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
CELA2A	63036	hgsc.bcm.edu	hg19	1	15789342	15789342	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CELA2A	NM_033440	exon4	c.C342A	p.N114K	CTCCAACCAAATC	.	72.0	21.0	111.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
MAN1C1	57134	hgsc.bcm.edu	hg19	1	26109142	26109142	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MAN1C1	NM_020379	exon11	c.C1717G	p.P573A	AGCACCCCCAACC	.	62.0	28.0	83.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R8	5511	hgsc.bcm.edu	hg19	1	28157385	28157385	+	Silent	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PPP1R8	NM_014110	exon1	c.G39C	p.L13L	CCCGCTGTTCGAC	.	65.0	19.0	81.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
LURAP1	541468	hgsc.bcm.edu	hg19	1	46685818	46685818	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	NM_001013615	exon2	c.G646A	p.D216N	CCAGAGGATGAGA	.	35.0	13.0	30.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SSX2IP	117178	hgsc.bcm.edu	hg19	1	85116084	85116084	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	SSX2IP	NM_001166417	exon14	c.C1631T	p.S544L	AAGTCTGAAGTGG	.	103.0	6.0	99.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	hg19	1	94341887	94341887	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	DNTTIP2	NM_014597	exon2	c.A1604T	p.H535L	TCGTCATGGTCTG	.	265.0	73.0	294.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
HAO2	51179	hgsc.bcm.edu	hg19	1	119925589	119925589	+	Silent	SNP	A	A	G	rs199672779	alternate_allele	TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	HAO2	NM_001005783	exon4	c.A183G	p.R61R	CACCAGAACCACA	.	43.0	4.0	32.0	0.0	.	62	.	.	.	alt	A|0.999;C|0.001	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228558813	228558813	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	OBSCN	NM_001271223	exon105	c.A23205G	p.V7735V	CGGCGTAGCCCGG	.	56.0	20.0	76.0	0.0	.	2142	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	hg19	2	37255868	37255868	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	HEATR5B,NS,carcinoma,0,1	HEATR5B	NM_019024	exon23	c.C3557G	p.S1186C	CAATGAGAAAGTT	.	154.0	53.0	177.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	hg19	2	135744888	135744888	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	NM_025052	exon7	c.C1554T	p.V518V	TATGTTGACACTA	.	233.0	89.0	295.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179615537	179615537	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TTN	NM_133379	exon46	c.G11590T	p.V3864L	CATATACTTCCTC	.	138.0	47.0	167.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
ANKMY1	51281	hgsc.bcm.edu	hg19	2	241463492	241463492	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ANKMY1	NM_016552	exon7	c.G1375T	p.G459C	GACTGCCCCGGTC	.	39.0	13.0	42.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195505828	195505828	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MUC4	NM_018406	exon2	c.C12623A	p.P4208H	GGAAGAGGGGTGG	.	45.0	6.0	67.0	0.0	.	1505	.	.	.	none	.	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195509071	195509071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MUC4	NM_018406	exon2	c.C9380A	p.S3127Y	GCTGAGGAAGTGT	.	61.0	6.0	55.0	0.0	.	1505	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	hg19	4	2337512	2337512	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ZFYVE28	NM_020972	exon6	c.C621G	p.D207E	CCCGAAGTCCAGG	.	40.0	15.0	32.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
NOP14	8602	hgsc.bcm.edu	hg19	4	2946954	2946954	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	NOP14	NM_003703	exon12	c.C1638T	p.L546L	ATAAATGAGCTGG	.	45.0	20.0	51.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
TNIP3	79931	hgsc.bcm.edu	hg19	4	122085296	122085296	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TNIP3	NM_001244764	exon4	c.A216T	p.P72P	TTTTCCTGGAGTC	.	83.0	33.0	79.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
