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
ZBTB40	9923	hgsc.bcm.edu	hg19	1	22848029	22848029	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ZBTB40	NM_001083621	exon16	c.C3089A	p.P1030H	ACCACCCTGACGT	.	713.0	223.0	453.0	1.0	.	87	.	.	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	hg19	1	39879769	39879769	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KIAA0754	NM_015038	exon1	c.G3832A	p.E1278K	ACCCCCGAGGAGC	.	145.0	55.0	91.0	0.0	.	93	.	.	Atlas-SNP
S100A4	6275	hgsc.bcm.edu	hg19	1	153517143	153517143	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	S100A4	NM_002961	exon2	c.C128A	p.P43H	AAGCTGGGCAGCT	.	179.0	53.0	109.0	0.0	.	6	.	.	Atlas-SNP
SLC27A3	11000	hgsc.bcm.edu	hg19	1	153750269	153750269	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SLC27A3	NM_024330	exon4	c.G1210C	p.A404P	TTCTCGGCTGGTC	.	267.0	12.0	105.0	0.0	.	42	.	.	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	hg19	1	201058470	201058470	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CACNA1S	NM_000069	exon6	c.C816T	p.I272I	GTGGGTGATGCCA	.	419.0	170.0	202.0	0.0	.	249	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	215960064	215960064	+	Silent	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	USH2A	NM_206933	exon52	c.A10335G	p.S3445S	GGCAGATGAACAC	.	505.0	145.0	235.0	0.0	.	1168	.	.	Atlas-SNP
MARC2	54996	hgsc.bcm.edu	hg19	1	220935024	220935024	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	.	NM_017898	exon3	c.C471T	p.G157G	TAAAGGCAGAGAC	.	269.0	137.0	134.0	0.0	.	.	.	.	Atlas-SNP
PGBD5	79605	hgsc.bcm.edu	hg19	1	230468595	230468595	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	PGBD5	NM_001258311	exon5	c.A1268G	p.Q423R	CCCTGCTGCACCG	.	293.0	22.0	198.0	0.0	.	73	.	.	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237823313	237823313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	RYR2	NM_001035	exon55	c.T8237C	p.I2746T	GAGAAATATATTC	.	63.0	19.0	57.0	0.0	.	1273	.	.	Atlas-SNP
OR2M7	391196	hgsc.bcm.edu	hg19	1	248487546	248487546	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	OR2M7,right_upper_lobe,carcinoma,0,1	OR2M7	NM_001004691	exon1	c.G325C	p.G109R	CGGAGCCAAGCAA	.	414.0	188.0	197.0	1.0	.	84	.	.	Atlas-SNP
CCT4	10575	hgsc.bcm.edu	hg19	2	62107453	62107453	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CCT4	NM_006430	exon4	c.T347G	p.L116R	TCTAAGAGGGAGC	.	117.0	32.0	78.0	0.0	.	38	.	.	Atlas-SNP
WDPCP	51057	hgsc.bcm.edu	hg19	2	63631475	63631475	+	Silent	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	WDPCP	NM_015910	exon10	c.A1143G	p.S381S	TATTAATGAAGGC	.	97.0	7.0	75.0	0.0	.	79	.	.	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	hg19	2	65305033	65305033	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CEP68	NM_015147	exon5	c.C2039G	p.S680C	ATCAGTCTCTGAC	.	146.0	42.0	103.0	0.0	.	69	.	.	Atlas-SNP
NXPH2	11249	hgsc.bcm.edu	hg19	2	139428566	139428566	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	NXPH2	NM_007226	exon2	c.G721C	p.D241H	TATAATCAACACT	.	90.0	31.0	58.0	0.0	.	63	.	.	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	hg19	2	176964643	176964643	+	Silent	SNP	G	G	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	HOXD12	NM_021193	exon1	c.G114C	p.A38A	GGCCGCGCTTCCC	.	48.0	10.0	39.0	0.0	.	25	.	.	Atlas-SNP
