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
ARID1A	8289	hgsc.bcm.edu	hg19	1	27099008	27099008	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	ARID1A,NS,carcinoma,0,1	ARID1A	NM_006015	exon13	c.C3424T	p.Q1142X	TCTATGCAGGGGC	.	189.0	79.0	211.0	0.0	.	842	.	.	Atlas-SNP
CD1B	910	hgsc.bcm.edu	hg19	1	158299817	158299817	+	Silent	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CD1B	NM_001764	exon3	c.C432A	p.V144V	ATTCTTGACACTC	.	263.0	86.0	238.0	0.0	.	78	.	.	Atlas-SNP
DHX9	1660	hgsc.bcm.edu	hg19	1	182848473	182848473	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	DHX9	NM_001357	exon21	c.G2440A	p.G814S	GGAATTGGCCAAT	.	148.0	29.0	147.0	0.0	.	114	.	.	Atlas-SNP
PTPN14	5784	hgsc.bcm.edu	hg19	1	214542934	214542934	+	Missense_Mutation	SNP	G	G	T	rs61749333	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	PTPN14,NS,carcinoma,0,1	PTPN14	NM_005401	exon17	c.C3137A	p.T1046K	GAATCCGTTCGAA	.	323.0	18.0	299.0	0.0	.	168	.	G|0.999;C|0.001	Atlas-SNP
CAPN14	440854	hgsc.bcm.edu	hg19	2	31414909	31414909	+	Silent	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CAPN14	NM_001145122	exon11	c.C1170A	p.G390G	TCTCCTGCCCTCC	.	114.0	22.0	171.0	0.0	.	36	.	.	Atlas-SNP
MAL	4118	hgsc.bcm.edu	hg19	2	95713853	95713853	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	MAL,NS,carcinoma,0,1	MAL	NM_022438	exon2	c.G243A	p.E81E	TGGAGAGACTTCC	.	179.0	64.0	267.0	0.0	.	21	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266620	41266620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CTNNB1	NM_001098209	exon4	c.G417T	p.L139F	AAACTTGATTAAC	.	52.0	8.0	78.0	0.0	.	4904	.	.	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	hg19	3	148868468	148868468	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HPS3	NM_032383	exon6	c.1245+1G>A	.	CTGAAGGTAAGAA	.	110.0	18.0	131.0	0.0	.	104	.	.	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	hg19	5	37007558	37007558	+	Silent	SNP	A	A	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	NIPBL	NM_015384	exon18	c.A4221C	p.T1407T	TCTTACAGACACA	.	118.0	51.0	162.0	0.0	.	513	.	.	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	hg19	5	37007562	37007562	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	NIPBL	NM_015384	exon18	c.A4225G	p.T1409A	ACAGACACAACAA	.	117.0	51.0	158.0	0.0	.	513	.	.	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	hg19	5	95224587	95224587	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ELL2	NM_012081	exon12	c.G1911A	p.E637E	CCATGACTCTGCT	.	81.0	14.0	125.0	0.0	.	63	.	.	Atlas-SNP
KIF20A	10112	hgsc.bcm.edu	hg19	5	137519196	137519196	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KIF20A	NM_005733	exon9	c.C1065T	p.A355A	GGAGGCCTGGAAG	.	77.0	4.0	39.0	0.0	.	53	.	.	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	hg19	5	140589809	140589809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PCDHB12	NM_018932	exon1	c.G1330A	p.V444I	TCCGACGTCAATG	.	165.0	9.0	135.0	0.0	.	179	.	.	Atlas-SNP
PCDHGA5	56110	hgsc.bcm.edu	hg19	5	140744161	140744161	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PCDHGA5	NM_032054	exon1	c.C264T	p.G88G	CGCGGGCAGGATA	.	161.0	57.0	111.0	0.0	.	215	.	.	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	hg19	5	141051870	141051870	+	Splice_Site	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ARAP3	NM_022481	exon11	c.1386-2A>T	.	TGAAGCTGAGGGG	.	152.0	8.0	144.0	0.0	.	139	.	.	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	hg19	6	29080097	29080097	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	OR2J3	NM_001005216	exon1	c.T430G	p.C144G	CGTTTCTGCCACC	.	331.0	132.0	450.0	1.0	.	53	.	.	Atlas-SNP