BHMT2	23743	hgsc.bcm.edu	hg19	5	78375253	78375253	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	BHMT2	NM_017614	exon3	c.T228A	p.F76L	TACCTTTTCTGCC	.	49.0	14.0	40.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
FEM1C	56929	hgsc.bcm.edu	hg19	5	114860849	114860849	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	FEM1C	NM_020177	exon3	c.C1010G	p.T337S	TAAGAGGTATCAG	.	84.0	32.0	114.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	hg19	5	125807996	125807996	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	GRAMD3	NM_001146319	exon4	c.A427G	p.S143G	AAGCAAAGTAAGT	.	102.0	39.0	106.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	hg19	5	140710446	140710446	+	Silent	SNP	C	C	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PCDHGA1	NM_018912	exon1	c.C195G	p.R65R	AGTCCGCATCGTC	.	74.0	27.0	62.0	0.0	.	397	.	.	.	none	.	.	PASS	Atlas-SNP
CLK4	57396	hgsc.bcm.edu	hg19	5	178032332	178032332	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CLK4	NM_020666	exon11	c.A1186G	p.I396V	GTGGTATGGGTCC	.	105.0	29.0	137.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
GFPT2	9945	hgsc.bcm.edu	hg19	5	179743447	179743447	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	GFPT2	NM_005110	exon13	c.G1167T	p.L389F	TTCCTCCAAAACT	.	96.0	49.0	72.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	hg19	7	42187973	42187973	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	GLI3	NM_000168	exon3	c.G219A	p.E73E	AGGTTCCTCACTG	.	201.0	84.0	196.0	0.0	.	312	.	.	.	none	.	.	PASS	Atlas-SNP
DBF4	10926	hgsc.bcm.edu	hg19	7	87530188	87530188	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	DBF4	NM_006716	exon10	c.G919A	p.E307K	GATCTAGAAACTG	.	58.0	27.0	52.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100674406	100674406	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MUC17	NM_001040105	exon2	c.A88T	p.S30C	GACCTCAGTGTGA	.	125.0	43.0	171.0	0.0	.	804	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM229A	730130	hgsc.bcm.edu	hg19	7	123672485	123672485	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TMEM229A	NM_001136002	exon1	c.A573G	p.Q191Q	CTGCTGTTGCTGC	.	17.0	8.0	7.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
VPS37A	137492	hgsc.bcm.edu	hg19	8	17142073	17142073	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	VPS37A	NM_152415	exon10	c.A1061G	p.E354G	TCTTGGAGGGAAA	.	116.0	42.0	117.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
KIF13B	23303	hgsc.bcm.edu	hg19	8	28980929	28980929	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	KIF13B	NM_015254	exon28	c.A3433C	p.M1145L	GGACCATCACCGC	.	36.0	9.0	30.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM245	23731	hgsc.bcm.edu	hg19	9	111819564	111819564	+	Silent	SNP	C	C	T	rs201566707	bycluster;alternate_allele	TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	NM_032012	exon12	c.G1761A	p.L587L	GACATGCAACTTC	.	81.0	34.0	105.0	0.0	.	.	.	.	.	alt	C|0.999;A|0.001	.	PASS	Atlas-SNP
USP20	10868	hgsc.bcm.edu	hg19	9	132638511	132638511	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	USP20	NM_001008563	exon22	c.C2403T	p.F801F	CACCTTCATCAAG	.	62.0	25.0	65.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
TUBAL3	79861	hgsc.bcm.edu	hg19	10	5443030	5443030	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TUBAL3	NM_024803	exon2	c.C24A	p.H8Q	ACCGATGTGGATG	.	48.0	17.0	54.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
PALD1	27143	hgsc.bcm.edu	hg19	10	72324203	72324203	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	KIAA1274,NS,haematopoietic_neoplasm,0,3	.	NM_014431	exon19	c.T2346G	p.I782M	CCTGATTCTCTTC	.	99.0	40.0	86.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	hg19	10	76788653	76788653	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	NM_012330	exon18	c.G4071A	p.E1357E	GGAGGAGGAGGAG	.	24.0	5.0	33.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	hg19	10	91479191	91479191	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	KIF20B	NM_016195	exon13	c.A1450T	p.T484S	CCAGACACTTTAA	.	91.0	37.0	132.0	0.0	.	191	.	.	.	none	.	.	PASS	Atlas-SNP
