGCTGTCA	.	158.0	62.0	94.0	0.0	.	148	.	.	Atlas-SNP
DNMT1	1786	hgsc.bcm.edu	hg19	19	10286295	10286295	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	DNMT1	NM_001379	exon7	c.522-1G>T	.	GCAGGGCTGTCAC	.	156.0	61.0	96.0	0.0	.	148	.	.	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	hg19	19	13936368	13936368	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ZSWIM4	NM_023072	exon11	c.C1869T	p.D623D	AGGAGACCCCAAG	.	112.0	55.0	73.0	0.0	.	69	.	.	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17758169	17758169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	UNC13A	NM_001080421	exon16	c.C1949T	p.A650V	GTCACCGCGAAGA	.	106.0	59.0	77.0	0.0	.	299	.	.	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	hg19	20	62324187	62324187	+	Silent	SNP	C	C	T	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	RTEL1	NM_032957	exon29	c.C2754T	p.D918D	GACGGACAGGGCC	.	86.0	44.0	66.0	0.0	.	114	.	.	Atlas-SNP
NCF4	4689	hgsc.bcm.edu	hg19	22	37271708	37271708	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	NCF4	NM_000631	exon8	c.G641C	p.G214A	TCCGGGGAGCCAC	.	41.0	20.0	36.0	0.0	.	66	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13255	13255	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	.	ENST00000361567	exon1	c.T919C	p.S307P	TCCACTTCAAGTC	.	24.0	21.0	96.0	0.0	.	.	.	.	Atlas-SNP
NXF2B	728343	hgsc.bcm.edu	hg19	X	101573497	101573497	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	NXF2B	NM_001099686	exon9	c.719delA	p.D240fs	.	.	990.0	141.0	606.0	0.0	.	20	.	.	Atlas-INDEL
RB1	5925	hgsc.bcm.edu	hg19	13	48919320	48919321	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	RB1_ENST00000267163,colon,carcinoma,-1,2	RB1	NM_000321	exon4	c.485_486insA	p.F162fs	.	.	32.0	26.0	40.0	0.0	.	1068	.	.	Atlas-INDEL
CTSG	1511	hgsc.bcm.edu	hg19	14	25044580	25044580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	CTSG,NS,carcinoma,0,1	CTSG	NM_001911	exon2	c.95delG	p.R32fs	.	.	73.0	34.0	38.0	0.0	.	63	.	.	Atlas-Indel,Pindel
SPAG6	9576	hgsc.bcm.edu	hg19	10	22700061	22700070	+	Frame_Shift_Del	DEL	ATACATCAAC	ATACATCAAC	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	ATACATCAAC	ATACATCAAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	SPAG6	NM_012443	exon10	c.1415_1424del	p.472_475del	.	.	60.0	17.0	76.0	0.0	.	90	.	.	Atlas-Indel,Pindel
KNTC1	9735	hgsc.bcm.edu	hg19	12	123055421	123055433	+	In_Frame_Del	DEL	TTTCAGATAATTC	TTTCAGATAATTC	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	TTTCAGATAATTC	TTTCAGATAATTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	KNTC1	NM_014708	exon23	c.1861_1866del	p.621_622del	.	.	65.0	16.0	99.0	0.0	.	182	.	.	Atlas-INDEL
CEP120	153241	hgsc.bcm.edu	hg19	5	122722352	122722353	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	CEP120	NM_153223	exon11	c.1440_1441del	p.480_481del	.	.	65.0	29.0	57.0	0.0	.	72	.	.	Atlas-Indel,Pindel
AGAP2	116986	hgsc.bcm.edu	hg19	12	58121724	58121738	+	In_Frame_Del	DEL	ACCTTGCTGCTCTCA	ACCTTGCTGCTCTCA	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	ACCTTGCTGCTCTCA	ACCTTGCTGCTCTCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	AGAP2	NM_001122772	exon15	c.2749_2763del	p.917_921del	.	.	75.0	20.0	66.0	0.0	.	167	.	.	Pindel
ZNF512B	57473	hgsc.bcm.edu	hg19	20	62597492	62597583	+	Frame_Shift_Del	DEL	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	-	novel		TCGA-DD-A4NE-01A-11D-A27I-10	TCGA-DD-A4NE-11A-11D-A27I-10	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	343fcbc2-f30c-4ffa-a0b3-f5bb21e5e70b	2f595b57-7cf4-4499-bec6-497a4e241e01	.	ZNF512B	NM_020713	exon5	c.1012_1034del	p.338_345del	.	.	211.0	19.0	111.0	0.0	.	72	.	.	Pindel