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	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
LOC440563	0	hgsc.bcm.edu	hg19	1	13183800	13183800	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	.	NM_001136561	exon2	c.A73T	p.T25S	CAAGAGTGTTGAG	.	91.0	48.0	81.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC38	126755	hgsc.bcm.edu	hg19	1	13802427	13802427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	LRRC38	NM_001010847	exon2	c.G772A	p.V258M	TGGACACGGCCAC	.	101.0	44.0	94.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
EIF4G3	8672	hgsc.bcm.edu	hg19	1	21155712	21155712	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	EIF4G3	NM_001198801	exon29	c.T4055G	p.I1352S	AACCAAATATGGG	.	157.0	58.0	114.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	hg19	1	75114960	75114960	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	C1orf173	NM_001002912	exon2	c.G63T	p.L21L	CCCAGCCAGGTGT	.	61.0	27.0	39.0	0.0	.	380	.	.	.	none	.	.	PASS	Atlas-SNP
BCAR3	8412	hgsc.bcm.edu	hg19	1	94049639	94049639	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	BCAR3	NM_001261409	exon6	c.T969C	p.D323D	CATGTGATCCAGG	.	141.0	45.0	116.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	hg19	1	117156796	117156796	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	IGSF3	NM_001542	exon4	c.G423A	p.V141V	TGGGATCACTGCA	.	99.0	53.0	87.0	0.0	.	294	.	.	.	none	.	.	PASS	Atlas-SNP
LCE4A	199834	hgsc.bcm.edu	hg19	1	152681689	152681689	+	Silent	SNP	G	G	C	rs200223098	bycluster	TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.,2	LCE4A	NM_178356	exon1	c.G138C	p.G46G	CTCTGGGGGCTGT	.	97.0	31.0	78.0	0.0	.	37	.	.	.	weak	G|0.999;C|0.001	0.001	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237758908	237758908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	RYR2	NM_001035	exon34	c.G4547A	p.G1516E	CCAGCGGGCTGCT	.	92.0	48.0	56.0	0.0	.	1273	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	hg19	2	84774641	84774641	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	DNAH6	NM_001370	exon7	c.G1091A	p.R364Q	AATTTCGAAATGA	.	187.0	35.0	176.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
ITPR1	3708	hgsc.bcm.edu	hg19	3	4741539	4741539	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ITPR1	NM_001099952	exon35	c.T4423A	p.L1475M	TCGATTTTGGAGA	.	80.0	33.0	68.0	0.0	.	659	.	.	.	none	.	.	PASS	Atlas-SNP
C3orf62	375341	hgsc.bcm.edu	hg19	3	49308828	49308828	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	C3orf62,bladder,carcinoma,0,1	C3orf62	NM_198562	exon3	c.G589T	p.E197X	CGTTTTCAAATTC	.	208.0	76.0	189.0	1.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
AMIGO3	386724	hgsc.bcm.edu	hg19	3	49756686	49756686	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	AMIGO3	NM_198722	exon1	c.C213T	p.N71N	GAGCGCGTTGTGG	.	67.0	30.0	67.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
PLA1A	51365	hgsc.bcm.edu	hg19	3	119347690	119347690	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PLA1A	NM_015900	exon10	c.G1264C	p.A422P	TGCACTGCCCTTT	.	53.0	26.0	41.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
PARP9	83666	hgsc.bcm.edu	hg19	3	122274833	122274833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PARP9	NM_031458	exon4	c.C290T	p.S97F	ACTGGAGAGACCA	.	74.0	37.0	66.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
STX18	53407	hgsc.bcm.edu	hg19	4	4436549	4436549	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	STX18	NM_016930	exon7	c.C650G	p.T217R	CCCCACGTTCCCA	.	54.0	31.0	46.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
PKD2L2	27039	hgsc.bcm.edu	hg19	5	137244511	137244511	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PKD2L2	NM_014386	exon8	c.C1204T	p.R402C	TTGTCCCGTTGTG	.	254.0	103.0	189.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
