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
PTCHD2	57540	hgsc.bcm.edu	hg19	1	11561824	11561824	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PTCHD2	NM_020780	exon2	c.T775A	p.S259T	GACTACTCGCGCG	.	78.0	5.0	125.0	0.0	.	193	.	.	Atlas-SNP
ZCCHC11	23318	hgsc.bcm.edu	hg19	1	52897111	52897111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZCCHC11	NM_001009881	exon28	c.C4285T	p.P1429S	GCTGAGGAGAATA	.	179.0	85.0	142.0	0.0	.	151	.	.	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	hg19	1	98015193	98015193	+	Missense_Mutation	SNP	C	C	T	rs141439344		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DPYD	NM_000110	exon12	c.G1447A	p.V483I	AACCAACGACATC	.	105.0	30.0	132.0	0.0	.	219	.	C|1.000;T|0.000	Atlas-SNP
CSF1	1435	hgsc.bcm.edu	hg19	1	110466107	110466107	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CSF1	NM_172210	exon6	c.C864T	p.N288N	CTTCAACCCCGGG	.	100.0	31.0	119.0	0.0	.	40	.	.	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	hg19	1	115438077	115438077	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SYCP1	NM_003176	exon16	c.A1267T	p.T423S	GAGATGACTAAGC	.	567.0	352.0	583.0	1.0	.	149	.	.	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	hg19	1	118640441	118640441	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SPAG17	NM_206996	exon7	c.C863T	p.A288V	TTTATGGCATTTT	.	110.0	28.0	133.0	0.0	.	263	.	.	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	hg19	1	120384152	120384152	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	NBPF7,right_upper_lobe,carcinoma,0,1	NBPF7	NM_001047980	exon3	c.G410C	p.R137T	GCATCTCTCCCTT	.	147.0	40.0	168.0	0.0	.	46	.	.	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	hg19	1	152084224	152084224	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TCHH	NM_007113	exon3	c.A1469G	p.K490R	TCGAGCTTCAGCC	.	59.0	5.0	37.0	0.0	.	275	.	.	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	hg19	1	154841900	154841900	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	KCNN3	NM_001204087	exon1	c.A541T	p.S181C	CACCGCTATACTT	.	110.0	48.0	98.0	0.0	.	141	.	.	Atlas-SNP
SLC25A44	9673	hgsc.bcm.edu	hg19	1	156170105	156170105	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SLC25A44	NM_014655	exon2	c.A467G	p.E156G	ACCCAGAGGGACA	.	123.0	39.0	82.0	0.0	.	30	.	.	Atlas-SNP
CD5L	922	hgsc.bcm.edu	hg19	1	157805704	157805704	+	Silent	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	CD5L,NS,carcinoma,0,1	CD5L	NM_005894	exon3	c.A297C	p.T99T	ATCTTCTGTTCCT	.	96.0	30.0	86.0	0.0	.	112	.	.	Atlas-SNP
IL10	3586	hgsc.bcm.edu	hg19	1	206945657	206945657	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	IL10	NM_000572	exon1	c.C124T	p.R42X	GATCTCGAAGCAT	.	139.0	66.0	71.0	0.0	.	22	.	.	Atlas-SNP
ESRRG	2104	hgsc.bcm.edu	hg19	1	216850491	216850491	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ESRRG	NM_001243518	exon3	c.C414G	p.D138E	AGCGATGTCACCA	.	224.0	80.0	113.0	0.0	.	111	.	.	Atlas-SNP
TRIM67	440730	hgsc.bcm.edu	hg19	1	231344891	231344891	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TRIM67	NM_001004342	exon8	c.C2018T	p.A673V	CCAGGGCCAGCGT	.	296.0	112.0	160.0	0.0	.	160	.	.	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240256430	240256430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	FMN2	NM_020066	exon1	c.G1021A	p.G341R	GTGCGAGGGGCTG	.	69.0	24.0	29.0	0.0	.	451	.	.	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	hg19	1	248737365	248737365	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	OR2T34,NS,carcinoma,+1,1	OR2T34	NM_001001821	exon1	c.A694T	p.R232W	TCATCCTGTGGAT	.	536.0	167.0	284.0	1.0	.	72	.	.	Atlas-SNP
NTSR2	23620	hgsc.bcm.edu	hg19	2	11809668	11809668	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NTSR2	NM_012344	exon1	c.G588T	p.V196V	CACCAGCACCGTG	.	31.0	20.0	32.0	0.0	.	36	.	.	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	hg19	2	11913854	11913854	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LPIN1	NM_001261428	exon6	c.G852T	p.E284D	TAGAGAGTGGTCA	.	60.0	20.0	81.0	0.0	.	99	.	.	Atlas-SNP
SMEK2	57223	hgsc.bcm.edu	hg19	2	55825633	55825633	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SMEK2	NM_001122964	exon4	c.A840G	p.P280P	AACAGATGGTGTG	.	319.0	103.0	396.0	0.0	.	86	.	.	Atlas-SNP
