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
ATP13A2	23400	hgsc.bcm.edu	hg19	1	17318334	17318334	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ATP13A2	NM_022089	exon20	c.C2146A	p.L716M	GGCTCAGGTCTCC	.	64.0	18.0	91.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
RAP1GAP	5909	hgsc.bcm.edu	hg19	1	21936724	21936724	+	Silent	SNP	G	G	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RAP1GAP	NM_001145658	exon14	c.C1080G	p.V360V	CTGGAAGACCACA	.	191.0	52.0	156.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
RPS8	6202	hgsc.bcm.edu	hg19	1	45242407	45242407	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RPS8	NM_001012	exon3	c.C172G	p.L58V	CGTGCCCTGAGGT	.	30.0	13.0	38.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
AMPD1	270	hgsc.bcm.edu	hg19	1	115221050	115221050	+	Silent	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	AMPD1	NM_000036	exon8	c.T1095C	p.Y365Y	GGTGCTATAGACC	.	86.0	30.0	76.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	hg19	2	1805513	1805513	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	MYT1L	NM_015025	exon23	c.A3225G	p.E1075E	ATTGGATTCATTT	.	76.0	22.0	69.0	0.0	.	241	.	.	.	none	.	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	hg19	2	17896324	17896324	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SMC6	NM_001142286	exon16	c.A1534T	p.I512F	GATGAATGCAAGC	.	66.0	28.0	70.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
RHOB	388	hgsc.bcm.edu	hg19	2	20647312	20647312	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RHOB	NM_004040	exon1	c.A86G	p.E29G	AGGACGAGTTCCC	.	85.0	26.0	66.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A6	8884	hgsc.bcm.edu	hg19	2	27427730	27427730	+	Silent	SNP	G	G	C	rs376306193		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	SLC5A6,NS,carcinoma,0,1	SLC5A6	NM_021095	exon8	c.C804G	p.L268L	TAAGGAGAGCATC	.	30.0	10.0	24.0	0.0	.	63	.	.	.	weak	.	.	PASS	Atlas-SNP
INO80B	83444	hgsc.bcm.edu	hg19	2	74684908	74684908	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	INO80B	NM_031288	exon5	c.T988A	p.C330S	GCACTCTGTAGTC	.	25.0	8.0	21.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
RPIA	22934	hgsc.bcm.edu	hg19	2	89037541	89037541	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RPIA	NM_144563	exon8	c.T786G	p.F262L	GAAGTTTGACCGG	.	114.0	9.0	92.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	hg19	2	97368368	97368368	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	FER1L5	NM_001113382	exon47	c.A5395C	p.K1799Q	ATGCAGAAGACAG	.	64.0	24.0	56.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	hg19	2	168108259	168108259	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	XIRP2	NM_152381	exon9	c.C10357T	p.H3453Y	TTCAAGCATGCCC	.	148.0	59.0	158.0	0.0	.	914	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179577514	179577514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	TTN	NM_001267550	exon94	c.G27238A	p.D9080N	CTACATCGAACAA	.	74.0	20.0	56.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	hg19	2	207655323	207655323	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	FASTKD2	NM_001136193	exon11	c.T1926C	p.S642S	CAGATCTGCTTAT	.	43.0	14.0	64.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
LRRFIP1	9208	hgsc.bcm.edu	hg19	2	238666100	238666100	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	LRRFIP1	NM_001137550	exon17	c.A1133T	p.E378V	CTCAGGAAATCCG	.	221.0	66.0	270.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
ZKSCAN7	55888	hgsc.bcm.edu	hg19	3	44612087	44612087	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	.	NM_018651	exon6	c.T1485C	p.Y495Y	ACCTTATGAATGC	.	91.0	9.0	88.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