CD151	977	hgsc.bcm.edu	hg19	11	836827	836827	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CD151	NM_139030	exon4	c.A335G	p.Y112C	TCGCCTACGCCTA	.	63.0	25.0	98.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
ARFIP2	23647	hgsc.bcm.edu	hg19	11	6500088	6500088	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ARFIP2	NM_001242854	exon5	c.G516T	p.K172N	CTCATACTTGCGC	.	70.0	30.0	53.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	hg19	11	93461858	93461858	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	KIAA1731	NM_033395	exon25	c.T7173A	p.T2391T	AGAAACTGGCCAT	.	33.0	12.0	31.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
SIK3	23387	hgsc.bcm.edu	hg19	11	116729011	116729011	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	SIK3	NM_025164	exon20	c.A2852G	p.Q951R	TGCTGCTGTTGCT	.	96.0	18.0	89.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
PRPF40B	25766	hgsc.bcm.edu	hg19	12	50025231	50025231	+	Silent	SNP	C	C	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PRPF40B	NM_001031698	exon3	c.C132G	p.P44P	GCTACCCCCCATG	.	161.0	40.0	143.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
UNG	7374	hgsc.bcm.edu	hg19	12	109536367	109536367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	UNG	NM_080911	exon2	c.G263A	p.R88H	CGGCCCGCAACGT	.	119.0	67.0	110.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	hg19	12	112622150	112622150	+	Silent	SNP	C	C	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	NM_001109662	exon61	c.G10218C	p.L3406L	GCTGCACAGGGAA	.	41.0	21.0	30.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
RILPL1	353116	hgsc.bcm.edu	hg19	12	124017929	124017929	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	RILPL1	NM_178314	exon1	c.T101C	p.V34A	TGGCCCACAAGCG	.	50.0	29.0	52.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
COG3	83548	hgsc.bcm.edu	hg19	13	46054390	46054390	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	COG3	NM_031431	exon4	c.C514G	p.L172V	GGAACCCTACATG	.	123.0	37.0	100.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	hg19	13	101760142	101760142	+	Splice_Site	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	NALCN	NM_052867	exon22	c.2365-2A>G	.	GAATGCTAGAAAT	.	217.0	94.0	222.0	0.0	.	431	.	.	.	none	.	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	hg19	14	51273464	51273464	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	NIN	NM_020921	exon4	c.C256G	p.Q86E	GTTCTTGAAAGTG	.	39.0	14.0	63.0	0.0	.	475	.	.	.	none	.	.	PASS	Atlas-SNP
HIF1A	3091	hgsc.bcm.edu	hg19	14	62207303	62207303	+	Silent	SNP	T	T	G	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	HIF1A	NM_001243084	exon11	c.T1689G	p.L563L	AAAACTTTTTGCT	.	101.0	36.0	84.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
C15orf57	90416	hgsc.bcm.edu	hg19	15	40846226	40846226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	C15orf57	NM_001080791	exon4	c.C529T	p.P177S	CCACTGGCTTCTC	.	94.0	41.0	84.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
RPL4	6124	hgsc.bcm.edu	hg19	15	66791910	66791910	+	Silent	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	RPL4	NM_000968	exon10	c.C1119A	p.G373G	CTTCTTGCCTGCA	.	105.0	40.0	107.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJA4	55466	hgsc.bcm.edu	hg19	15	78566592	78566592	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	DNAJA4	NM_018602	exon5	c.G559T	p.G187W	GGGCGGGGGATGC	.	53.0	20.0	50.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
EME2	197342	hgsc.bcm.edu	hg19	16	1823269	1823269	+	Missense_Mutation	SNP	A	A	G	rs372940829		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	EME2	NM_001257370	exon1	c.A41G	p.Q14R	CTTGCCAGGGCCG	.	13.0	6.0	5.0	0.0	.	40	.	.	.	weak	.	.	PASS	Atlas-SNP
MYLK3	91807	hgsc.bcm.edu	hg19	16	46771758	46771758	+	Missense_Mutation	SNP	G	G	A	rs374905189		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MYLK3	NM_182493	exon3	c.C866T	p.S289L	CTGGACGATGCTC	.	34.0	8.0	48.0	0.0	.	82	.	.	.	weak	.	.	PASS	Atlas-SNP