EGR4	1961	hgsc.bcm.edu	hg19	2	73519494	73519494	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	EGR4_ENST00000545030,NS,adenocarcinoma,0,2	EGR4	NM_001965	exon2	c.C861T	p.P287P	GAGGCCGGGCTTG	.	111.0	61.0	144.0	0.0	.	52	.	.	Atlas-SNP
ATOH8	84913	hgsc.bcm.edu	hg19	2	85981926	85981926	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ATOH8	NM_032827	exon1	c.A614G	p.D205G	ACCAGGATTCCTC	.	157.0	88.0	161.0	0.0	.	15	.	.	Atlas-SNP
CERKL	375298	hgsc.bcm.edu	hg19	2	182468567	182468567	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CERKL	NM_001160277	exon2	c.G478A	p.A160T	TACCTGCCAATAT	.	101.0	29.0	133.0	0.0	.	138	.	.	Atlas-SNP
RQCD1	9125	hgsc.bcm.edu	hg19	2	219447779	219447779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	RQCD1	NM_001271634	exon3	c.T290C	p.L97P	CATTACTGCAATG	.	133.0	69.0	125.0	0.0	.	32	.	.	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	hg19	2	228009257	228009257	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	COL4A4	NM_000092	exon3	c.T89G	p.L30R	GAAAAGAGAATGA	.	932.0	550.0	1177.0	0.0	.	215	.	.	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	hg19	3	1414520	1414520	+	Splice_Site	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	CNTN6,NS,malignant_melanoma,0,1	CNTN6	NM_014461	exon14	c.1669-2A>T	.	GTCTGCAGGAATC	.	68.0	16.0	67.0	0.0	.	245	.	.	Atlas-SNP
CMTM7	112616	hgsc.bcm.edu	hg19	3	32433454	32433454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CMTM7	NM_138410	exon1	c.G56A	p.G19E	CGCTCGGACCCGG	.	27.0	10.0	30.0	0.0	.	14	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266101	41266101	+	Missense_Mutation	SNP	C	C	T	rs121913400	bycluster	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	CTNNB1,gallbladder,other,0,359	CTNNB1	NM_001098209	exon3	c.C98T	p.S33F	TGGACTCTGGAAT	.	148.0	50.0	220.0	1.0	.	4904	.	.	Atlas-SNP
CCR5	1234	hgsc.bcm.edu	hg19	3	46415374	46415374	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CCR5	NM_000579	exon3	c.C981T	p.F327F	TATTTTCCAGCAA	.	109.0	71.0	96.0	0.0	.	128	.	.	Atlas-SNP
STAB1	23166	hgsc.bcm.edu	hg19	3	52554832	52554832	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	STAB1	NM_015136	exon55	c.G5719T	p.A1907S	CCTGAGGCCTGCT	.	33.0	14.0	69.0	0.0	.	178	.	.	Atlas-SNP
APPL1	26060	hgsc.bcm.edu	hg19	3	57282291	57282291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	APPL1	NM_012096	exon10	c.G775T	p.D259Y	GCCAGTGATCCCT	.	267.0	168.0	263.0	0.0	.	59	.	.	Atlas-SNP
TMEM39A	55254	hgsc.bcm.edu	hg19	3	119155803	119155803	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TMEM39A	NM_018266	exon7	c.G947T	p.R316L	GACCAGCGCATGT	.	110.0	23.0	124.0	0.0	.	36	.	.	Atlas-SNP
STXBP5L	9515	hgsc.bcm.edu	hg19	3	121126301	121126301	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	STXBP5L	NM_014980	exon24	c.A2871T	p.Q957H	AAAACAAGCCAAA	.	126.0	31.0	149.0	0.0	.	159	.	.	Atlas-SNP
EFCC1	79825	hgsc.bcm.edu	hg19	3	128720898	128720898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_024768	exon1	c.C427T	p.R143C	ACCTTCCGCCAGT	.	79.0	29.0	113.0	0.0	.	.	.	.	Atlas-SNP
PLS1	5357	hgsc.bcm.edu	hg19	3	142388377	142388377	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PLS1	NM_001172312	exon3	c.T216G	p.S72R	AATCAGTTTTGAA	.	125.0	7.0	118.0	0.0	.	71	.	.	Atlas-SNP
RAP2B	5912	hgsc.bcm.edu	hg19	3	152880629	152880629	+	Silent	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	RAP2B	NM_002886	exon1	c.G147T	p.S49S	CTCGTCGCCGTCG	.	137.0	40.0	138.0	0.0	.	20	.	.	Atlas-SNP
FXR1	8087	hgsc.bcm.edu	hg19	3	180652981	180652981	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	FXR1	NM_001013438	exon3	c.G160T	p.D54Y	CCACCTGATATAA	.	256.0	129.0	358.0	0.0	.	75	.	.	Atlas-SNP
LRBA	987	hgsc.bcm.edu	hg19	4	151773243	151773243	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LRBA	NM_006726	exon23	c.C3619G	p.Q1207E	GCATCTGACCAAG	.	67.0	23.0	127.0	0.0	.	253	.	.	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	hg19	5	35700832	35700832	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	SPEF2_ENST00000356031,NS,carcinoma,0,1	SPEF2	NM_024867	exon16	c.G2376A	p.M792I	CTCAATGAGTCGC	.	127.0	24.0	115.0	0.0	.	324	.	.	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	hg19	5	60827372	60827372	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZSWIM6	NM_020928	exon9	c.A2065T	p.T689S	TATTTAACGCTGG	.	254.0	114.0	204.0	0.0	.	51	.	.	Atlas-SNP
