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
KLHL17	339451	hgsc.bcm.edu	hg19	1	898748	898748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	KLHL17	NM_198317	exon8	c.G1219A	p.E407K	ACCGTGGAGTCCT	.	177.0	124.0	166.0	1.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
CD1C	911	hgsc.bcm.edu	hg19	1	158261919	158261919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CD1C	NM_001765	exon3	c.G374A	p.G125E	ATTCTGGAAAGAG	.	192.0	89.0	154.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
SHCBP1L	81626	hgsc.bcm.edu	hg19	1	182898789	182898789	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SHCBP1L	NM_030933	exon6	c.C1175A	p.T392N	ATTTCAGTAGTCA	.	38.0	16.0	21.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	hg19	2	17847696	17847696	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SMC6	NM_001142286	exon27	c.A3152C	p.Q1051P	ATGCTTTGAGGTG	.	43.0	22.0	33.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179547441	179547441	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	TTN	NM_001267550	exon135	c.A33077C	p.H11026P	TCTTCATGCTCTT	.	107.0	55.0	82.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186671593	186671593	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FSIP2	NM_173651	exon17	c.C17827T	p.Q5943X	GGAAATCAGTTCC	.	90.0	23.0	65.0	0.0	.	251	.	.	.	none	.	.	PASS	Atlas-SNP
TNP1	7141	hgsc.bcm.edu	hg19	2	217724631	217724631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	TNP1,NS,carcinoma,0,1	TNP1	NM_003284	exon1	c.C127T	p.R43W	CGCCCCGTTTCCT	.	156.0	74.0	126.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
AGFG1	3267	hgsc.bcm.edu	hg19	2	228399580	228399580	+	Silent	SNP	C	C	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	AGFG1	NM_001135187	exon9	c.C1116G	p.G372G	AAGTGGCTTTGGG	.	218.0	130.0	186.0	1.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	hg19	2	235943690	235943690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SH3BP4	NM_014521	exon3	c.C44T	p.P15L	GCCTCCCTCGCTG	.	80.0	30.0	76.0	0.0	.	109	.	.	.	none	.	.	PASS	Atlas-SNP
GPR87	53836	hgsc.bcm.edu	hg19	3	151012432	151012432	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	GPR87	NM_023915	exon3	c.T602A	p.V201D	CATTTGACCCCCA	.	178.0	36.0	125.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	hg19	4	13602646	13602646	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	.	NM_148894	exon10	c.A5878C	p.S1960R	CTGCACTGGTCAC	.	152.0	14.0	114.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SLC10A4	201780	hgsc.bcm.edu	hg19	4	48485850	48485850	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SLC10A4	NM_152679	exon1	c.C272G	p.P91R	GGGCGCCCCACGC	.	34.0	10.0	2.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123260393	123260393	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	KIAA1109	NM_015312	exon70	c.T12182A	p.V4061E	TACCAGTATCAAG	.	121.0	66.0	115.0	0.0	.	424	.	.	.	none	.	.	PASS	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	hg19	4	183713663	183713663	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	.	NM_001080477	exon25	c.C5838T	p.V1946V	GAGGGTCTTATTC	.	206.0	69.0	149.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NKD2	85409	hgsc.bcm.edu	hg19	5	1033498	1033498	+	Missense_Mutation	SNP	G	G	A	rs144426465	bycluster	TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	NKD2	NM_001271082	exon5	c.G214A	p.A72T	CTCCCCGCTGAGA	.	226.0	51.0	90.0	0.0	.	39	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
DEPDC1B	55789	hgsc.bcm.edu	hg19	5	59893587	59893587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	DEPDC1B,NS,carcinoma,-1,1	DEPDC1B	NM_018369	exon11	c.G1583A	p.R528Q	TACATTCGAAAAC	.	77.0	21.0	71.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
AP3B1	8546	hgsc.bcm.edu	hg19	5	77521385	77521385	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	AP3B1	NM_003664	exon6	c.T584G	p.L195R	TTCAGAAGTTTTT	.	88.0	54.0	46.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
