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
NRD1	4898	hgsc.bcm.edu	hg19	1	52260504	52260504	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	NRD1	NM_002525	exon25	c.A2831G	p.Y944C	ACAACATATTTCA	.	232.0	89.0	356.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
MSH4	4438	hgsc.bcm.edu	hg19	1	76378456	76378456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	MSH4	NM_002440	exon20	c.G2695A	p.A899T	CAAACTGCTCGAA	.	138.0	37.0	214.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	hg19	1	109338883	109338883	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	STXBP3	NM_007269	exon14	c.G1138A	p.G380R	GCAGAAGGACAGA	.	258.0	82.0	364.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	hg19	1	156911226	156911226	+	Splice_Site	SNP	C	C	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	ARHGEF11	NM_014784	exon35	c.3333-1G>A	.	TCTACCCTGAGGA	.	68.0	25.0	92.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35F5	80255	hgsc.bcm.edu	hg19	2	114513036	114513036	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SLC35F5	NM_025181	exon2	c.G126C	p.K42N	CCTTGTCTTAAGA	.	143.0	58.0	207.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
RAB3GAP1	22930	hgsc.bcm.edu	hg19	2	135815643	135815643	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	RAB3GAP1	NM_001172435	exon3	c.A137G	p.K46R	TGGGAAAGCCACT	.	77.0	26.0	85.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
PKP4	8502	hgsc.bcm.edu	hg19	2	159488407	159488407	+	Silent	SNP	T	T	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	PKP4	NM_001005476	exon8	c.T1296A	p.T432T	TGGAACTGTGGAG	.	79.0	19.0	132.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH7	90134	hgsc.bcm.edu	hg19	2	163256852	163256852	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	KCNH7	NM_033272	exon10	c.G2254A	p.G752S	GGCAACCTTTACT	.	85.0	26.0	120.0	0.0	.	378	.	.	.	none	.	.	PASS	Atlas-SNP
FAM198A	729085	hgsc.bcm.edu	hg19	3	43073936	43073936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	FAM198A	NM_001129908	exon2	c.C181T	p.R61W	CATATCCGGCAGG	.	152.0	8.0	120.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	hg19	3	58494718	58494718	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	ACOX2	NM_003500	exon14	c.T1885G	p.F629V	CGGTGAAGTCAAA	.	108.0	26.0	124.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
CADM2	253559	hgsc.bcm.edu	hg19	3	86114787	86114787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	CADM2_ENST00000383699,NS,carcinoma,0,1	CADM2	NM_153184	exon9	c.G1102A	p.D368N	GGCCCTGACCATG	.	103.0	55.0	100.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
QTRTD1	79691	hgsc.bcm.edu	hg19	3	113795727	113795727	+	Silent	SNP	C	C	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	QTRTD1	NM_001256835	exon6	c.C720T	p.T240T	AACAACCCTGGAG	.	138.0	25.0	152.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFB4	4710	hgsc.bcm.edu	hg19	3	120321109	120321109	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	NDUFB4	NM_004547	exon3	c.T382A	p.S128T	CACCTCTCATATT	.	99.0	42.0	118.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
EFNA5	1946	hgsc.bcm.edu	hg19	5	106763191	106763191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	EFNA5	NM_001962	exon2	c.C145T	p.H49Y	CAATATGGTAGTC	.	81.0	33.0	74.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
POM121L2	94026	hgsc.bcm.edu	hg19	6	27277799	27277799	+	Silent	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	POM121L2	NM_033482	exon1	c.C2151T	p.S717S	AGCAGTGCTGCTT	.	131.0	47.0	155.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
RING1	6015	hgsc.bcm.edu	hg19	6	33179580	33179580	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	RING1	NM_002931	exon6	c.G920A	p.R307Q	TCGAGCGGAGGCA	.	51.0	20.0	38.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48654963	48654963	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	ABCA13	NM_152701	exon59	c.A14827G	p.I4943V	CAGCACATCAAAA	.	162.0	46.0	149.0	0.0	.	1192	.	.	.	none	.	.	PASS	Atlas-SNP