HIBCH	26275	hgsc.bcm.edu	hg19	2	191077767	191077767	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	HIBCH	NM_014362	exon12	c.T926G	p.I309S	AGTGTGATCTTTA	.	26.0	8.0	34.0	0.0	.	28	.	.	Atlas-SNP
CACNA2D3	55799	hgsc.bcm.edu	hg19	3	55108222	55108222	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CACNA2D3	NM_018398	exon38	c.T3265G	p.F1089V	ATGCTCTTCTCAA	.	208.0	10.0	118.0	0.0	.	159	.	.	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	hg19	3	113373818	113373818	+	Silent	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KIAA2018	NM_001009899	exon7	c.A6711G	p.L2237L	ATGACCTAGAATA	.	184.0	62.0	127.0	0.0	.	180	.	.	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	hg19	3	130104098	130104098	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	COL6A5	NM_153264	exon5	c.A1752G	p.I584M	TAAAATAGAACTG	.	80.0	29.0	76.0	0.0	.	205	.	.	Atlas-SNP
ACPP	55	hgsc.bcm.edu	hg19	3	132050504	132050504	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ACPP	NM_001099	exon3	c.A230T	p.Q77L	TGGAGCAGCATTA	.	90.0	27.0	94.0	0.0	.	118	.	.	Atlas-SNP
KIAA0232	9778	hgsc.bcm.edu	hg19	4	6864199	6864199	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KIAA0232	NM_014743	exon7	c.T2090A	p.F697Y	GTGCCTTTGAAGA	.	244.0	86.0	188.0	0.0	.	102	.	.	Atlas-SNP
TXK	7294	hgsc.bcm.edu	hg19	4	48073678	48073678	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	TXK	NM_003328	exon14	c.G1371T	p.W457C	AACTTCCCACATT	.	46.0	13.0	25.0	0.0	.	58	.	.	Atlas-SNP
CWH43	80157	hgsc.bcm.edu	hg19	4	49046853	49046853	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CWH43	NM_025087	exon14	c.A1854G	p.R618R	GTATCGAGGGCTG	.	92.0	19.0	85.0	0.0	.	101	.	.	Atlas-SNP
SH3RF1	57630	hgsc.bcm.edu	hg19	4	170077556	170077556	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SH3RF1	NM_020870	exon3	c.A668C	p.K223T	TTTACCTTTGCAA	.	253.0	92.0	184.0	0.0	.	60	.	.	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	hg19	4	175897719	175897719	+	Missense_Mutation	SNP	G	G	A	rs201308805	bycluster	TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ADAM29	NM_001130703	exon4	c.G1043A	p.R348H	CATGTCGTTGTTC	.	172.0	13.0	149.0	0.0	.	262	.	.	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	hg19	4	175898784	175898784	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ADAM29	NM_001130703	exon4	c.C2108G	p.P703R	GTAAACCAATAAA	.	57.0	17.0	59.0	0.0	.	262	.	.	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	hg19	5	7892874	7892874	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	MTRR	NM_024010	exon11	c.G1486C	p.V496L	CATTTTGTCTTCA	.	213.0	14.0	150.0	0.0	.	74	.	.	Atlas-SNP
RXFP3	51289	hgsc.bcm.edu	hg19	5	33938060	33938060	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	RXFP3	NM_016568	exon1	c.G1215A	p.W405X	GCTGTGGCGCATC	.	115.0	46.0	74.0	0.0	.	114	.	.	Atlas-SNP
ISL1	3670	hgsc.bcm.edu	hg19	5	50685666	50685666	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ISL1	NM_002202	exon4	c.C665A	p.P222H	TCAGTCCCCGTGT	.	256.0	84.0	148.0	0.0	.	65	.	.	Atlas-SNP
KCTD16	57528	hgsc.bcm.edu	hg19	5	143853624	143853624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KCTD16	NM_020768	exon4	c.C1234T	p.P412S	CGGTTTCCTGAGA	.	91.0	25.0	92.0	0.0	.	70	.	.	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	hg19	5	176721088	176721088	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	NSD1	NM_022455	exon23	c.C6719A	p.S2240X	AGCAATCAACAGG	.	87.0	34.0	79.0	0.0	.	416	.	.	Atlas-SNP