VPRBP	9730	hgsc.bcm.edu	hg19	3	51452313	51452313	+	Splice_Site	SNP	T	T	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	VPRBP	NM_001171904	exon18	c.3442-2A>C	.	TAAATCTTTAGAG	.	70.0	6.0	82.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
MME	4311	hgsc.bcm.edu	hg19	3	154858036	154858036	+	Silent	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	MME	NM_007287	exon10	c.A912G	p.T304T	GATGACATTGGCC	.	324.0	109.0	293.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
AFAP1	60312	hgsc.bcm.edu	hg19	4	7811366	7811366	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	AFAP1	NM_001134647	exon9	c.A1029G	p.S343S	CTCAGCTGAGGAG	.	55.0	18.0	50.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
GUF1	60558	hgsc.bcm.edu	hg19	4	44688034	44688034	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.,1	GUF1	NM_021927	exon7	c.T728C	p.I243T	AAAGAATCCCCCC	.	42.0	11.0	40.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
PRDM8	56978	hgsc.bcm.edu	hg19	4	81123265	81123265	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PRDM8	NM_001099403	exon4	c.C649G	p.Q217E	CAGCAGCAGGAGG	.	100.0	4.0	80.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
PKD2	5311	hgsc.bcm.edu	hg19	4	88996109	88996109	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PKD2	NM_000297	exon14	c.G2668C	p.E890Q	GTGGCCGAGGTCA	.	87.0	18.0	113.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	hg19	5	13839483	13839483	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	DNAH5	NM_001369	exon35	c.T5864G	p.I1955R	GGAGTTATTACAA	.	55.0	19.0	60.0	0.0	.	868	.	.	.	none	.	.	PASS	Atlas-SNP
AMACR	23600	hgsc.bcm.edu	hg19	5	33998825	33998825	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	AMACR	NM_203382	exon3	c.T499C	p.Y167H	AGTCGTATAGAAA	.	106.0	34.0	135.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ADAMTS6	11174	hgsc.bcm.edu	hg19	5	64766709	64766709	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ADAMTS6	NM_197941	exon3	c.G358A	p.G120R	GGGGTCCATCTTT	.	84.0	22.0	77.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA5	56110	hgsc.bcm.edu	hg19	5	140745640	140745640	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PCDHGA5	NM_032054	exon1	c.C1743T	p.S581S	TCGCTCCGCAGAA	.	104.0	35.0	96.0	0.0	.	215	.	.	.	none	.	.	PASS	Atlas-SNP
UBTD2	92181	hgsc.bcm.edu	hg19	5	171661228	171661228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	UBTD2,colon,carcinoma,0,1	UBTD2	NM_152277	exon2	c.G205A	p.E69K	AAATCTCTTTCCG	.	93.0	32.0	100.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
RGS14	10636	hgsc.bcm.edu	hg19	5	176798989	176798989	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RGS14	NM_006480	exon15	c.C1614T	p.P538P	AGGGCCCAGCTCC	.	44.0	18.0	60.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H2BJ	8970	hgsc.bcm.edu	hg19	6	27100264	27100264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	HIST1H2BJ	NM_021058	exon1	c.C266T	p.T89I	GTGATGGTCGAGC	.	33.0	12.0	62.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
KCNK16	83795	hgsc.bcm.edu	hg19	6	39285639	39285639	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	KCNK16	NM_001135106	exon3	c.C418A	p.L140I	GGTTGAGGAAGAT	.	60.0	7.0	67.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
PRSS35	167681	hgsc.bcm.edu	hg19	6	84233613	84233613	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PRSS35	NM_153362	exon2	c.C453T	p.S151S	GCTTTCCACGGGC	.	115.0	40.0	129.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
ENPP3	5169	hgsc.bcm.edu	hg19	6	132059234	132059234	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ENPP3	NM_005021	exon23	c.A2231C	p.N744T	GAGTAAATGTGGT	.	78.0	29.0	91.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
SNX9	51429	hgsc.bcm.edu	hg19	6	158358486	158358486	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	SNX9,head_neck,malignant_melanoma,0,1	SNX9	NM_016224	exon15	c.C1464A	p.F488L	CCATTTCCTGATG	.	80.0	20.0	79.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