REEP2	51308	hgsc.bcm.edu	hg19	5	137780496	137780496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	REEP2	NM_016606	exon5	c.G357A	p.M119I	CATGATGAGGGTG	.	164.0	29.0	136.0	0.0	.	21	.	.	Atlas-SNP
NDUFA2	4695	hgsc.bcm.edu	hg19	5	140027159	140027159	+	Missense_Mutation	SNP	C	C	T	rs370015250		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NDUFA2	NM_001185012	exon1	c.G10A	p.A4T	CTGCGGCCGCCGC	.	67.0	37.0	51.0	0.0	.	13	.	.	Atlas-SNP
PCDHGA12	26025	hgsc.bcm.edu	hg19	5	140810476	140810476	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PCDHGA12	NM_032094	exon1	c.G150A	p.R50R	CTCCAGGGACCTG	.	308.0	145.0	254.0	0.0	.	271	.	.	Atlas-SNP
PPP2R2B	5521	hgsc.bcm.edu	hg19	5	146258290	146258290	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PPP2R2B	NM_181675	exon1	c.T58A	p.C20S	ACTCGCAGCTGCT	.	12.0	4.0	4.0	0.0	.	271	.	.	Atlas-SNP
GLRA1	2741	hgsc.bcm.edu	hg19	5	151271886	151271886	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	GLRA1	NM_000171	exon2	c.G170T	p.R57M	TTGGGCCTGATCC	.	167.0	81.0	132.0	0.0	.	61	.	.	Atlas-SNP
HAND1	9421	hgsc.bcm.edu	hg19	5	153857306	153857306	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	HAND1	NM_004821	exon1	c.T263A	p.L88H	CCGCCAAGCGCCT	.	65.0	38.0	59.0	0.0	.	21	.	.	Atlas-SNP
CANX	821	hgsc.bcm.edu	hg19	5	179146764	179146764	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CANX	NM_001746	exon9	c.C1007G	p.A336G	CAGACGCAGAGAA	.	270.0	113.0	237.0	0.0	.	47	.	.	Atlas-SNP
DST	667	hgsc.bcm.edu	hg19	6	56505183	56505183	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DST	NM_001723	exon4	c.C637T	p.L213L	ATGACAGGCCAGA	.	213.0	106.0	153.0	0.0	.	1427	.	.	Atlas-SNP
GPR63	81491	hgsc.bcm.edu	hg19	6	97247593	97247593	+	Silent	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	GPR63	NM_030784	exon2	c.A15T	p.A5A	CAACACTGCCGAG	.	87.0	74.0	104.0	0.0	.	60	.	.	Atlas-SNP
ALDH8A1	64577	hgsc.bcm.edu	hg19	6	135239910	135239910	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ALDH8A1	NM_022568	exon7	c.A1107G	p.A369A	GTAGCCTGCCTGG	.	72.0	61.0	116.0	0.0	.	68	.	.	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	hg19	6	151936741	151936741	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_025059	exon10	c.T1874C	p.M625T	GAAACATGATAGA	.	220.0	192.0	347.0	0.0	.	.	.	.	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	hg19	6	159642682	159642682	+	Silent	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	FNDC1	NM_032532	exon6	c.G720T	p.R240R	GGGCCGGAGCCAA	.	57.0	50.0	103.0	0.0	.	250	.	.	Atlas-SNP
PRR18	285800	hgsc.bcm.edu	hg19	6	166721359	166721359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PRR18	NM_175922	exon1	c.C272T	p.A91V	GGCGGGGCGCACG	.	35.0	19.0	13.0	0.0	.	4	.	.	Atlas-SNP
WDR27	253769	hgsc.bcm.edu	hg19	6	170043854	170043854	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	WDR27	NM_182552	exon17	c.G1686T	p.L562F	GTTGGCCAACCCA	.	91.0	39.0	115.0	0.0	.	129	.	.	Atlas-SNP
MTERF	7978	hgsc.bcm.edu	hg19	7	91503579	91503579	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	MTERF	NM_006980	exon3	c.G529T	p.E177X	TATTCTCTAAGTT	.	204.0	58.0	140.0	0.0	.	32	.	.	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	hg19	7	99797925	99797925	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	STAG3	NM_012447	exon17	c.C1744T	p.P582S	CTCATCCCCCTGC	.	132.0	28.0	95.0	0.0	.	121	.	.	Atlas-SNP
GPR37	2861	hgsc.bcm.edu	hg19	7	124404436	124404436	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	GPR37	NM_005302	exon1	c.A595T	p.K199X	CCGTCTTGGACAG	.	105.0	44.0	116.0	0.0	.	89	.	.	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241035	131241035	+	Silent	SNP	C	C	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PODXL	NM_001018111	exon1	c.G84C	p.P28P	GGGCGACGGCGAC	.	106.0	8.0	67.0	0.0	.	53	.	.	Atlas-SNP
CRYGN	155051	hgsc.bcm.edu	hg19	7	151127230	151127230	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CRYGN	NM_144727	exon4	c.C453G	p.F151L	CAGCTGGAAGTCC	.	140.0	59.0	136.0	0.0	.	15	.	.	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	hg19	8	3046418	3046418	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CSMD1	NM_033225	exon35	c.G5514T	p.S1838S	AATTCCCGAGCCC	.	136.0	85.0	141.0	0.0	.	1469	.	.	Atlas-SNP