IK	3550	hgsc.bcm.edu	hg19	5	140037217	140037217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	IK	NM_006083	exon10	c.C880T	p.R294C	GGAACCCGTAACA	.	269.0	59.0	203.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
FAM65B	9750	hgsc.bcm.edu	hg19	6	24836059	24836059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FAM65B	NM_014722	exon16	c.G2143A	p.E715K	GCGCTTCACTGAG	.	252.0	75.0	170.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	hg19	6	26056096	26056096	+	Silent	SNP	T	T	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	HIST1H1C	NM_005319	exon1	c.A561G	p.K187K	AGCACTTTTGGCA	.	143.0	12.0	95.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SLC26A5	375611	hgsc.bcm.edu	hg19	7	103050896	103050896	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SLC26A5	NM_206883	exon7	c.C671G	p.S224C	AACATGGAGGTGA	.	83.0	26.0	86.0	0.0	.	231	.	.	.	none	.	.	PASS	Atlas-SNP
STAU2	27067	hgsc.bcm.edu	hg19	8	74464271	74464271	+	Silent	SNP	A	A	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	STAU2	NM_001164380	exon13	c.T1506C	p.Y502Y	TGCTAAATATTCC	.	143.0	61.0	152.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
OR13F1	138805	hgsc.bcm.edu	hg19	9	107267461	107267461	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	OR13F1	NM_001004485	exon1	c.T918G	p.I306M	GCTGATTAGAAAT	.	44.0	18.0	69.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	hg19	9	131379924	131379924	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SPTAN1	NM_001130438	exon42	c.A5363G	p.K1788R	GGGAGAAGAAGCT	.	143.0	50.0	118.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	hg19	9	140710514	140710514	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	EHMT1	NM_024757	exon23	c.G3374A	p.R1125K	GTCTCAGGTGAGA	.	67.0	35.0	57.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	17169853	17169853	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CUBN	NM_001081	exon3	c.G323T	p.S108I	ATTTGACTAGATA	.	39.0	19.0	58.0	0.0	.	515	.	.	.	none	.	.	PASS	Atlas-SNP
SLC25A28	81894	hgsc.bcm.edu	hg19	10	101370968	101370968	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SLC25A28	NM_031212	exon4	c.A733T	p.T245S	CATAGGTCATGAA	.	137.0	44.0	185.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
VAX1	11023	hgsc.bcm.edu	hg19	10	118893699	118893699	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	VAX1	NM_001112704	exon3	c.G825A	p.L275L	CACCGGCAGGCTG	.	15.0	8.0	7.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	hg19	11	2798240	2798240	+	Silent	SNP	C	C	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	KCNQ1	NM_000218	exon14	c.C1710G	p.P570P	GAAGCCCTCACTG	.	185.0	53.0	142.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
KCNA4	3739	hgsc.bcm.edu	hg19	11	30032894	30032894	+	Silent	SNP	T	T	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	KCNA4	NM_002233	exon2	c.A1332G	p.R444R	AATGATTCTGAGG	.	104.0	30.0	71.0	0.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
C12orf39	80763	hgsc.bcm.edu	hg19	12	21680692	21680692	+	Silent	SNP	G	G	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	C12orf39	NM_030572	exon4	c.G177C	p.R59R	GAGCCGGAGAAAG	.	215.0	158.0	203.0	1.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49436945	49436945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	MLL2	NM_003482	exon25	c.C5558T	p.A1853V	GGGGATGCCTTCA	.	104.0	8.0	96.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
PABPC3	5042	hgsc.bcm.edu	hg19	13	25671122	25671122	+	Silent	SNP	C	C	T	rs79072440	bycluster	TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PABPC3	NM_030979	exon1	c.C786T	p.Y262Y	AATTTACGTTGGT	.	196.0	12.0	134.0	0.0	.	129	.	.	.	weak	C|0.500;T|0.500	0.500	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	hg19	14	23886422	23886422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	MYH7	NM_000257	exon32	c.G4459A	p.A1487T	CATAGGCGTTCTT	.	83.0	34.0	97.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