TRIM15	89870	hgsc.bcm.edu	hg19	6	30138285	30138285	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	TRIM15	NM_033229	exon5	c.A739C	p.M247L	TGTGAGATGAAGA	.	106.0	29.0	63.0	0.0	.	34	.	.	Atlas-SNP
EPB41L2	2037	hgsc.bcm.edu	hg19	6	131179313	131179313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	EPB41L2	NM_001431	exon19	c.A2981G	p.H994R	TCTTTGTGTACCA	.	193.0	69.0	146.0	0.0	.	96	.	.	Atlas-SNP
PLG	5340	hgsc.bcm.edu	hg19	6	161139737	161139737	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	PLG	NM_000301	exon9	c.A963G	p.E321E	GGATGAAAACTAC	.	233.0	24.0	189.0	0.0	.	150	.	.	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	hg19	7	3658865	3658865	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SDK1	NM_152744	exon2	c.A452T	p.E151V	GCAGCGAATATAA	.	152.0	47.0	90.0	0.0	.	361	.	.	Atlas-SNP
BBS9	27241	hgsc.bcm.edu	hg19	7	33397473	33397473	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	BBS9	NM_198428	exon16	c.C1559T	p.P520L	GCATTCCGCGAGT	.	46.0	17.0	39.0	0.0	.	194	.	.	Atlas-SNP
ZMIZ2	83637	hgsc.bcm.edu	hg19	7	44797559	44797559	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ZMIZ2	NM_174929	exon5	c.C665G	p.S222C	GCCCCTCTGGCCT	.	124.0	41.0	91.0	0.0	.	82	.	.	Atlas-SNP
SLC26A4	5172	hgsc.bcm.edu	hg19	7	107342429	107342429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SLC26A4	NM_000441	exon17	c.C1961T	p.P654L	AAGTGCCAATCCA	.	263.0	83.0	212.0	0.0	.	117	.	.	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	hg19	7	121653216	121653216	+	Silent	SNP	G	G	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	PTPRZ1	NM_002851	exon12	c.G4116C	p.G1372G	AAATGGGCATGTT	.	235.0	63.0	196.0	0.0	.	605	.	.	Atlas-SNP
WDR86	349136	hgsc.bcm.edu	hg19	7	151093228	151093228	+	Silent	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	WDR86	NM_198285	exon3	c.G360C	p.R120R	CCAGACCCGAGCT	.	84.0	24.0	54.0	0.0	.	35	.	.	Atlas-SNP
TONSL	4796	hgsc.bcm.edu	hg19	8	145668658	145668658	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	TONSL_ENST00000409379,NS,haematopoietic_neoplasm,0,3	TONSL	NM_013432	exon4	c.C311A	p.T104K	AGCTCCGTGTGGT	.	197.0	61.0	111.0	0.0	.	128	.	.	Atlas-SNP
DMRTA1	63951	hgsc.bcm.edu	hg19	9	22447695	22447695	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	DMRTA1	NM_022160	exon1	c.G631T	p.E211X	GCTTTCGAAGTTT	.	148.0	42.0	136.0	0.0	.	29	.	.	Atlas-SNP
FAM166B	730112	hgsc.bcm.edu	hg19	9	35563264	35563264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	FAM166B	NM_001099951	exon2	c.C185T	p.P62L	ATGGGAGGCAGAA	.	178.0	53.0	134.0	0.0	.	19	.	.	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	hg19	9	71840272	71840272	+	Silent	SNP	G	G	T	rs140444730	bycluster;by1000genomes;alternate_allele	TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	TJP2	NM_001170416	exon6	c.G1098T	p.T366T	CCGAACGGGTCTG	.	121.0	47.0	94.0	0.0	.	120	.	G|1.000;A|0.000	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	hg19	10	72503886	72503886	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ADAMTS14	NM_139155	exon14	c.G2132T	p.G711V	GCGGGGGTGACAA	.	161.0	10.0	122.0	0.0	.	148	.	.	Atlas-SNP
DCDC1	341019	hgsc.bcm.edu	hg19	11	31312242	31312242	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	DCDC1	NM_181807	exon7	c.G912A	p.M304I	CTGCCCCATGCCA	.	161.0	11.0	125.0	0.0	.	74	.	.	Atlas-SNP