LZTS1	11178	hgsc.bcm.edu	hg19	8	20110855	20110855	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LZTS1	NM_021020	exon2	c.T587A	p.L196Q	GTGACCAGCGGGT	.	58.0	9.0	83.0	0.0	.	72	.	.	Atlas-SNP
ELP3	55140	hgsc.bcm.edu	hg19	8	27957343	27957343	+	Splice_Site	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ELP3	NM_018091	exon3	c.120-2A>T	.	ACTTTCAGGGTGA	.	71.0	44.0	71.0	0.0	.	36	.	.	Atlas-SNP
CPA6	57094	hgsc.bcm.edu	hg19	8	68430279	68430279	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	CPA6,right_upper_lobe,carcinoma,0,1	CPA6	NM_020361	exon3	c.G196A	p.D66N	ACAGGTCCACCTG	.	171.0	34.0	168.0	0.0	.	69	.	.	Atlas-SNP
PRDM14	63978	hgsc.bcm.edu	hg19	8	70970978	70970978	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PRDM14	NM_024504	exon6	c.G1283T	p.G428V	CTATCGCCCTTGT	.	123.0	61.0	110.0	0.0	.	102	.	.	Atlas-SNP
PTK2	5747	hgsc.bcm.edu	hg19	8	141678423	141678423	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PTK2	NM_005607	exon30	c.A2876C	p.E959A	GACATCTCGATGA	.	142.0	40.0	158.0	0.0	.	311	.	.	Atlas-SNP
MAFA	389692	hgsc.bcm.edu	hg19	8	144512551	144512551	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	MAFA	NM_201589	exon1	c.C26A	p.A9D	AGCTCGGCGCCCA	.	41.0	11.0	43.0	0.0	.	9	.	.	Atlas-SNP
NRBP2	340371	hgsc.bcm.edu	hg19	8	144917879	144917879	+	Missense_Mutation	SNP	C	C	T	rs372417243		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NRBP2	NM_178564	exon18	c.G1459A	p.A487T	GGAAGGCGGCCAG	.	103.0	28.0	138.0	0.0	.	20	.	.	Atlas-SNP
UNC13B	10497	hgsc.bcm.edu	hg19	9	35399446	35399446	+	Splice_Site	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	UNC13B	NM_006377	exon34	c.4008+1G>A	.	CTCAAGGTACTCT	.	50.0	33.0	65.0	0.0	.	153	.	.	Atlas-SNP
TLE1	7088	hgsc.bcm.edu	hg19	9	84268953	84268953	+	Splice_Site	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TLE1	NM_005077	exon6	c.235-2A>T	.	TCAGTCTATAAAG	.	69.0	38.0	87.0	0.0	.	81	.	.	Atlas-SNP
CTSL1	1514	hgsc.bcm.edu	hg19	9	90342523	90342523	+	Missense_Mutation	SNP	A	A	G	rs112682750	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CTSL1	NM_145918	exon2	c.A5G	p.N2S	ACATGAATCCTAC	.	115.0	39.0	91.0	0.0	.	43	.	A|0.996;C|0.004	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	hg19	9	100105753	100105753	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_020893	exon19	c.C2538T	p.T846T	TTCCACCTTCTCA	.	102.0	24.0	132.0	0.0	.	.	.	.	Atlas-SNP
ANKS6	203286	hgsc.bcm.edu	hg19	9	101539738	101539738	+	Splice_Site	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ANKS6	NM_173551	exon9	c.1568-2A>T	.	AGGACCTGAGAGA	.	116.0	45.0	132.0	0.0	.	59	.	.	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	hg19	9	109687122	109687122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZNF462	NM_021224	exon3	c.G929A	p.R310Q	CAAGCCGGGAGAT	.	160.0	36.0	177.0	0.0	.	322	.	.	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	hg19	9	137658880	137658880	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	COL5A1	NM_000093	exon23	c.A2168T	p.Q723L	GACAGCAGGGTAA	.	118.0	35.0	159.0	0.0	.	323	.	.	Atlas-SNP
NELFB	25920	hgsc.bcm.edu	hg19	9	140151494	140151494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_015456	exon4	c.G585T	p.R195S	GACCAGGCGCCAG	.	37.0	21.0	49.0	0.0	.	.	.	.	Atlas-SNP
SFMBT2	57713	hgsc.bcm.edu	hg19	10	7409744	7409744	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SFMBT2	NM_001029880	exon4	c.G303T	p.G101G	CAGCTGCCCGCAC	.	141.0	29.0	153.0	0.0	.	209	.	.	Atlas-SNP
SLC39A12	221074	hgsc.bcm.edu	hg19	10	18254573	18254573	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SLC39A12	NM_152725	exon4	c.A705T	p.E235D	TACAGAATATATT	.	127.0	64.0	113.0	0.0	.	181	.	.	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	hg19	10	37507926	37507926	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ANKRD30A	NM_052997	exon34	c.A3118T	p.N1040Y	CATGAAAATGAAA	.	406.0	197.0	315.0	0.0	.	448	.	.	Atlas-SNP
RTKN2	219790	hgsc.bcm.edu	hg19	10	63957897	63957897	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	RTKN2	NM_145307	exon12	c.A1600T	p.S534C	ATACACTTGTTTT	.	204.0	80.0	170.0	0.0	.	68	.	.	Atlas-SNP
CPEB3	22849	hgsc.bcm.edu	hg19	10	93841114	93841114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CPEB3	NM_014912	exon9	c.G1832A	p.R611H	ACAAAACGAGCGC	.	118.0	6.0	98.0	0.0	.	43	.	.	Atlas-SNP