KEL	3792	hgsc.bcm.edu	hg19	7	142658912	142658912	+	Silent	SNP	T	T	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	KEL	NM_000420	exon2	c.A51C	p.A17A	TCCACCTGCCTGG	.	143.0	77.0	129.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
LRP12	29967	hgsc.bcm.edu	hg19	8	105509750	105509750	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	LRP12	NM_013437	exon5	c.G1030C	p.V344L	AAGAAACAACTGT	.	120.0	51.0	177.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
SOHLH1	402381	hgsc.bcm.edu	hg19	9	138589408	138589408	+	Silent	SNP	C	C	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SOHLH1	NM_001012415	exon4	c.G411C	p.S137S	CTGACTCGACAAC	.	39.0	12.0	99.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140952502	140952502	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	CACNA1B	NM_001243812	exon28	c.G4108C	p.V1370L	CCCAGGGTGCTGA	.	95.0	33.0	104.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP5-2	440021	hgsc.bcm.edu	hg19	11	1619255	1619255	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	KRTAP5-2,NS,malignant_melanoma,0,1	KRTAP5-2	NM_001004325	exon1	c.A226T	p.T76S	AGCTGGTGCAGGA	.	46.0	2.0	68.0	1.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
CREB3L1	90993	hgsc.bcm.edu	hg19	11	46334184	46334184	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	CREB3L1	NM_052854	exon7	c.C925T	p.R309C	AGCCGTCGTAAGA	.	71.0	29.0	115.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
NXF1	10482	hgsc.bcm.edu	hg19	11	62563986	62563986	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	NXF1	NM_006362	exon14	c.A1232G	p.H411R	CCATCATGGTAGG	.	87.0	38.0	113.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
CTSC	1075	hgsc.bcm.edu	hg19	11	88070840	88070840	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	CTSC	NM_148170	exon1	c.A1G	p.M1V	CACCCATGCTGCA	.	66.0	22.0	81.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
PKP2	5318	hgsc.bcm.edu	hg19	12	33003716	33003716	+	Silent	SNP	A	A	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	PKP2	NM_004572	exon5	c.T1362A	p.T454T	TTTTTTAGTCTCC	.	63.0	14.0	66.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
UBC	7316	hgsc.bcm.edu	hg19	12	125397821	125397821	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	UBC	NM_021009	exon2	c.C497T	p.T166I	TCGAGGGTGATGG	.	161.0	7.0	169.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	hg19	13	101287287	101287287	+	Silent	SNP	G	G	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	TMTC4	NM_032813	exon11	c.C1365A	p.T455T	TTTCTTGGTATGT	.	89.0	38.0	97.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
OXA1L	5018	hgsc.bcm.edu	hg19	14	23240318	23240318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	OXA1L	NM_005015	exon8	c.T1211C	p.I404T	TTAAAATCCCCCA	.	84.0	36.0	135.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	hg19	14	24656090	24656090	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	IPO4	NM_024658	exon8	c.C750A	p.C250X	CTCCAGGCAGAAT	.	65.0	17.0	89.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	hg19	14	95053705	95053705	+	Silent	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SERPINA5	NM_000624	exon3	c.G6A	p.Q2Q	CATGCAGCTCTTC	.	22.0	10.0	24.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	hg19	16	11214588	11214588	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	CLEC16A	NM_015226	exon19	c.G2233T	p.G745C	AGGCTTGGCTGGG	.	92.0	4.0	73.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
NT5M	56953	hgsc.bcm.edu	hg19	17	17209883	17209883	+	Silent	SNP	A	A	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	NT5M	NM_020201	exon2	c.A294T	p.S98S	GGAGTCAAAGAAT	.	68.0	15.0	65.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