OR5T1	390155	hgsc.bcm.edu	hg19	11	56043388	56043388	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	OR5T1	NM_001004745	exon1	c.A274G	p.K92E	ACTCCAAAAATGT	.	111.0	40.0	79.0	0.0	.	95	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92538485	92538485	+	Silent	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	FAT3	NM_001008781	exon10	c.T9063C	p.D3021D	CAGTGATGTGAAT	.	230.0	71.0	198.0	0.0	.	1822	.	.	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	hg19	11	108383488	108383488	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	EXPH5	NM_015065	exon6	c.C2746A	p.P916T	GCGATGGATCTTT	.	89.0	28.0	77.0	0.0	.	193	.	.	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	hg19	11	128839106	128839106	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ARHGAP32	NM_001142685	exon22	c.A5960G	p.H1987R	AGGCTATGACTCC	.	266.0	25.0	198.0	0.0	.	307	.	.	Atlas-SNP
IRAK3	11213	hgsc.bcm.edu	hg19	12	66611016	66611016	+	Splice_Site	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	IRAK3	NM_007199	exon6	c.653+1G>T	.	ACTACTGTGAGTA	.	88.0	28.0	107.0	0.0	.	75	.	.	Atlas-SNP
IKBIP	121457	hgsc.bcm.edu	hg19	12	99028193	99028193	+	Splice_Site	SNP	T	T	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	IKBIP	NM_201612	exon3	c.180-2A>T	.	CAAACCTGGAAAA	.	35.0	15.0	45.0	0.0	.	46	.	.	Atlas-SNP
SLC39A9	55334	hgsc.bcm.edu	hg19	14	69925257	69925257	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SLC39A9	NM_018375	exon7	c.C871G	p.L291V	GCAGCCCTGGTTC	.	143.0	48.0	73.0	0.0	.	27	.	.	Atlas-SNP
CYP46A1	10858	hgsc.bcm.edu	hg19	14	100191750	100191750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CYP46A1	NM_006668	exon13	c.G1199A	p.R400Q	TGGGGCGGATGGA	.	151.0	49.0	113.0	0.0	.	62	.	.	Atlas-SNP
BRF1	2972	hgsc.bcm.edu	hg19	14	105722840	105722840	+	Silent	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	BRF1	NM_001242790	exon4	c.T486G	p.R162R	TGCAGGACGGAGG	.	242.0	68.0	161.0	0.0	.	102	.	.	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	hg19	15	42159172	42159172	+	Silent	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SPTBN5	NM_016642	exon36	c.C6360T	p.T2120T	GGCCTGGGTGAAG	.	102.0	43.0	78.0	0.0	.	171	.	.	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	hg19	16	27772791	27772791	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KIAA0556	NM_015202	exon19	c.G3689A	p.G1230D	TCACTGGCCTGGA	.	101.0	8.0	55.0	0.0	.	348	.	.	Atlas-SNP
RNF166	115992	hgsc.bcm.edu	hg19	16	88764990	88764990	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	RNF166	NM_178841	exon5	c.T568G	p.W190G	CCCCCCAGGGCAT	.	141.0	6.0	79.0	0.0	.	3	.	.	Atlas-SNP
MYO1C	4641	hgsc.bcm.edu	hg19	17	1381960	1381960	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	MYO1C	NM_001080779	exon10	c.C1162T	p.R388C	AAGTGCGGCTGTA	.	145.0	6.0	124.0	0.0	.	57	.	.	Atlas-SNP
TRPV1	7442	hgsc.bcm.edu	hg19	17	3481004	3481004	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	TRPV1	NM_018727	exon11	c.T1601G	p.L534R	TCCTTGAGGTGGC	.	171.0	89.0	149.0	0.0	.	99	.	.	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11725907	11725907	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	DNAH9	NM_001372	exon47	c.G9003T	p.E3001D	CACAGAGGGCATT	.	123.0	51.0	115.0	0.0	.	695	.	.	Atlas-SNP