PDZD7	79955	hgsc.bcm.edu	hg19	10	102770293	102770293	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PDZD7	NM_001195263	exon15	c.A2353C	p.S785R	CCCGGCTGCTGCG	.	514.0	21.0	428.0	0.0	.	101	.	.	Atlas-SNP
CTSD	1509	hgsc.bcm.edu	hg19	11	1785050	1785050	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CTSD	NM_001909	exon1	c.C40T	p.L14L	CAGCCAGCAGGCA	.	60.0	42.0	82.0	0.0	.	26	.	.	Atlas-SNP
OSBPL5	114879	hgsc.bcm.edu	hg19	11	3113775	3113775	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	OSBPL5	NM_020896	exon19	c.G2146T	p.D716Y	GGGGGTCCCAGGG	.	79.0	27.0	106.0	0.0	.	78	.	.	Atlas-SNP
SLC17A6	57084	hgsc.bcm.edu	hg19	11	22396318	22396318	+	Silent	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SLC17A6	NM_020346	exon9	c.T1059A	p.A353A	ATCTGCTGTGCCA	.	79.0	44.0	94.0	0.0	.	135	.	.	Atlas-SNP
MMP8	4317	hgsc.bcm.edu	hg19	11	102595576	102595576	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	MMP8	NM_002424	exon1	c.T11A	p.L4Q	GTCTTCAGGGAGA	.	278.0	95.0	314.0	1.0	.	68	.	.	Atlas-SNP
ARHGAP20	57569	hgsc.bcm.edu	hg19	11	110450147	110450147	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ARHGAP20	NM_020809	exon16	c.G3523C	p.G1175R	TAGGCCCTGAGTC	.	97.0	49.0	94.0	0.0	.	150	.	.	Atlas-SNP
STT3A	3703	hgsc.bcm.edu	hg19	11	125472792	125472792	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	STT3A	NM_152713	exon5	c.C366T	p.L122L	CCCTCTCTTCTCC	.	143.0	31.0	135.0	0.0	.	52	.	.	Atlas-SNP
KCNA6	3742	hgsc.bcm.edu	hg19	12	4920532	4920532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	KCNA6	NM_002235	exon1	c.G1325T	p.C442F	CGCTGTGTGCCAT	.	154.0	40.0	121.0	0.0	.	122	.	.	Atlas-SNP
NCAPD2	9918	hgsc.bcm.edu	hg19	12	6635520	6635520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NCAPD2	NM_014865	exon20	c.G2549A	p.R850Q	GACTGCGGGAGAC	.	119.0	20.0	120.0	0.0	.	99	.	.	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	hg19	12	9027081	9027081	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	A2ML1	NM_144670	exon34	c.T4282A	p.L1428M	ACCAACTTGAAAC	.	85.0	34.0	85.0	0.0	.	199	.	.	Atlas-SNP
CCER1	196477	hgsc.bcm.edu	hg19	12	91348095	91348095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	C12orf12,NS,carcinoma,0,1	.	NM_152638	exon1	c.G425A	p.R142H	CCCCAGCGCTTCT	.	30.0	13.0	34.0	0.0	.	.	.	.	Atlas-SNP
NR1H4	9971	hgsc.bcm.edu	hg19	12	100926383	100926383	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NR1H4	NM_001206993	exon3	c.A623C	p.Y208S	GTATGTATACAGG	.	168.0	93.0	135.0	0.0	.	145	.	.	Atlas-SNP
NUP37	79023	hgsc.bcm.edu	hg19	12	102512142	102512142	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NUP37	NM_024057	exon1	c.A155T	p.Q52L	CTAACCTGAAACG	.	153.0	53.0	117.0	0.0	.	26	.	.	Atlas-SNP
ANKRD13A	88455	hgsc.bcm.edu	hg19	12	110456257	110456257	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ANKRD13A	NM_033121	exon5	c.A508G	p.I170V	AGCTGGATAAGAG	.	251.0	105.0	222.0	0.0	.	39	.	.	Atlas-SNP
PTPN11	5781	hgsc.bcm.edu	hg19	12	112942513	112942513	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PTPN11	NM_002834	exon15	c.G1727T	p.S576I	AAGACAGTGCTAG	.	497.0	210.0	406.0	0.0	.	623	.	.	Atlas-SNP
CCDC169	728591	hgsc.bcm.edu	hg19	13	36871783	36871783	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CCDC169	NM_001144981	exon1	c.T74A	p.V25D	TTGCGGACTTCTT	.	26.0	15.0	34.0	0.0	.	20	.	.	Atlas-SNP
CCNA1	8900	hgsc.bcm.edu	hg19	13	37012886	37012886	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CCNA1	NM_003914	exon5	c.A775G	p.K259E	GAATATAAACTTC	.	125.0	53.0	231.0	0.0	.	91	.	.	Atlas-SNP
POSTN	10631	hgsc.bcm.edu	hg19	13	38159034	38159034	+	Silent	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	POSTN	NM_006475	exon8	c.C927A	p.L309L	ACACTGGAGAGTA	.	40.0	21.0	91.0	0.0	.	161	.	.	Atlas-SNP
AJUBA	84962	hgsc.bcm.edu	hg19	14	23444239	23444239	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_032876	exon5	c.C1314T	p.G438G	GGGGATGCCATCC	.	82.0	26.0	75.0	0.0	.	.	.	.	Atlas-SNP