COL9A1	1297	hgsc.bcm.edu	hg19	6	70970367	70970367	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	COL9A1,NS,carcinoma,0,1	COL9A1	NM_001851	exon20	c.G1442A	p.G481E	TTTTCCCCTTTGT	.	145.0	51.0	128.0	0.0	.	228	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF398	57541	hgsc.bcm.edu	hg19	7	148851297	148851297	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ZNF398	NM_170686	exon2	c.G285A	p.K95K	GGGCAAGTGGGCC	.	29.0	11.0	39.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
CELF2	10659	hgsc.bcm.edu	hg19	10	11308581	11308581	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	CELF2	NM_006561	exon6	c.T559A	p.S187T	ACATTTTCTACAA	.	166.0	70.0	121.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
NUDT13	25961	hgsc.bcm.edu	hg19	10	74884008	74884008	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	NUDT13	NM_015901	exon5	c.A395G	p.K132R	AGCTCAAGGGGTC	.	38.0	17.0	35.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
LRIT1	26103	hgsc.bcm.edu	hg19	10	85997255	85997255	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	LRIT1	NM_015613	exon2	c.C310T	p.R104W	GGCCCCGCAGCAT	.	13.0	8.0	19.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
PIDD	55367	hgsc.bcm.edu	hg19	11	799527	799527	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PIDD	NM_145886	exon16	c.C2513G	p.S838C	GCCCAGGAGAAGA	.	33.0	13.0	31.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	hg19	11	4936639	4936639	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	OR51G2	NM_001005238	exon1	c.A255T	p.T85T	CAGGACTGTAGGG	.	66.0	31.0	45.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	hg19	11	26743093	26743093	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	SLC5A12	NM_178498	exon1	c.C169G	p.L57V	CTGTCAGAGACAA	.	129.0	61.0	101.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
OR8K3	219473	hgsc.bcm.edu	hg19	11	56086707	56086707	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	OR8K3	NM_001005202	exon1	c.A925T	p.N309Y	TTATGTAATATTT	.	75.0	38.0	67.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
HTR3A	3359	hgsc.bcm.edu	hg19	11	113860244	113860244	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	HTR3A	NM_213621	exon8	c.G1310C	p.R437T	GCCCGAGGGACAG	.	30.0	11.0	23.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
INHBE	83729	hgsc.bcm.edu	hg19	12	57850456	57850456	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	INHBE	NM_031479	exon2	c.C878G	p.S293C	CTGCCTCTTTCCA	.	48.0	19.0	39.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PLBD2	196463	hgsc.bcm.edu	hg19	12	113823023	113823023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PLBD2	NM_173542	exon9	c.G1221A	p.M407I	CGGCATGGTGGTG	.	98.0	36.0	101.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
CUL4A	8451	hgsc.bcm.edu	hg19	13	113893814	113893814	+	Silent	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	CUL4A	NM_001008895	exon10	c.G984C	p.R328R	CAGCCGGGTGAGG	.	97.0	41.0	93.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF280D	54816	hgsc.bcm.edu	hg19	15	56968913	56968913	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ZNF280D	NM_017661	exon13	c.T1365C	p.V455V	TTTAATAACTTTG	.	152.0	75.0	114.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF609	23060	hgsc.bcm.edu	hg19	15	64967353	64967353	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	ZNF609,colon,carcinoma,0,1	ZNF609	NM_015042	exon4	c.G2300C	p.G767A	GAGATGGGATGAA	.	65.0	30.0	45.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
ANPEP	290	hgsc.bcm.edu	hg19	15	90349600	90349600	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ANPEP	NM_001150	exon2	c.A215G	p.N72S	TAACGATTCCACG	.	158.0	65.0	129.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
SEZ6L2	26470	hgsc.bcm.edu	hg19	16	29888690	29888690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	SEZ6L2	NM_001243332	exon11	c.G1811A	p.R604H	AGAAGGCGGCGGC	.	54.0	29.0	52.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	hg19	17	8784018	8784018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PIK3R5	NM_001142633	exon19	c.G2581A	p.A861T	CAGGTGCGGCCTG	.	66.0	26.0	52.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