ZNF287	57336	hgsc.bcm.edu	hg19	17	16470785	16470785	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ZNF287	NM_020653	exon2	c.A261C	p.Q87H	CAAAATTTGTTCC	.	177.0	10.0	108.0	0.0	.	60	.	.	Atlas-SNP
ALKBH5	54890	hgsc.bcm.edu	hg19	17	18110272	18110272	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ALKBH5	NM_017758	exon3	c.A995T	p.D332V	ACCCTGATGCTGC	.	124.0	43.0	72.0	0.0	.	24	.	.	Atlas-SNP
ARHGAP23	57636	hgsc.bcm.edu	hg19	17	36622415	36622415	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ARHGAP23	NM_001199417	exon7	c.C491T	p.S164F	CCTACTCCCAGGA	.	56.0	20.0	30.0	0.0	.	48	.	.	Atlas-SNP
CWC25	54883	hgsc.bcm.edu	hg19	17	36958366	36958366	+	Silent	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CWC25	NM_017748	exon10	c.G1257A	p.E419E	GTTCTTCTCCAGA	.	118.0	35.0	65.0	0.0	.	24	.	.	Atlas-SNP
FKBP10	60681	hgsc.bcm.edu	hg19	17	39975544	39975544	+	Silent	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	FKBP10	NM_021939	exon5	c.A810G	p.L270L	CCAGCTAGAGACG	.	152.0	7.0	108.0	0.0	.	57	.	.	Atlas-SNP
ZACN	353174	hgsc.bcm.edu	hg19	17	74076379	74076379	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ZACN	NM_180990	exon5	c.G418C	p.D140H	CGAGTAGACCAGG	.	245.0	75.0	137.0	0.0	.	29	.	.	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	hg19	17	76440846	76440846	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	DNAH17	NM_173628	exon71	c.G11368T	p.D3790Y	CACTGTCCAGATT	.	200.0	66.0	118.0	0.0	.	347	.	.	Atlas-SNP
CDH7	1005	hgsc.bcm.edu	hg19	18	63489356	63489356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CDH7	NM_004361	exon5	c.C665T	p.A222V	GAGAGGCTAAAGA	.	176.0	45.0	134.0	0.0	.	362	.	.	Atlas-SNP
GALR1	2587	hgsc.bcm.edu	hg19	18	74980684	74980684	+	Silent	SNP	G	G	T	rs199730182	bycluster;alternate_allele	TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	GALR1	NM_001480	exon3	c.G876T	p.A292A	CCTGGCGTACAGC	.	124.0	41.0	76.0	0.0	.	53	.	G|0.999;A|0.001	Atlas-SNP
FFAR2	2867	hgsc.bcm.edu	hg19	19	35940974	35940974	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	FFAR2	NM_005306	exon1	c.T358G	p.S120A	AAGCTCTCCCGCC	.	194.0	60.0	157.0	0.0	.	39	.	.	Atlas-SNP
MEIS3	56917	hgsc.bcm.edu	hg19	19	47910667	47910667	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	MEIS3	NM_020160	exon9	c.G1015C	p.E339Q	TCTGCTCCTCCGA	.	79.0	20.0	39.0	0.0	.	40	.	.	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	hg19	20	2635207	2635207	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	NOP56	NM_006392	exon4	c.C356G	p.A119G	TCATAGCTGAGAT	.	202.0	65.0	184.0	0.0	.	73	.	.	Atlas-SNP
PLCB4	5332	hgsc.bcm.edu	hg19	20	9371192	9371192	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	PLCB4	NM_182797	exon15	c.A1253G	p.Y418C	AACAGTACAAGAT	.	107.0	29.0	94.0	0.0	.	204	.	.	Atlas-SNP
CD93	22918	hgsc.bcm.edu	hg19	20	23065572	23065572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CD93	NM_012072	exon1	c.G1258A	p.E420K	CGTCCTCCCCGGC	.	220.0	77.0	149.0	0.0	.	84	.	.	Atlas-SNP
BPIFB2	80341	hgsc.bcm.edu	hg19	20	31609598	31609598	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	.	NM_025227	exon15	c.T1328C	p.V443A	TCTTTGTCTATGA	.	113.0	33.0	93.0	0.0	.	.	.	.	Atlas-SNP
ZSWIM3	140831	hgsc.bcm.edu	hg19	20	44506970	44506970	+	Silent	SNP	C	C	G	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ZSWIM3	NM_080752	exon2	c.C1773G	p.L591L	GTACCTCCTTGGG	.	358.0	110.0	224.0	0.0	.	96	.	.	Atlas-SNP