ABHD12B	145447	hgsc.bcm.edu	hg19	14	51368558	51368558	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ABHD12B	NM_001206673	exon10	c.C792T	p.N264N	CCGGAACATTCCA	.	68.0	45.0	108.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
MPP5	64398	hgsc.bcm.edu	hg19	14	67787027	67787027	+	Silent	SNP	T	T	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	MPP5	NM_022474	exon12	c.T1450C	p.L484L	ATCATCTTGATTG	.	40.0	30.0	47.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
YLPM1	56252	hgsc.bcm.edu	hg19	14	75248111	75248111	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	YLPM1	NM_019589	exon4	c.G1365A	p.W455X	AGAATGGGAGCGA	.	166.0	124.0	197.0	0.0	.	298	.	.	.	none	.	.	PASS	Atlas-SNP
CATSPERB	79820	hgsc.bcm.edu	hg19	14	92195753	92195753	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CATSPERB	NM_024764	exon2	c.A71G	p.Y24C	TTATTATATACTA	.	152.0	68.0	173.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	hg19	15	40913801	40913801	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CASC5	NM_170589	exon11	c.A1417T	p.R473X	AATATGAGAGAGG	.	146.0	57.0	184.0	0.0	.	269	.	.	.	none	.	.	PASS	Atlas-SNP
RNF111	54778	hgsc.bcm.edu	hg19	15	59344604	59344604	+	Missense_Mutation	SNP	G	G	T	rs137923008	byfrequency;alternate_allele	TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	RNF111	NM_017610	exon3	c.G981T	p.E327D	AGTGGAGATTGTA	.	61.0	23.0	74.0	0.0	.	179	.	.	.	alt	G|0.998;A|0.002	.	PASS	Atlas-SNP
VPS13C	54832	hgsc.bcm.edu	hg19	15	62155703	62155703	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	VPS13C	NM_020821	exon82	c.G10888T	p.E3630X	AAGTCTCTCCTTC	.	115.0	41.0	151.0	0.0	.	506	.	.	.	none	.	.	PASS	Atlas-SNP
PIAS1	8554	hgsc.bcm.edu	hg19	15	68434644	68434644	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PIAS1	NM_016166	exon4	c.A571G	p.K191E	GGGACCAAATGTG	.	150.0	55.0	131.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
IL16	3603	hgsc.bcm.edu	hg19	15	81517938	81517938	+	Silent	SNP	A	A	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	IL16	NM_001172128	exon2	c.A198G	p.T66T	AGACACATCGGAG	.	116.0	29.0	127.0	0.0	.	254	.	.	.	none	.	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	hg19	15	89856164	89856164	+	Silent	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FANCI	NM_001113378	exon35	c.A3681T	p.G1227G	TACGGGAGAGAAA	.	51.0	21.0	61.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
FAHD1	81889	hgsc.bcm.edu	hg19	16	1877593	1877593	+	Silent	SNP	G	G	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FAHD1	NM_031208	exon1	c.G363T	p.L121L	GACTCTGGCGAAG	.	273.0	39.0	114.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
CMTM4	146223	hgsc.bcm.edu	hg19	16	66670440	66670440	+	Silent	SNP	T	T	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CMTM4	NM_178818	exon2	c.A231T	p.A77A	GGAGCATGCCATG	.	95.0	5.0	120.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
PRDM7	11105	hgsc.bcm.edu	hg19	16	90127007	90127007	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PRDM7	NM_001098173	exon9	c.T975A	p.D325E	CTCTTCATCATCC	.	210.0	119.0	343.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
SHPK	23729	hgsc.bcm.edu	hg19	17	3514081	3514081	+	Silent	SNP	G	G	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SHPK	NM_013276	exon7	c.C1210A	p.R404R	TGCCTCGGCACAG	.	169.0	99.0	126.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
P2RX1	5023	hgsc.bcm.edu	hg19	17	3808622	3808622	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	P2RX1	NM_002558	exon2	c.C177G	p.S59R	GAGGCCGCTCGAG	.	117.0	31.0	99.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	hg19	17	18023902	18023902	+	Silent	SNP	G	G	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	MYO15A	NM_016239	exon2	c.G1788C	p.R596R	GGCCCGGGCGGGC	.	88.0	4.0	12.0	0.0	.	268	.	.	.	none	.	.	PASS	Atlas-SNP