TBX21	30009	hgsc.bcm.edu	hg19	17	45822561	45822561	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	TBX21	NM_013351	exon6	c.G1437C	p.E479D	GACTGAGATTGCC	.	87.0	43.0	71.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	hg19	17	48755182	48755182	+	Silent	SNP	G	G	A	rs142831476		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	ABCC3	NM_003786	exon24	c.G3456A	p.S1152S	CTTTTCGGAGACA	.	130.0	40.0	97.0	0.0	.	138	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
MED13	9969	hgsc.bcm.edu	hg19	17	60112944	60112944	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	MED13	NM_005121	exon4	c.T496C	p.F166L	AGAAAAAGGTGAA	.	79.0	4.0	62.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
SLC44A2	57153	hgsc.bcm.edu	hg19	19	10738606	10738606	+	Silent	SNP	T	T	C	rs376552555		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SLC44A2	NM_020428	exon4	c.T171C	p.H57H	GACTCATGGAGAC	.	125.0	49.0	188.0	0.0	.	56	.	.	.	weak	.	.	PASS	Atlas-SNP
OR10H2	26538	hgsc.bcm.edu	hg19	19	15838984	15838984	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	OR10H2	NM_013939	exon1	c.T131G	p.L44R	ACCTGCTCATCAT	.	95.0	41.0	92.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
HAMP	57817	hgsc.bcm.edu	hg19	19	35775707	35775707	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	HAMP	NM_021175	exon2	c.G106T	p.E36X	CTTGCAGAGCTGC	.	80.0	20.0	90.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	hg19	20	33586408	33586408	+	Silent	SNP	G	G	T	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	MYH7B,NS,adenocarcinoma,0,1	MYH7B	NM_020884	exon34	c.G4095T	p.R1365R	GTTGCGGCGCCAG	.	33.0	15.0	49.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	hg19	20	61299155	61299155	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SLCO4A1	NM_016354	exon8	c.C1531A	p.Q511K	AGCTGCCAGCCAG	.	75.0	29.0	111.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	hg19	22	38153684	38153684	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	TRIOBP	NM_001039141	exon16	c.G5752A	p.A1918T	CTGAAGGCAGGGG	.	38.0	19.0	41.0	0.0	.	262	.	.	.	none	.	.	PASS	Atlas-SNP
PNPLA4	8228	hgsc.bcm.edu	hg19	X	7894062	7894062	+	Silent	SNP	C	C	G	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	PNPLA4	NM_004650	exon2	c.G99C	p.V33V	ATCCTTCACAAGT	.	158.0	27.0	216.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
SLC6A6	6533	hgsc.bcm.edu	hg19	3	14526398	14526417	+	Frame_Shift_Del	DEL	AAGGGAACCCAACCGCTGGG	AAGGGAACCCAACCGCTGGG	-	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	AAGGGAACCCAACCGCTGGG	AAGGGAACCCAACCGCTGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SLC6A6	NM_003043	exon15	c.1745_1764del	p.582_588del	.	.	37.0	10.0	33.0	0.0	.	58	.	0.27027	0	none	.	.	PASS	Atlas-Indel,Pindel
TP53BP2	7159	hgsc.bcm.edu	hg19	1	223989924	223989924	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	TP53BP2	NM_001031685	exon9	c.1120delA	p.K374fs	.	.	90.0	26.0	100.0	0.0	.	144	.	0.288889	0	none	.	.	PASS	Atlas-Indel,Pindel
FRMD3	257019	hgsc.bcm.edu	hg19	9	86004612	86004615	+	Frame_Shift_Del	DEL	TTTG	TTTG	-	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	TTTG	TTTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	FRMD3	NM_001244959	exon2	c.157_160del	p.53_54del	.	.	80.0	30.0	109.0	0.0	.	96	.	0.375	0	none	.	.	PASS	Atlas-Indel,Pindel
SPTBN5	51332	hgsc.bcm.edu	hg19	15	42142086	42142086	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-A772-01A-11D-A33Q-10	TCGA-A4-A772-10A-01D-A33Q-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	e7e4d69c-b66c-4aa5-b7ac-573ab82472ff	280b0962-0e12-4148-b679-dd642d7f0b3e	.	SPTBN5	NM_016642	exon67	c.10889delG	p.R3630fs	.	.	74.0	31.0	67.0	0.0	.	171	.	0.418919	0	none	.	.	PASS	Atlas-Indel,Pindel