ELMO2	63916	hgsc.bcm.edu	hg19	20	45014770	45014770	+	Missense_Mutation	SNP	G	G	A	rs112131818	bycluster	TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ELMO2	NM_182764	exon8	c.C670T	p.L224F	CCTGGAGGTGTGA	.	116.0	6.0	103.0	0.0	.	51	.	G|0.500;A|0.500	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	hg19	21	43547324	43547324	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	UMODL1	NM_173568	exon18	c.C3886A	p.P1296T	CGGGACCCCATCA	.	165.0	41.0	147.0	0.0	.	186	.	.	Atlas-SNP
CHDC2	286464	hgsc.bcm.edu	hg19	X	36103589	36103589	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	.	NM_173695	exon5	c.T575C	p.V192A	TACCTGTAGATAA	.	69.0	52.0	58.0	0.0	.	.	.	.	Atlas-SNP
KIAA2022	340533	hgsc.bcm.edu	hg19	X	73962088	73962088	+	Silent	SNP	T	T	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	KIAA2022	NM_001008537	exon3	c.A2304T	p.S768S	ACTGTTTGATGTC	.	85.0	63.0	62.0	0.0	.	262	.	.	Atlas-SNP
SLITRK2	84631	hgsc.bcm.edu	hg19	X	144905414	144905414	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	SLITRK2	NM_001144005	exon5	c.T1471A	p.F491I	AATATATTTGGGG	.	121.0	38.0	41.0	0.0	.	221	.	.	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	hg19	X	151818957	151818957	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	GABRQ	NM_018558	exon7	c.T815C	p.V272A	TGCAAGTCTACTG	.	445.0	171.0	148.0	0.0	.	131	.	.	Atlas-SNP
ESRP1	54845	hgsc.bcm.edu	hg19	8	95677274	95677274	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	ESRP1	NM_001122826	exon8	c.874delA	p.T292fs	.	.	275.0	86.0	231.0	0.0	.	148	.	.	Atlas-Indel,Pindel
GJA8	2703	hgsc.bcm.edu	hg19	1	147381088	147381088	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	GJA8	NM_005267	exon2	c.1005delG	p.G335fs	.	.	200.0	39.0	114.0	0.0	.	108	.	.	Atlas-Indel,Pindel
BIRC2	329	hgsc.bcm.edu	hg19	11	102221361	102221362	+	In_Frame_Ins	INS	-	-	TAG	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	BIRC2	NM_001166	exon2	c.776_777insTAG	p.F259delinsFS	.	.	51.0	19.0	32.0	0.0	.	51	.	.	Atlas-Indel,Pindel
DCDC5	100506627	hgsc.bcm.edu	hg19	11	30921967	30921972	+	In_Frame_Del	DEL	GACTTG	GACTTG	-	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	GACTTG	GACTTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	DCDC5	NM_020869	exon14	c.1897_1902del	p.633_634del	.	.	119.0	14.0	147.0	0.0	.	137	.	.	Atlas-Indel,Pindel
U2SURP	23350	hgsc.bcm.edu	hg19	3	142747437	142747437	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	U2SURP	NM_001080415	exon16	c.1558delG	p.E520fs	.	.	246.0	84.0	219.0	0.0	.	66	.	.	Atlas-Indel,Pindel
CYP2E1	1571	hgsc.bcm.edu	hg19	10	135340926	135340949	+	In_Frame_Del	DEL	CCTGCTGGTGTGGGCGGCCTTCCT	CCTGCTGGTGTGGGCGGCCTTCCT	-	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	CCTGCTGGTGTGGGCGGCCTTCCT	CCTGCTGGTGTGGGCGGCCTTCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.	CYP2E1	NM_000773	exon1	c.26_49del	p.9_17del	.	.	35.0	12.0	66.0	0.0	.	69	.	.	Pindel
ARID2	196528	hgsc.bcm.edu	hg19	12	46244449	46244450	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G3-A5SK-01A-11D-A27I-10	TCGA-G3-A5SK-10A-01D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	30544c96-0217-45e7-98dc-3dcbf4cf5ab3	2acbefee-83af-414b-8ddf-9f823a91bb22	.,1	ARID2	NM_152641	exon15	c.2543_2544insA	p.I848fs	.	.	304.0	67.0	251.0	0.0	.	311	.	.	Pindel