TP53I13	90313	hgsc.bcm.edu	hg19	17	27899239	27899239	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	TP53I13	NM_138349	exon6	c.C593G	p.S198C	AGCCCTCTTCTAG	.	37.0	15.0	32.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	hg19	17	29220519	29220519	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ATAD5	NM_024857	exon21	c.A4648T	p.K1550X	GCTAGGAAACACT	.	93.0	54.0	70.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
AZI1	22994	hgsc.bcm.edu	hg19	17	79166615	79166615	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	AZI1	NM_014984	exon19	c.T2350A	p.W784R	GCGCCCACTGCTC	.	97.0	4.0	3.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
PIEZO2	63895	hgsc.bcm.edu	hg19	18	10691260	10691260	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	.	NM_022068	exon44	c.A6973T	p.K2325X	AGCTCTTGGTGAG	.	272.0	76.0	194.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
RBBP8	5932	hgsc.bcm.edu	hg19	18	20606136	20606136	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	RBBP8_ENST00000399725,NS,carcinoma,0,2	RBBP8	NM_002894	exon19	c.C2627G	p.P876R	CTTGTCCTCGTCC	.	305.0	78.0	232.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	hg19	19	1481811	1481811	+	Missense_Mutation	SNP	G	G	A	rs377189780	alternate_allele	TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PCSK4	NM_017573	exon15	c.C2215T	p.R739C	TGGCACGGGAGAG	.	104.0	12.0	75.0	0.0	.	44	.	.	.	alt	.	.	PASS	Atlas-SNP
NRTN	4902	hgsc.bcm.edu	hg19	19	5827909	5827909	+	Missense_Mutation	SNP	G	G	A	rs375707068		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	NRTN	NM_004558	exon2	c.G319A	p.E107K	CTGCGCGAGCTGG	.	9.0	8.0	0.0	0.0	.	4	.	.	.	weak	.	.	PASS	Atlas-SNP
TBCB	1155	hgsc.bcm.edu	hg19	19	36606539	36606539	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	TBCB	NM_001281	exon1	c.A77T	p.K26M	CCGAGAAGCGATA	.	159.0	72.0	98.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
FBL	2091	hgsc.bcm.edu	hg19	19	40330915	40330915	+	Silent	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FBL	NM_001436	exon4	c.C336T	p.V112V	CCCAGGGACCAGG	.	93.0	26.0	172.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
KLK5	25818	hgsc.bcm.edu	hg19	19	51451945	51451945	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	KLK5	NM_012427	exon5	c.A677C	p.D226A	GTGTCATCTATCT	.	114.0	53.0	138.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	hg19	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532	bycluster	TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ZNF814	NM_001144989	exon3	c.G965A	p.R322K	TAAGGTCTTTTCC	.	86.0	16.0	86.0	0.0	.	93	.	.	.	weak	C|0.500;T|0.500	0.500	PASS	Atlas-SNP
PCSK2	5126	hgsc.bcm.edu	hg19	20	17417493	17417493	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PCSK2	NM_002594	exon8	c.C850T	p.L284F	CGGGAGCTCACGC	.	174.0	65.0	81.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
BPIFB1	92747	hgsc.bcm.edu	hg19	20	31892698	31892698	+	Splice_Site	SNP	G	G	A	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	.	NM_033197	exon13	c.1254+1G>A	.	TTCCAAGTAAGTG	.	201.0	73.0	98.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MYT1	4661	hgsc.bcm.edu	hg19	20	62859303	62859303	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	MYT1	NM_004535	exon18	c.A2654T	p.K885M	ACGACAAGGAGGA	.	213.0	82.0	141.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	hg19	22	22869192	22869192	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ZNF280A	NM_080740	exon2	c.A763G	p.I255V	TTGAAATGTCTGT	.	121.0	100.0	129.0	1.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
CSF2RA	1438	hgsc.bcm.edu	hg19	X	1407702	1407702	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	CSF2RA	NM_172247	exon4	c.G394T	p.D132Y	AATGCGGATTTAA	.	389.0	127.0	282.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