C17orf66	256957	hgsc.bcm.edu	hg19	17	34182703	34182703	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	C17orf66	NM_152781	exon14	c.C1330A	p.L444I	CATCTAGTAAGTC	.	66.0	25.0	56.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	hg19	17	39323904	39323904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	KRTAP4-3	NM_033187	exon1	c.G521A	p.S174N	GGGCAGCTGAAAG	.	148.0	64.0	157.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
RNF43	54894	hgsc.bcm.edu	hg19	17	56492851	56492851	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	RNF43	NM_017763	exon2	c.C88G	p.L30V	GTACCAGTCCTGT	.	34.0	15.0	23.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
TMC6	11322	hgsc.bcm.edu	hg19	17	76118811	76118811	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	TMC6	NM_001127198	exon10	c.G1102T	p.E368X	AGCTCTCCCCGAA	.	25.0	11.0	24.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	hg19	19	1043151	1043151	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ABCA7	NM_019112	exon8	c.A691C	p.S231R	GGACCTAGCAGCA	.	87.0	39.0	62.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
SUGP1	57794	hgsc.bcm.edu	hg19	19	19408123	19408123	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	SUGP1	NM_172231	exon8	c.C918A	p.Y306X	GTACTTGTACCCT	.	65.0	24.0	50.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF681	148213	hgsc.bcm.edu	hg19	19	23938352	23938352	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	ZNF681	NM_138286	exon2	c.A5T	p.E2V	AATGGTTCCTGAA	.	47.0	17.0	52.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	hg19	20	2517943	2517943	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	TMC2	NM_080751	exon2	c.G63A	p.K21K	GGTGAAGAGCGGC	.	38.0	12.0	26.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	hg19	21	43176962	43176962	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	RIPK4	NM_020639	exon2	c.T197C	p.L66P	TCCAAAAGCTCCA	.	34.0	22.0	43.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
PLA2G6	8398	hgsc.bcm.edu	hg19	22	38565425	38565425	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	PLA2G6	NM_003560	exon2	c.C9A	p.F3L	GCCAAAGAACTGC	.	37.0	14.0	36.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ATP8	0	hgsc.bcm.edu	hg19	MT	8390	8390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	.	ENST00000361851	exon1	c.T25C	p.W9R	ACCGTATGGCCCA	.	711.0	101.0	18.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	10911	10911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	.	ENST00000361381	exon1	c.G152A	p.S51N	TATTTAGCTGTTC	.	624.0	65.0	13.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf68	79741	hgsc.bcm.edu	hg19	10	33123784	33123786	+	In_Frame_Del	DEL	ATA	ATA	-	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	ATA	ATA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	C10orf68	NM_024688	exon14	c.1122_1124del	p.374_375del	.	.	211.0	80.0	165.0	0.0	.	75	.	0.379147	0	none	.	.	PASS	Atlas-Indel,Pindel
URI1	8725	hgsc.bcm.edu	hg19	19	30505796	30505796	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	.	NM_003796	exon11	c.1427delC	p.A476fs	.	.	78.0	40.0	49.0	0.0	.	.	.	0.512821	0	none	.	.	PASS	Atlas-Indel,Pindel
CASC5	57082	hgsc.bcm.edu	hg19	15	40916020	40916020	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	.	CASC5	NM_170589	exon11	c.3635delA	p.N1212fs	.	.	72.0	37.0	48.0	0.0	.	269	.	0.513889	0	none	.	.	PASS	Atlas-Indel,Pindel
HMCN1	83872	hgsc.bcm.edu	hg19	1	186026523	186026524	+	Frame_Shift_Ins	INS	-	-	ATTCTTTCAGGTA	novel		TCGA-SX-A7SO-01A-11D-A34Z-10	TCGA-SX-A7SO-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aa1c7a5a-c790-4454-a6b9-3e6510dd803a	f0bb345a-2e8b-4af6-8320-fc9be302a5ff	HMCN1,NS,carcinoma,0,1	HMCN1	NM_031935	exon46	c.7302_7303insATTCTTTCAGGTA	p.R2434fs	.	.	60.0	14.0	58.0	0.0	.	797	.	0.233	.	none	.	.	PASS	Pindel