KCTD19	146212	hgsc.bcm.edu	hg19	16	67337132	67337132	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	KCTD19	NM_001100915	exon4	c.G560T	p.S187I	ACTAGGCTGGGAT	.	51.0	21.0	80.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ESRP2	80004	hgsc.bcm.edu	hg19	16	68265766	68265766	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ESRP2	NM_024939	exon10	c.A1238G	p.K413R	ATGCCCTTGTGCC	.	63.0	26.0	85.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
FXR2	9513	hgsc.bcm.edu	hg19	17	7506290	7506290	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	FXR2	NM_004860	exon6	c.C480A	p.F160L	TTTCTTGAACTCT	.	52.0	17.0	82.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	hg19	17	80858535	80858535	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TBCD	NM_005993	exon18	c.T1658A	p.I553N	TGTTTATTGCCGG	.	166.0	70.0	233.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MIER2	54531	hgsc.bcm.edu	hg19	19	327981	327981	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MIER2	NM_017550	exon4	c.C252A	p.D84E	GGGCATGTCGTTG	.	40.0	9.0	57.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF442	79973	hgsc.bcm.edu	hg19	19	12460640	12460640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ZNF442	NM_030824	exon6	c.C1759T	p.L587F	CTCGAAGGAAACG	.	98.0	37.0	133.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
EPHX3	79852	hgsc.bcm.edu	hg19	19	15342598	15342598	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	EPHX3	NM_001142886	exon3	c.C318T	p.F106F	CTCAGGGAAGCCG	.	46.0	21.0	40.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
RABAC1	10567	hgsc.bcm.edu	hg19	19	42461049	42461049	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	RABAC1	NM_006423	exon5	c.C507G	p.F169L	CTGGTGGAAGGCA	.	91.0	39.0	96.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	hg19	19	48305603	48305603	+	Missense_Mutation	SNP	G	G	A	rs199739873		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	TPRX1,NS,carcinoma,0,1	TPRX1	NM_198479	exon2	c.C665T	p.P222L	GGGATCGGGCCTG	.	42.0	21.0	52.0	0.0	.	46	.	.	.	weak	.	.	PASS	Atlas-SNP
SLC12A5	57468	hgsc.bcm.edu	hg19	20	44670004	44670004	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	SLC12A5	NM_001134771	exon8	c.T960C	p.H320H	TCGCCATGGCTTT	.	77.0	17.0	75.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC5	80331	hgsc.bcm.edu	hg19	20	62560863	62560863	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	DNAJC5	NM_025219	exon3	c.C306T	p.S102S	GCTGTCCAGCTGG	.	21.0	9.0	25.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
SOX18	54345	hgsc.bcm.edu	hg19	20	62680619	62680619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	SOX18	NM_018419	exon1	c.G251A	p.R84H	CGGATGCGCGACT	.	39.0	19.0	41.0	0.0	.	5	.	.	.	none	.	.	PASS	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	hg19	21	47665020	47665020	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MCM3AP	NM_003906	exon23	c.T4739G	p.I1580S	TGGCCAATCCCGT	.	60.0	22.0	58.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
CENPI	2491	hgsc.bcm.edu	hg19	X	100402791	100402791	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CENPI	NM_006733	exon18	c.G1866T	p.L622F	TGAGTTGGTACAA	.	136.0	90.0	162.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	hg19	MT	14569	14569	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	.	ENST00000361681	exon1	c.C105G	p.S35X	CACACCGCTAACA	.	77.0	73.0	31.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100674408	100674408	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MUC17	NM_001040105	exon2	c.89delG	p.S30fs	.	.	124.0	44.0	169.0	0.0	.	804	.	0.354839	0	none	.	.	PASS	Atlas-INDEL
CLCN5	1184	hgsc.bcm.edu	hg19	X	49851346	49851347	+	In_Frame_Ins	INS	-	-	TAA	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CLCN5	NM_001127898	exon11	c.1376_1377insTAA	p.F459delinsFN	.	.	58.0	38.0	75.0	0.0	.	137	.	0.655172	0	none	.	.	PASS	Atlas-Indel,Pindel