NAA10	8260	hgsc.bcm.edu	hg19	X	153198018	153198018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	NAA10	NM_001256119	exon4	c.G199A	p.V67M	GGGGCACATCATC	.	87.0	32.0	51.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	hg19	X	153700940	153700940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PLXNA3	NM_017514	exon33	c.C5528T	p.T1843M	TTCTCACGGCTCT	.	205.0	178.0	137.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
SSFA2	6744	hgsc.bcm.edu	hg19	2	182765617	182765618	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SSFA2	NM_001130445	exon7	c.698_699insT	p.N233fs	.	.	84.0	19.0	69.0	0.0	.	130	.	0.22619	0	none	.	.	PASS	Atlas-Indel,Pindel
SETD2	29072	hgsc.bcm.edu	hg19	3	47098859	47098859	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SETD2	NM_014159	exon15	c.6416delA	p.Q2139fs	.	.	112.0	83.0	164.0	0.0	.	721	.	0.741071	0	none	.	.	PASS	Atlas-INDEL
ITGA6	3655	hgsc.bcm.edu	hg19	2	173352476	173352476	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ITGA6	NM_000210	exon17	c.2264delT	p.L755X	.	.	73.0	14.0	81.0	0.0	.	171	.	0.191781	0	none	.	.	PASS	Atlas-Indel,Pindel
SENP5	205564	hgsc.bcm.edu	hg19	3	196612951	196612952	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SENP5	NM_152699	exon2	c.899_900insT	p.S300fs	.	.	94.0	46.0	72.0	0.0	.	68	.	0.489362	0	none	.	.	PASS	Atlas-Indel,Pindel
PDS5A	23244	hgsc.bcm.edu	hg19	4	39851206	39851213	+	Frame_Shift_Del	DEL	CTTCATAA	CTTCATAA	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	CTTCATAA	CTTCATAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PDS5A	NM_001100399	exon27	c.3147_3154del	p.1049_1052del	.	.	82.0	23.0	95.0	0.0	.	114	.	0.280488	0	none	.	.	PASS	Atlas-INDEL
SERF1A	8293	hgsc.bcm.edu	hg19	5	70196698	70196698	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	.	NM_021967	exon1	c.1delA	p.M1fs	.	.	307.0	48.0	119.0	0.0	.	.	.	0.156352	0	none	.	.	PASS	Atlas-INDEL
TRIM44	54765	hgsc.bcm.edu	hg19	11	35684955	35684956	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	TRIM44	NM_017583	exon1	c.296_297insT	p.S99fs	.	.	253.0	66.0	174.0	0.0	.	29	.	0.26087	0	none	.	.	PASS	Atlas-Indel,Pindel
ARMC8	25852	hgsc.bcm.edu	hg19	3	137964017	137964040	+	Frame_Shift_Del	DEL	CGGAAGAAGGTGAGTCTGGGAGAG	CGGAAGAAGGTGAGTCTGGGAGAG	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	CGGAAGAAGGTGAGTCTGGGAGAG	CGGAAGAAGGTGAGTCTGGGAGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	ARMC8	NM_015396	exon13	c.1083_1092del	p.361_364del	.	.	139.0	22.0	147.0	0.0	.	79	.	0.158273	0	none	.	.	PASS	Atlas-Indel,Pindel
PSIP1	11168	hgsc.bcm.edu	hg19	9	15468982	15468982	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PSIP1	NM_001128217	exon13	c.1180delA	p.T394fs	.	.	51.0	28.0	99.0	0.0	.	93	.	0.54902	0	none	.	.	PASS	Atlas-Indel,Pindel
FGGY	55277	hgsc.bcm.edu	hg19	1	60019871	60019884	+	Frame_Shift_Del	DEL	TCTGTGGAACGTCT	TCTGTGGAACGTCT	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	TCTGTGGAACGTCT	TCTGTGGAACGTCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	FGGY	NM_001113411	exon8	c.874_887del	p.292_296del	.	.	157.0	48.0	236.0	0.0	.	99	.	0.306	.	none	.	.	PASS	Pindel
SETD2	29072	hgsc.bcm.edu	hg19	3	47098859	47098860	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	SETD2	NM_014159	exon15	c.6415_6416del	p.2139_2139del	.	.	114.0	48.0	163.0	0.0	.	721	.	0.421	.	none	.	.	PASS	Pindel
PDS5A	23244	hgsc.bcm.edu	hg19	4	39851206	39851214	+	In_Frame_Del	DEL	CTTCATAAA	CTTCATAAA	-	novel		TCGA-A4-A5Y1-01A-11D-A28G-10	TCGA-A4-A5Y1-11A-11D-A28G-10	CTTCATAAA	CTTCATAAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	39eb3bc2-c190-47cb-b9c7-20278d7e1692	2eeacc32-d82b-4e45-908f-19cb21710b93	.	PDS5A	NM_001100399	exon27	c.3146_3154del	p.1049_1052del	.	.	86.0	11.0	93.0	0.0	.	114	.	0.128	.	none	.	.	PASS	Pindel