GCK	2645	hgsc.bcm.edu	hg19	7	44185276	44185276	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	GCK	NM_033507	exon9	c.G1076C	p.R359P	GAGGGTCGCAGCC	.	70.0	27.0	60.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
POM121C	100101267	hgsc.bcm.edu	hg19	7	75070316	75070316	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	POM121C	NM_001099415	exon5	c.T143G	p.L48R	GCACTCAGTACAG	.	138.0	33.0	146.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
LHFPL3	375612	hgsc.bcm.edu	hg19	7	103969251	103969251	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	LHFPL3,NS,carcinoma,0,1	LHFPL3	NM_199000	exon1	c.C24T	p.A8A	CGCTGCCGCCGCC	.	37.0	2.0	29.0	1.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	hg19	8	2020508	2020508	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	MYOM2,NS,malignant_melanoma,0,2	MYOM2	NM_003970	exon9	c.G877C	p.E293Q	GAAGGCGAGACGG	.	29.0	9.0	37.0	0.0	.	251	.	.	.	none	.	.	PASS	Atlas-SNP
LOXL2	4017	hgsc.bcm.edu	hg19	8	23198538	23198538	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	LOXL2	NM_002318	exon4	c.C710T	p.P237L	TCCCCAGGGAAGC	.	45.0	15.0	45.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
EXOSC4	54512	hgsc.bcm.edu	hg19	8	145134932	145134932	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	EXOSC4,right_upper_lobe,carcinoma,0,1	EXOSC4	NM_019037	exon2	c.C258T	p.R86R	TGAGCGCAAGCGA	.	118.0	40.0	86.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	hg19	8	145640398	145640398	+	Missense_Mutation	SNP	G	G	T	rs200044971	by1000genomes;alternate_allele	TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SLC39A4	NM_130849	exon4	c.C764A	p.P255H	ATGAGGGGCACAG	.	38.0	15.0	32.0	0.0	.	54	.	.	.	alt	G|0.998;A|0.002	.	PASS	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	hg19	9	15729747	15729747	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	.	NM_173550	exon16	c.T2000C	p.L667P	AGGAACTAGAGCT	.	120.0	35.0	101.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NPR2	4882	hgsc.bcm.edu	hg19	9	35792786	35792786	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	NPR2	NM_003995	exon1	c.T381C	p.S127S	GGCCTCTGGTTTT	.	70.0	14.0	67.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
OR1N2	138882	hgsc.bcm.edu	hg19	9	125315955	125315955	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	OR1N2	NM_001004457	exon1	c.C507T	p.T169T	GCTAACCAACTGT	.	48.0	19.0	44.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
MED27	9442	hgsc.bcm.edu	hg19	9	134889753	134889753	+	Silent	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	MED27	NM_001253881	exon3	c.T450C	p.A150A	GGGCTGAGCCTTT	.	80.0	12.0	134.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
GJD4	219770	hgsc.bcm.edu	hg19	10	35896876	35896876	+	Silent	SNP	C	C	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	GJD4	NM_153368	exon2	c.C435A	p.I145I	CATCATCCACCTC	.	23.0	8.0	19.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	hg19	10	72513573	72513573	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ADAMTS14	NM_139155	exon19	c.G2756T	p.W919L	AGGAGTGGGGTGC	.	39.0	8.0	43.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf11	83938	hgsc.bcm.edu	hg19	10	77818509	77818509	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	C10orf11	NM_032024	exon4	c.A400G	p.R134G	TTGGTCAGAGGAG	.	89.0	13.0	105.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf12	26148	hgsc.bcm.edu	hg19	10	98744160	98744160	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	C10orf12	NM_015652	exon1	c.A3013C	p.N1005H	TATTCCAATATTC	.	60.0	21.0	49.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