HEATR5A	25938	hgsc.bcm.edu	hg19	14	31814462	31814462	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	HEATR5A	NM_015473	exon20	c.A2889G	p.L963L	CAATGATAGAGAA	.	125.0	44.0	107.0	0.0	.	181	.	.	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	hg19	14	39819413	39819413	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CTAGE5	NM_001247989	exon24	c.T2375G	p.I792S	GTTTGATTCCACC	.	157.0	88.0	187.0	0.0	.	75	.	.	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	hg19	14	94088968	94088968	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	UNC79	NM_020818	exon30	c.C4858A	p.P1620T	GAGAACCCCACAG	.	200.0	60.0	218.0	0.0	.	366	.	.	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	hg19	15	31323191	31323191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TRPM1	NM_001252020	exon22	c.T3173C	p.I1058T	CGGTCTATCTGGT	.	133.0	81.0	123.0	0.0	.	183	.	.	Atlas-SNP
FBN1	2200	hgsc.bcm.edu	hg19	15	48829987	48829987	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	FBN1	NM_000138	exon7	c.G557A	p.C186Y	GTAAAACATGGGC	.	114.0	7.0	116.0	0.0	.	310	.	.	Atlas-SNP
LARP6	55323	hgsc.bcm.edu	hg19	15	71124522	71124522	+	Missense_Mutation	SNP	C	C	T	rs146941351	alternate_allele	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LARP6	NM_018357	exon3	c.G1345A	p.G449S	TCGTACCGGGGCT	.	102.0	35.0	129.0	0.0	.	43	.	C|1.000;A|0.000	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73541947	73541947	+	Silent	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NEO1	NM_001172623	exon11	c.T1779G	p.S593S	TCACTCTTACACC	.	121.0	34.0	134.0	0.0	.	102	.	.	Atlas-SNP
AXIN1	8312	hgsc.bcm.edu	hg19	16	396840	396840	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	AXIN1	NM_181050	exon2	c.G186T	p.R62S	CGAGCGCCTCGGA	.	35.0	17.0	86.0	0.0	.	290	.	.	Atlas-SNP
SSTR5	6755	hgsc.bcm.edu	hg19	16	1129724	1129724	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SSTR5	NM_001172560	exon2	c.T856C	p.Y286H	GGCCTCTACTTCT	.	48.0	22.0	63.0	0.0	.	36	.	.	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27448987	27448987	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	IL21R	NM_181079	exon5	c.A397T	p.S133C	TGTGGCAGCTTTC	.	52.0	27.0	78.0	0.0	.	95	.	.	Atlas-SNP
LONP2	83752	hgsc.bcm.edu	hg19	16	48295405	48295405	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LONP2	NM_031490	exon5	c.A794T	p.E265V	AAGATGAAGATAA	.	174.0	67.0	296.0	0.0	.	63	.	.	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	hg19	16	57062007	57062007	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NLRC5	NM_032206	exon6	c.A2099G	p.D700G	GTGGGGATGCCTT	.	38.0	21.0	70.0	0.0	.	186	.	.	Atlas-SNP
ENO3	2027	hgsc.bcm.edu	hg19	17	4857083	4857083	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ENO3	NM_001976	exon6	c.C387T	p.P129P	GGTCCCCCTGTAC	.	68.0	15.0	118.0	0.0	.	36	.	.	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	hg19	17	7385340	7385340	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_001102614	exon2	c.T37G	p.S13A	CCTGACTCCACAC	.	88.0	52.0	81.0	0.0	.	.	.	.	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	hg19	17	7385382	7385382	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_001102614	exon2	c.T79C	p.W27R	CTCCGCTGGCACC	.	81.0	48.0	71.0	0.0	.	.	.	.	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11593507	11593507	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	DNAH9,NS,carcinoma,0,1	DNAH9	NM_001372	exon20	c.G4368A	p.R1456R	CCCACGGACCAAT	.	119.0	47.0	116.0	0.0	.	695	.	.	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11833232	11833232	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DNAH9	NM_001372	exon63	c.A11927T	p.E3976V	AGCTGGAGGAGCA	.	154.0	44.0	144.0	0.0	.	695	.	.	Atlas-SNP
PPP1R1B	84152	hgsc.bcm.edu	hg19	17	37791873	37791873	+	Silent	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PPP1R1B	NM_032192	exon6	c.A459T	p.T153T	AAAGACAACCTGT	.	106.0	45.0	107.0	0.0	.	9	.	.	Atlas-SNP
KRT9	3857	hgsc.bcm.edu	hg19	17	39726458	39726458	+	Silent	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	KRT9	NM_000226	exon2	c.A657T	p.T219T	GCCCACTGTCAGG	.	116.0	36.0	145.0	0.0	.	78	.	.	Atlas-SNP
KCNH4	23415	hgsc.bcm.edu	hg19	17	40330239	40330239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	KCNH4	NM_012285	exon4	c.C464A	p.S155Y	CCAAGGGAGTTTT	.	85.0	50.0	91.0	0.0	.	105	.	.	Atlas-SNP
ZNF556	80032	hgsc.bcm.edu	hg19	19	2877959	2877959	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZNF556	NM_024967	exon4	c.A1003T	p.R335X	CACGCGAGAACGC	.	127.0	69.0	154.0	0.0	.	73	.	.	Atlas-SNP