GNL2	29889	hgsc.bcm.edu	hg19	1	38039944	38039951	+	Frame_Shift_Del	DEL	CTGGGGGG	CTGGGGGG	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	CTGGGGGG	CTGGGGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	GNL2	NM_013285	exon12	c.1410_1416del	p.470_472del	.	.	44.0	16.0	45.0	0.0	.	58	.	0.363636	0	none	.	.	PASS	Atlas-Indel,Pindel
RRBP1	6238	hgsc.bcm.edu	hg19	20	17602147	17602148	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	RRBP1	NM_001042576	exon17	c.2071_2072del	p.691_691del	.	.	26.0	10.0	28.0	0.0	.	157	.	0.384615	0	none	.	.	PASS	Atlas-INDEL
PGLYRP4	57115	hgsc.bcm.edu	hg19	1	153320386	153320386	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PGLYRP4	NM_020393	exon2	c.24delC	p.F8fs	.	.	96.0	40.0	117.0	0.0	.	45	.	0.416667	0	none	.	.	PASS	Atlas-Indel,Pindel
TRIP4	9325	hgsc.bcm.edu	hg19	15	64710865	64710867	+	In_Frame_Del	DEL	TGG	TGG	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TRIP4	NM_016213	exon9	c.1295_1297del	p.432_433del	.	.	104.0	34.0	99.0	0.0	.	43	.	0.326923	0	none	.	.	PASS	Atlas-Indel,Pindel
ARID2	196528	hgsc.bcm.edu	hg19	12	46244757	46244758	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	ARID2	NM_152641	exon15	c.2850_2851del	p.950_951del	.	.	115.0	21.0	75.0	0.0	.	311	.	0.182609	0	none	.	.	PASS	Atlas-Indel,Pindel
SETD2	29072	hgsc.bcm.edu	hg19	3	47165283	47165286	+	Frame_Shift_Del	DEL	TTTT	TTTT	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	TTTT	TTTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	SETD2	NM_014159	exon3	c.841_844del	p.281_282del	.	.	166.0	109.0	162.0	0.0	.	721	.	0.656627	0	none	.	.	PASS	Atlas-Indel,Pindel
VPS13A	23230	hgsc.bcm.edu	hg19	9	79955390	79955390	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	VPS13A	NM_001018038	exon50	c.6949delA	p.I2317fs	.	.	190.0	67.0	198.0	0.0	.	735	.	0.352632	0	none	.	.	PASS	Atlas-Indel,Pindel
POLR2D	5433	hgsc.bcm.edu	hg19	2	128610641	128610642	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	POLR2D	NM_004805	exon2	c.112_113insT	p.H38fs	.	.	116.0	46.0	127.0	0.0	.	13	.	0.396552	0	none	.	.	PASS	Atlas-Indel,Pindel
PHF20L1	51105	hgsc.bcm.edu	hg19	8	133851799	133851799	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PHF20L1	NM_016018	exon18	c.2358delC	p.H786fs	.	.	54.0	21.0	50.0	0.0	.	129	.	0.388889	0	none	.	.	PASS	Atlas-Indel,Pindel
CNOT1	23019	hgsc.bcm.edu	hg19	16	58608632	58608633	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	CNOT1	NM_001265612	exon16	c.1860_1861insT	p.L620fs	.	.	44.0	12.0	55.0	0.0	.	359	.	0.272727	0	none	.	.	PASS	Atlas-INDEL
AIM1L	55057	hgsc.bcm.edu	hg19	1	26664849	26664849	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	AIM1L	NM_001039775	exon7	c.3465delG	p.M1155fs	.	.	44.0	10.0	45.0	0.0	.	98	.	0.227273	0	none	.	.	PASS	Atlas-INDEL
PLEKHA5	54477	hgsc.bcm.edu	hg19	12	19408098	19408100	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	PLEKHA5	NM_001256470	exon5	c.430_432del	p.144_144del	.	.	54.0	14.0	37.0	0.0	.	198	.	0.259259	0	none	.	.	PASS	Atlas-Indel,Pindel
STAT1	6772	hgsc.bcm.edu	hg19	2	191874648	191874649	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	STAT1	NM_007315	exon3	c.82_83del	p.28_28del	.	.	186.0	68.0	208.0	0.0	.	93	.	0.365591	0	none	.	.	PASS	Atlas-Indel,Pindel
TLN2	83660	hgsc.bcm.edu	hg19	15	63073341	63073341	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	TLN2	NM_015059	exon41	c.5516delT	p.L1839fs	.	.	36.0	14.0	54.0	0.0	.	253	.	0.388889	0	none	.	.	PASS	Atlas-Indel,Pindel
FNIP2	57600	hgsc.bcm.edu	hg19	4	159812799	159812800	+	Splice_Site	INS	-	-	T	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	FNIP2	NM_020840	exon15	c.3150+1->T	.	.	.	90.0	20.0	93.0	0.0	.	90	.	0.222	.	none	.	.	PASS	Pindel
MUC17	140453	hgsc.bcm.edu	hg19	7	100674406	100674408	+	In_Frame_Del	DEL	AGT	AGT	-	novel		TCGA-SX-A7SM-01A-11D-A34Z-10	TCGA-SX-A7SM-10A-01D-A34Z-10	AGT	AGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e6a336f0-67fb-4b2b-b9fd-c5a0fb5d699e	bab99f69-b881-4371-88d4-ffdd35a761fd	.	MUC17	NM_001040105	exon2	c.87_89del	p.29_30del	.	.	125.0	33.0	169.0	0.0	.	804	.	0.264	.	none	.	.	PASS	Pindel