ERLIN1	10613	hgsc.bcm.edu	hg19	10	101935785	101935785	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	.	NM_006459	exon5	c.C347G	p.T116S	ATTAAGGTCTTGT	.	97.0	35.0	95.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	hg19	10	134733640	134733640	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	TTC40	NM_001200049	exon14	c.G1653A	p.K551K	CCACGCCTTCGCA	.	54.0	18.0	43.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
HIPK3	10114	hgsc.bcm.edu	hg19	11	33374883	33374883	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	HIPK3	NM_005734	exon17	c.T3417C	p.S1139S	AGCCTCTCCGTGT	.	112.0	31.0	125.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
ATG13	9776	hgsc.bcm.edu	hg19	11	46666907	46666907	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ATG13	NM_001142673	exon4	c.C88T	p.Q30X	ATTGTCCAGGCTC	.	91.0	5.0	78.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	hg19	11	65397996	65397996	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PCNXL3	NM_032223	exon27	c.A4391C	p.Y1464S	AGGGCTATAGCAT	.	122.0	41.0	135.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
MRE11A	4361	hgsc.bcm.edu	hg19	11	94225958	94225958	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	MRE11A	NM_005591	exon2	c.G10T	p.A4S	CATCTGCAGTACT	.	72.0	7.0	57.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
ASB8	140461	hgsc.bcm.edu	hg19	12	48543736	48543736	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ASB8	NM_024095	exon4	c.G280A	p.A94T	TCTCTGCTGCATA	.	83.0	26.0	59.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SERPINA12	145264	hgsc.bcm.edu	hg19	14	94964196	94964196	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SERPINA12	NM_173850	exon3	c.T539G	p.F180C	CTGATAAAGTCAT	.	82.0	39.0	130.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
RASGRP1	10125	hgsc.bcm.edu	hg19	15	38798102	38798102	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RASGRP1	NM_001128602	exon10	c.A1262G	p.Y421C	TCAGTGTAGTAAA	.	68.0	25.0	68.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	hg19	15	40660678	40660678	+	Missense_Mutation	SNP	C	C	G	rs375551948	alternate_allele	TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	DISP2	NM_033510	exon8	c.C2365G	p.P789A	CTGGACCCTCGTA	.	66.0	19.0	59.0	0.0	.	86	.	.	.	alt	.	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	hg19	15	42005518	42005518	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	MGA	NM_001080541	exon9	c.G3254C	p.R1085T	TGAAAAGAAAAGT	.	80.0	24.0	106.0	0.0	.	264	.	.	.	none	.	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	hg19	15	85400827	85400827	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ALPK3	NM_020778	exon6	c.A3464T	p.D1155V	GCTGTGACCCTGG	.	62.0	19.0	64.0	0.0	.	289	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	hg19	16	1268594	1268594	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CACNA1H	NM_021098	exon33	c.C5830A	p.H1944N	GCGCCCCACCCCC	.	91.0	28.0	87.0	0.0	.	317	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC19A	728276	hgsc.bcm.edu	hg19	16	19320374	19320374	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CLEC19A	NM_001256720	exon5	c.T530C	p.V177A	CCTTTGTCTGCAA	.	51.0	6.0	55.0	0.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
ZKSCAN2	342357	hgsc.bcm.edu	hg19	16	25266603	25266603	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ZKSCAN2	NM_001012981	exon2	c.G510C	p.E170D	AGGTTCCTCCCGA	.	46.0	12.0	43.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC79	283847	hgsc.bcm.edu	hg19	16	66804098	66804098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CCDC79	NM_001136505	exon14	c.G1387A	p.D463N	CCTCATCTTCTGC	.	107.0	40.0	100.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578271	7578271	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	TP53_ENST00000545858,NS,carcinoma,0,1	TP53	NM_000546	exon6	c.A578C	p.H193P	ATAAGATGCTGAG	.	123.0	29.0	120.0	1.0	.	33396	.	.	.	none	.	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	hg19	17	41203099	41203099	+	Silent	SNP	G	G	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	BRCA1	NM_007300	exon21	c.C5376T	p.P1792P	GGTGAAGGGCCCA	.	63.0	24.0	53.0	0.0	.	304	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR6	63897	hgsc.bcm.edu	hg19	17	58121036	58121036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	HEATR6	NM_022070	exon20	c.C3434A	p.P1145Q	CCAGTTGGTGCCT	.	207.0	49.0	130.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