OR12D3	81797	hgsc.bcm.edu	hg19	6	29342651	29342651	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	OR12D3	NM_030959	exon1	c.G414A	p.V138V	AATACACACCTGG	.	81.0	34.0	90.0	0.0	.	55	.	.	Atlas-SNP
SAMD5	389432	hgsc.bcm.edu	hg19	6	147830139	147830139	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	SAMD5	NM_001030060	exon1	c.C75A	p.N25K	GGATAACGGCTAC	.	211.0	63.0	223.0	0.0	.	4	.	.	Atlas-SNP
KPNA7	402569	hgsc.bcm.edu	hg19	7	98792911	98792911	+	Missense_Mutation	SNP	G	G	T	rs183241291	by1000genomes;alternate_allele	TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KPNA7	NM_001145715	exon4	c.C335A	p.A112E	AGGCCCGCTTCAA	.	67.0	24.0	62.0	0.0	.	31	.	G|1.000;A|0.000	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100686943	100686943	+	Silent	SNP	G	G	A	rs201108444	bycluster	TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MUC17	NM_001040105	exon3	c.G12246A	p.T4082T	CTCCACGACTGTG	.	191.0	40.0	245.0	0.0	.	804	.	.	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	hg19	8	3267015	3267015	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CSMD1	NM_033225	exon13	c.G1674A	p.E558E	CACCAGCTCAAAG	.	112.0	55.0	146.0	0.0	.	1469	.	.	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	hg19	8	24170902	24170902	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ADAM28	NM_014265	exon6	c.G385T	p.G129C	TTCAGGGGCTACT	.	123.0	10.0	153.0	0.0	.	100	.	.	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	hg19	8	24170903	24170903	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ADAM28	NM_014265	exon6	c.G386T	p.G129V	TCAGGGGCTACTT	.	123.0	10.0	155.0	0.0	.	100	.	.	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	hg19	10	71008284	71008284	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HKDC1	NM_025130	exon10	c.C1370T	p.T457I	TGGTGACCGCGGT	.	115.0	52.0	110.0	0.0	.	98	.	.	Atlas-SNP
KRTAP5-3	387266	hgsc.bcm.edu	hg19	11	1629410	1629410	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KRTAP5-3	NM_001012708	exon1	c.C206A	p.S69Y	CCACAAGAGCCAC	.	239.0	34.0	236.0	0.0	.	33	.	.	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	hg19	11	6648374	6648374	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	DCHS1	NM_003737	exon14	c.C5896T	p.R1966C	GTAGGCGCAGAGG	.	123.0	30.0	149.0	0.0	.	277	.	.	Atlas-SNP
MRVI1	10335	hgsc.bcm.edu	hg19	11	10602112	10602112	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MRVI1	NM_130385	exon20	c.C2385T	p.T795T	TTCTTTGGTCTTC	.	59.0	5.0	87.0	0.0	.	113	.	.	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	hg19	11	17428453	17428453	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ABCC8	NM_000352	exon25	c.G3144T	p.R1048S	GCAGTTCCTGGCT	.	87.0	17.0	123.0	0.0	.	170	.	.	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	hg19	11	49229931	49229931	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FOLH1	NM_004476	exon1	c.G31C	p.A11P	CCACAGCCGAGTC	.	42.0	21.0	45.0	0.0	.	141	.	.	Atlas-SNP
RNF214	257160	hgsc.bcm.edu	hg19	11	117150670	117150670	+	Missense_Mutation	SNP	G	G	A	rs377377564		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	RNF214	NM_207343	exon7	c.G1006A	p.E336K	GATGGCGAAATAA	.	61.0	21.0	81.0	0.0	.	54	.	.	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	hg19	12	121431424	121431424	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HNF1A	NM_000545	exon3	c.T628A	p.S210T	CCAGCATCCCAGC	.	109.0	21.0	131.0	0.0	.	302	.	.	Atlas-SNP
LHFP	10186	hgsc.bcm.edu	hg19	13	40175212	40175212	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	LHFP	NM_005780	exon2	c.C142T	p.R48W	ACCTCCGGAAGGT	.	134.0	23.0	181.0	0.0	.	31	.	.	Atlas-SNP
CCDC64B	146439	hgsc.bcm.edu	hg19	16	3085397	3085397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CCDC64B	NM_001103175	exon1	c.G101A	p.R34Q	GAGTCCCGCCGCT	.	87.0	37.0	97.0	0.0	.	19	.	.	Atlas-SNP