NMRK2	27231	hgsc.bcm.edu	hg19	19	3942230	3942230	+	Missense_Mutation	SNP	A	A	G	rs143940174	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	NM_170678	exon8	c.A652G	p.R218G	GGCCACAGAACGG	.	93.0	30.0	89.0	0.0	.	.	.	A|0.999;C|0.001	Atlas-SNP
SH2D3A	10045	hgsc.bcm.edu	hg19	19	6755305	6755305	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	SH2D3A	NM_005490	exon5	c.C518G	p.S173C	AAGGCAGATATGG	.	143.0	50.0	155.0	0.0	.	53	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9066432	9066432	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	MUC16	NM_024690	exon3	c.T21014G	p.L7005W	TCTGGCAAAACTG	.	117.0	36.0	106.0	0.0	.	4315	.	.	Atlas-SNP
INSL3	3640	hgsc.bcm.edu	hg19	19	17932271	17932271	+	Silent	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	INSL3	NM_005543	exon1	c.T45A	p.P15P	CAGGGCAGGGCCC	.	153.0	79.0	166.0	0.0	.	8	.	.	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	hg19	19	18092673	18092673	+	Silent	SNP	G	G	T	rs371311512	alternate_allele	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	KCNN1	NM_002248	exon5	c.G654T	p.A218A	GTACGCGCCCTCG	.	71.0	20.0	71.0	0.0	.	74	.	.	Atlas-SNP
ZNF90	7643	hgsc.bcm.edu	hg19	19	20228890	20228890	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZNF90	NM_007138	exon4	c.T527A	p.I176K	AATGTATAGAATG	.	162.0	7.0	151.0	0.0	.	93	.	.	Atlas-SNP
UPK1A	11045	hgsc.bcm.edu	hg19	19	36166776	36166776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	UPK1A	NM_007000	exon5	c.G503T	p.W168L	TGGACTGGGTGAA	.	43.0	12.0	54.0	0.0	.	23	.	.	Atlas-SNP
ZNF382	84911	hgsc.bcm.edu	hg19	19	37117233	37117233	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZNF382	NM_032825	exon5	c.A434G	p.N145S	TGAAAAATATTTC	.	326.0	194.0	406.0	0.0	.	87	.	.	Atlas-SNP
GRIK5	2901	hgsc.bcm.edu	hg19	19	42507596	42507596	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	GRIK5	NM_002088	exon18	c.T2402A	p.M801K	TTCTCCATGCCCA	.	103.0	63.0	108.0	0.0	.	220	.	.	Atlas-SNP
PRKCG	5582	hgsc.bcm.edu	hg19	19	54393251	54393251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PRKCG	NM_002739	exon5	c.C509T	p.A170V	CCACAGCAGATGA	.	76.0	18.0	93.0	0.0	.	246	.	.	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	hg19	20	3619493	3619493	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ATRN	NM_139321	exon27	c.C3961T	p.Q1321X	GAGATGCAACAGA	.	96.0	43.0	82.0	0.0	.	118	.	.	Atlas-SNP
DHX35	60625	hgsc.bcm.edu	hg19	20	37647529	37647529	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DHX35	NM_021931	exon15	c.G1485C	p.M495I	CAAAATGCTGCTT	.	126.0	64.0	110.0	0.0	.	82	.	.	Atlas-SNP
OSBPL2	9885	hgsc.bcm.edu	hg19	20	60854388	60854388	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	OSBPL2	NM_144498	exon7	c.C667T	p.L223L	CTGGAGCTGCTCA	.	114.0	48.0	103.0	0.0	.	51	.	.	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	hg19	22	32266715	32266715	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DEPDC5	NM_001242896	exon34	c.A3470C	p.N1157T	CCACAAACTCCAG	.	139.0	8.0	138.0	0.0	.	266	.	.	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	hg19	22	38121212	38121212	+	Silent	SNP	C	C	T	rs374255684	alternate_allele	TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TRIOBP	NM_001039141	exon7	c.C2649T	p.P883P	ATCTCCCCACCGC	.	149.0	42.0	160.0	0.0	.	262	.	.	Atlas-SNP
DDX17	10521	hgsc.bcm.edu	hg19	22	38888102	38888102	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DDX17	NM_006386	exon11	c.C1406A	p.A469E	ATGGGTGCCTTTC	.	94.0	4.0	113.0	0.0	.	73	.	.	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	hg19	X	1571669	1571669	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ASMTL	NM_001173474	exon1	c.C65T	p.P22L	CGGCGTGGGGAGG	.	65.0	17.0	58.0	0.0	.	56	.	.	Atlas-SNP
ZBED1	9189	hgsc.bcm.edu	hg19	X	2408474	2408474	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ZBED1	NM_001171135	exon2	c.A287T	p.K96M	TTCAGCTTGGAGA	.	185.0	56.0	231.0	0.0	.	64	.	.	Atlas-SNP
TLR7	51284	hgsc.bcm.edu	hg19	X	12903873	12903873	+	Silent	SNP	A	A	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TLR7	NM_016562	exon3	c.A246T	p.P82P	CTCCCCAGCGTCC	.	215.0	201.0	178.0	0.0	.	125	.	.	Atlas-SNP
DDX53	168400	hgsc.bcm.edu	hg19	X	23019572	23019572	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	DDX53	NM_182699	exon1	c.C1398T	p.P466P	GTCACCCAACGAC	.	202.0	10.0	169.0	0.0	.	76	.	.	Atlas-SNP