HELZ	9931	hgsc.bcm.edu	hg19	17	65162707	65162707	+	Silent	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	HELZ	NM_014877	exon15	c.A1782G	p.Q594Q	ATTTAATTGAAAC	.	117.0	9.0	85.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
FSCN2	25794	hgsc.bcm.edu	hg19	17	79496379	79496379	+	Silent	SNP	G	G	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	FSCN2	NM_001077182	exon1	c.G822A	p.R274R	TGTGCGGCAAGGT	.	123.0	73.0	83.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
PCYT2	5833	hgsc.bcm.edu	hg19	17	79865647	79865647	+	Splice_Site	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PCYT2	NM_001256435	exon6	c.258+2T>C	.	CGACTCACCTGGC	.	52.0	14.0	46.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
KCNG2	26251	hgsc.bcm.edu	hg19	18	77659162	77659162	+	Silent	SNP	G	G	A	rs140841838		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	KCNG2	NM_012283	exon2	c.G747A	p.A249A	GCGCGCGCCACTC	.	26.0	6.0	32.0	0.0	.	48	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
ICAM1	3383	hgsc.bcm.edu	hg19	19	10395839	10395839	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ICAM1	NM_000201	exon7	c.T1475A	p.I492K	CAGTCATAATGGG	.	83.0	29.0	67.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	hg19	19	39913652	39913652	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	PLEKHG2	NM_022835	exon18	c.G1958A	p.G653D	CCGAAGGTTCTCG	.	87.0	5.0	80.0	0.0	.	329	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM4	54795	hgsc.bcm.edu	hg19	19	49674876	49674876	+	Silent	SNP	C	C	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	TRPM4,NS,carcinoma,0,1	TRPM4	NM_001195227	exon8	c.C900T	p.L300L	TCTCCTCGTGGCT	.	72.0	23.0	66.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF175	7728	hgsc.bcm.edu	hg19	19	52091298	52091298	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ZNF175	NM_007147	exon5	c.T1714C	p.S572P	TCTAAGTCTCAAT	.	68.0	20.0	63.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	hg19	21	40665927	40665927	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	BRWD1	NM_018963	exon8	c.C641A	p.S214X	TGTGTTGACCAAA	.	90.0	32.0	104.0	0.0	.	325	.	.	.	none	.	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	hg19	22	32754194	32754194	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RFPL3	NM_001098535	exon1	c.T136A	p.Y46N	TCAGACTATCTGG	.	149.0	40.0	134.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
RFPL3	10738	hgsc.bcm.edu	hg19	22	32754195	32754195	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RFPL3	NM_001098535	exon1	c.A137T	p.Y46F	CAGACTATCTGGA	.	150.0	40.0	134.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
ERCC6L	54821	hgsc.bcm.edu	hg19	X	71427693	71427693	+	Silent	SNP	G	G	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ERCC6L	NM_017669	exon2	c.C924A	p.A308A	TCCCAAGGCTTTT	.	149.0	6.0	222.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
TCEAL4	79921	hgsc.bcm.edu	hg19	X	102841991	102841991	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	TCEAL4	NM_001006935	exon3	c.A388G	p.T130A	AGAAAAACTAATA	.	166.0	74.0	259.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
H2BFM	286436	hgsc.bcm.edu	hg19	X	103294650	103294650	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	H2BFM	NM_001164416	exon1	c.A107T	p.Q36L	AGAAGCAGAAGAG	.	92.0	44.0	131.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	14015	14015	+	Nonsense_Mutation	SNP	A	A	G	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	.	ENST00000361567	exon1	c.A1679G	p.K560X	TAGAAAAGCTATT	.	144.0	6.0	11.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