CTCF	10664	hgsc.bcm.edu	hg19	16	67660509	67660509	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CTCF	NM_006565	exon8	c.G1409A	p.R470H	AATGCCGTTACTG	.	98.0	32.0	130.0	0.0	.	193	.	.	Atlas-SNP
LIG3	3980	hgsc.bcm.edu	hg19	17	33310396	33310396	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	LIG3	NM_013975	exon2	c.C372T	p.P124P	GGTGCCCAATCCC	.	81.0	14.0	131.0	0.0	.	164	.	.	Atlas-SNP
FTSJ3	117246	hgsc.bcm.edu	hg19	17	61898837	61898837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FTSJ3	NM_017647	exon16	c.A1763G	p.Q588R	TCATCTTGGTACA	.	78.0	13.0	72.0	0.0	.	63	.	.	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	hg19	17	73723530	73723530	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ITGB4	NM_001005731	exon4	c.G208A	p.A70T	CTGGCCGCGGGCT	.	132.0	36.0	155.0	0.0	.	165	.	.	Atlas-SNP
WDR45B	56270	hgsc.bcm.edu	hg19	17	80576976	80576976	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	NM_019613	exon7	c.C647G	p.S216X	CCTGATGAAGTAT	.	76.0	17.0	113.0	0.0	.	.	.	.	Atlas-SNP
CAPNS1	826	hgsc.bcm.edu	hg19	19	36637097	36637097	+	Splice_Site	SNP	G	G	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CAPNS1	NM_001749	exon9	c.605-1G>C	.	ATCTTAGGGTTCC	.	57.0	7.0	88.0	0.0	.	19	.	.	Atlas-SNP
ZNF583	147949	hgsc.bcm.edu	hg19	19	56934521	56934521	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ZNF583	NM_001159861	exon5	c.T494G	p.F165C	AAACATTCCACCA	.	42.0	17.0	39.0	0.0	.	83	.	.	Atlas-SNP
WFDC5	149708	hgsc.bcm.edu	hg19	20	43743715	43743715	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	WFDC5	NM_145652	exon1	c.C10T	p.Q4X	GGCTCTGGGTCCT	.	36.0	7.0	42.0	0.0	.	19	.	.	Atlas-SNP
GABPA	2551	hgsc.bcm.edu	hg19	21	27141414	27141414	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	GABPA	NM_001197297	exon10	c.G1236A	p.A412A	TGCAGCGGAGTTG	.	225.0	89.0	334.0	0.0	.	59	.	.	Atlas-SNP
PPARA	5465	hgsc.bcm.edu	hg19	22	46611213	46611213	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PPARA	NM_001001928	exon4	c.G352T	p.A118S	GTCCACGCGTGTG	.	80.0	27.0	119.0	0.0	.	36	.	.	Atlas-SNP
RPS6KA3	6197	hgsc.bcm.edu	hg19	X	20227476	20227476	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	RPS6KA3	NM_004586	exon3	c.A173T	p.E58V	TGTCCTTCCTTTA	.	102.0	33.0	177.0	0.0	.	110	.	.	Atlas-SNP
MSN	4478	hgsc.bcm.edu	hg19	X	64955217	64955217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MSN	NM_002444	exon8	c.G884A	p.R295H	GCCGTCGCAAGCC	.	223.0	9.0	287.0	0.0	.	89	.	.	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	15397	15397	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	ENST00000361789	exon1	c.A651T	p.K217N	CGATAAAATCACC	.	34.0	15.0	63.0	0.0	.	.	.	.	Atlas-SNP
PHPT1	29085	hgsc.bcm.edu	hg19	9	139744956	139744962	+	Splice_Site	DEL	CAGCAGA	CAGCAGA	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	CAGCAGA	CAGCAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PHPT1	.	.	.	.	.	.	47.0	10.0	97.0	0.0	.	14	.	.	Atlas-Indel,Pindel
STEAP3	55240	hgsc.bcm.edu	hg19	2	120012401	120012401	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	STEAP3	NM_182915	exon5	c.1191delC	p.N397fs	.	.	102.0	39.0	170.0	0.0	.	44	.	.	Atlas-Indel,Pindel
FLG2	388698	hgsc.bcm.edu	hg19	1	152327767	152327767	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FLG2	NM_001014342	exon3	c.2496delC	p.G832fs	.	.	207.0	18.0	166.0	0.0	.	431	.	.	Atlas-INDEL
KRT2	3849	hgsc.bcm.edu	hg19	12	53045634	53045635	+	In_Frame_Ins	INS	-	-	CTCCAAAGCCGCTGCCGC	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KRT2	NM_000423	exon1	c.293_294insGCGGCAGCGGCTTTGGAG	p.G98delinsGGSGFGG	.	.	89.0	23.0	92.0	0.0	.	94	.	.	Atlas-INDEL