LANCL3	347404	hgsc.bcm.edu	hg19	X	37431397	37431397	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LANCL3	NM_001170331	exon1	c.T274A	p.Y92N	GAACGCTACCTGC	.	36.0	33.0	36.0	0.0	.	42	.	.	Atlas-SNP
TSPYL2	64061	hgsc.bcm.edu	hg19	X	53112112	53112112	+	Silent	SNP	G	G	A	rs376774006		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TSPYL2	NM_022117	exon1	c.G432A	p.G144G	AGAGGGGGCCCTA	.	191.0	11.0	145.0	0.0	.	53	.	.	Atlas-SNP
LRCH2	57631	hgsc.bcm.edu	hg19	X	114414316	114414316	+	Splice_Site	SNP	T	T	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	LRCH2	NM_001243963	exon5	c.622-2A>T	.	ATATCCTAAGGAG	.	253.0	235.0	207.0	0.0	.	138	.	.	Atlas-SNP
ATP6	0	hgsc.bcm.edu	hg19	MT	9178	9178	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	.	ENST00000361899	exon1	c.G652A	p.V218M	CTTCTAGTAAGCC	.	63.0	10.0	59.0	0.0	.	.	.	.	Atlas-SNP
CDH19	28513	hgsc.bcm.edu	hg19	18	64239248	64239248	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CDH19	NM_021153	exon2	c.195delG	p.Q65fs	.	.	80.0	27.0	84.0	0.0	.	141	.	.	Atlas-INDEL
PGS1	9489	hgsc.bcm.edu	hg19	17	76374876	76374894	+	In_Frame_Del	DEL	CGCCAGCGCAGGAGGTGAG	CGCCAGCGCAGGAGGTGAG	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	CGCCAGCGCAGGAGGTGAG	CGCCAGCGCAGGAGGTGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PGS1	NM_024419	exon1	c.129_143del	p.43_48del	.	.	55.0	33.0	68.0	0.0	.	30	.	.	Atlas-INDEL
NAIP	4671	hgsc.bcm.edu	hg19	5	70280580	70280583	+	Frame_Shift_Del	DEL	CCTG	CCTG	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	CCTG	CCTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	NAIP	NM_004536	exon12	c.2294_2297del	p.765_766del	.	.	84.0	17.0	189.0	0.0	.	38	.	.	Atlas-INDEL
ARID1A	8289	hgsc.bcm.edu	hg19	1	27107072	27107075	+	Frame_Shift_Del	DEL	TGGA	TGGA	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	TGGA	TGGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ARID1A	NM_006015	exon20	c.6682_6685del	p.2228_2229del	.	.	28.0	18.0	92.0	0.0	.	842	.	.	Atlas-INDEL
OR4A47	403253	hgsc.bcm.edu	hg19	11	48510756	48510757	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	OR4A47	NM_001005512	exon1	c.411_412del	p.137_138del	.	.	88.0	23.0	74.0	0.0	.	72	.	.	Atlas-INDEL
MAP1S	55201	hgsc.bcm.edu	hg19	19	17838628	17838629	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	MAP1S	NM_018174	exon5	c.2434_2435del	p.812_812del	.	.	119.0	34.0	119.0	0.0	.	74	.	.	Atlas-INDEL
ARID1A	8289	hgsc.bcm.edu	hg19	1	27107078	27107095	+	In_Frame_Del	DEL	TGATGCGGCGGGCTGCCC	TGATGCGGCGGGCTGCCC	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	TGATGCGGCGGGCTGCCC	TGATGCGGCGGGCTGCCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	ARID1A	NM_006015	exon20	c.6688_6705del	p.2230_2235del	.	.	26.0	18.0	89.0	0.0	.	842	.	.	Atlas-INDEL
EPG5	57724	hgsc.bcm.edu	hg19	18	43462411	43462412	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	EPG5	NM_020964	exon31	c.5346_5347insT	p.L1782fs	.	.	168.0	49.0	192.0	0.0	.	199	.	.	Atlas-INDEL
TTN	7273	hgsc.bcm.edu	hg19	2	179399523	179399542	+	Frame_Shift_Del	DEL	ATGTCAAAGTGTCCAATATT	ATGTCAAAGTGTCCAATATT	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	ATGTCAAAGTGTCCAATATT	ATGTCAAAGTGTCCAATATT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	TTN	NM_001267550	exon358	c.101801_101820del	p.33934_33940del	.	.	46.0	10.0	49.0	0.0	.	18412	.	.	Atlas-INDEL
CCDC71L	168455	hgsc.bcm.edu	hg19	7	106301219	106301220	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	CCDC71L	NM_175884	exon1	c.124_125del	p.42_42del	.	.	111.0	36.0	90.0	0.0	.	2	.	.	Atlas-INDEL
FLRT2	23768	hgsc.bcm.edu	hg19	14	86089243	86089243	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	FLRT2	NM_013231	exon2	c.1384delG	p.V462X	.	.	127.0	71.0	141.0	0.0	.	168	.	.	Atlas-INDEL
PI4K2A	55361	hgsc.bcm.edu	hg19	10	99433469	99433492	+	In_Frame_Del	DEL	GAGCCGGAAGCCCTTCTTTTCATG	GAGCCGGAAGCCCTTCTTTTCATG	-	novel		TCGA-XR-A8TF-01A-11D-A35Z-10	TCGA-XR-A8TF-10A-01D-A35Z-10	GAGCCGGAAGCCCTTCTTTTCATG	GAGCCGGAAGCCCTTCTTTTCATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ff0de221-788c-40f3-ba51-eb71a52ccfa5	bf67ce8b-0bd6-4d14-9747-17eb2471d622	.	PI4K2A	NM_018425	exon9	c.1409_1432del	p.470_478del	.	.	83.0	16.0	66.0	0.0	.	57	.	.	Atlas-INDEL