STARD3	10948	hgsc.bcm.edu	hg19	17	37814678	37814685	+	Frame_Shift_Del	DEL	TGGCTACC	TGGCTACC	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	TGGCTACC	TGGCTACC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	STARD3	NM_006804	exon6	c.449_456del	p.150_152del	.	.	50.0	14.0	46.0	0.0	.	33	.	0.28	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF826P	664701	hgsc.bcm.edu	hg19	19	20578766	20578768	+	RNA	DEL	TGA	TGA	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ZNF826P	.	.	.	.	.	.	78.0	15.0	77.0	0.0	.	5	.	0.192308	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC25A12	8604	hgsc.bcm.edu	hg19	2	172700922	172700937	+	Frame_Shift_Del	DEL	CGGTTATGCCCAAAAT	CGGTTATGCCCAAAAT	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	CGGTTATGCCCAAAAT	CGGTTATGCCCAAAAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SLC25A12	NM_003705	exon5	c.408_423del	p.136_141del	.	.	101.0	13.0	109.0	0.0	.	59	.	0.128713	0	none	.	.	PASS	Atlas-Indel,Pindel
CEP152	22995	hgsc.bcm.edu	hg19	15	49074426	49074426	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CEP152	NM_014985	exon11	c.1324delT	p.S442fs	.	.	30.0	10.0	27.0	0.0	.	145	.	0.333333	0	none	.	.	PASS	Atlas-INDEL
NFATC2	4773	hgsc.bcm.edu	hg19	20	50051812	50051813	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	NFATC2	NM_012340	exon8	c.1945_1946del	p.649_649del	.	.	84.0	25.0	69.0	0.0	.	112	.	0.297619	0	none	.	.	PASS	Atlas-Indel,Pindel
CACNA1A	773	hgsc.bcm.edu	hg19	19	13418985	13418985	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CACNA1A	NM_001127221	exon14	c.1866delC	p.F622fs	.	.	126.0	42.0	137.0	0.0	.	715	.	0.333333	0	none	.	.	PASS	Atlas-Indel,Pindel
GALNT6	11226	hgsc.bcm.edu	hg19	12	51758036	51758036	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	GALNT6	NM_007210	exon6	c.919delG	p.E307fs	.	.	110.0	35.0	98.0	0.0	.	63	.	0.318182	0	none	.	.	PASS	Atlas-Indel,Pindel
RGS6	9628	hgsc.bcm.edu	hg19	14	72939649	72939649	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	RGS6	NM_001204424	exon9	c.605delT	p.V202fs	.	.	150.0	70.0	197.0	0.0	.	92	.	0.466667	0	none	.	.	PASS	Atlas-Indel,Pindel
SMEK2	57223	hgsc.bcm.edu	hg19	2	55806886	55806886	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SMEK2	NM_001122964	exon9	c.1398delC	p.F466fs	.	.	67.0	21.0	78.0	0.0	.	86	.	0.313433	0	none	.	.	PASS	Atlas-Indel,Pindel
CSF3R	1441	hgsc.bcm.edu	hg19	1	36939407	36939408	+	In_Frame_Ins	INS	-	-	GTC	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CSF3R	NM_156039	exon5	c.443_444insGAC	p.P148delinsRP	.	.	76.0	25.0	79.0	0.0	.	157	.	0.328947	0	none	.	.	PASS	Atlas-Indel,Pindel
SCIN	85477	hgsc.bcm.edu	hg19	7	12680013	12680013	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	SCIN	NM_001112706	exon11	c.1451delG	p.S484fs	.	.	51.0	17.0	59.0	0.0	.	105	.	0.333333	0	none	.	.	PASS	Atlas-Indel,Pindel
CYP4X1	260293	hgsc.bcm.edu	hg19	1	47489659	47489659	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	CYP4X1	NM_178033	exon1	c.169delC	p.H57fs	.	.	79.0	25.0	77.0	0.0	.	58	.	0.316456	0	none	.	.	PASS	Atlas-Indel,Pindel
ARHGAP5	394	hgsc.bcm.edu	hg19	14	32560648	32560648	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	ARHGAP5	NM_001030055	exon2	c.772delT	p.Y258fs	.	.	167.0	85.0	279.0	0.0	.	166	.	0.508982	0	none	.	.	PASS	Atlas-Indel,Pindel
NPR2	4882	hgsc.bcm.edu	hg19	9	35800822	35800822	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B1-A655-01A-11D-A31Z-10	TCGA-B1-A655-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	10597e71-58d4-4013-97c4-efe9f0d395ea	4f069099-30a3-4559-b812-caa5ee9002f9	.	NPR2	NM_003995	exon6	c.1334delA	p.D445fs	.	.	82.0	21.0	60.0	0.0	.	162	.	0.256098	0	none	.	.	PASS	Atlas-Indel,Pindel
