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
CPSF3L	54973	hgsc.bcm.edu	hg19	1	1248497	1248497	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	CPSF3L	NM_001256456	exon13	c.T1067C	p.M356T	CCGGGCATGATGA	.	31.0	12.0	37.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
PLCH2	9651	hgsc.bcm.edu	hg19	1	2430213	2430213	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	PLCH2	NM_014638	exon18	c.A2380G	p.I794V	GAGATCATTGGGC	.	31.0	14.0	39.0	0.0	.	131	.	.	.	none	.	.	PASS	Atlas-SNP
HMGB4	127540	hgsc.bcm.edu	hg19	1	34329977	34329977	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	HMGB4	NM_145205	exon2	c.C185T	p.A62V	ATGAAGCCCTGGC	.	133.0	55.0	189.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
SSBP3	23648	hgsc.bcm.edu	hg19	1	54870254	54870254	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	SSBP3	NM_145716	exon3	c.G186A	p.W62X	CCACCACCACGAG	.	68.0	19.0	149.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
COLGALT2	23127	hgsc.bcm.edu	hg19	1	183944269	183944269	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	NM_015101	exon3	c.C454G	p.L152V	TTCGAAGGGCTGC	.	99.0	35.0	150.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	186083139	186083139	+	Silent	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	HMCN1	NM_031935	exon73	c.G11160A	p.Q3720Q	CCCCCAGAGCCTT	.	208.0	69.0	278.0	0.0	.	797	.	.	.	none	.	.	PASS	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	hg19	2	109109239	109109239	+	Silent	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	GCC2	NM_181453	exon19	c.C4440T	p.T1480T	ACCGACCACAAGA	.	45.0	21.0	73.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179611391	179611391	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	TTN	NM_133379	exon46	c.C15736G	p.Q5246E	CTTTTTGAATGTT	.	92.0	40.0	63.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
GPR1	2825	hgsc.bcm.edu	hg19	2	207040930	207040930	+	Silent	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	GPR1,NS,carcinoma,0,1	GPR1	NM_001098199	exon3	c.C1042T	p.L348L	GACACAGATTCTT	.	46.0	17.0	63.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
RBM44	375316	hgsc.bcm.edu	hg19	2	238722326	238722326	+	Splice_Site	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	RBM44	NM_001080504	exon2	c.76+1G>T	.	AAAAAGGTAAGGG	.	31.0	16.0	51.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
RAD54L2	23132	hgsc.bcm.edu	hg19	3	51697207	51697207	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	RAD54L2	NM_015106	exon22	c.C4175G	p.S1392C	TCCTGTCCGAGCC	.	123.0	48.0	183.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MITF	4286	hgsc.bcm.edu	hg19	3	69928532	69928532	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	MITF	NM_198159	exon2	c.A352T	p.K118X	GTCCTTAAGGTAC	.	35.0	19.0	35.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
NXPE3	91775	hgsc.bcm.edu	hg19	3	101520832	101520832	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	NM_145037	exon5	c.A847T	p.S283C	TTCCAGAGGTATG	.	174.0	65.0	233.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
AP2M1	1173	hgsc.bcm.edu	hg19	3	183898969	183898969	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	AP2M1	NM_001025205	exon6	c.T656C	p.V219A	AGATTGTTATTGA	.	197.0	87.0	257.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
FIP1L1	81608	hgsc.bcm.edu	hg19	4	54266007	54266007	+	Splice_Site	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	FIP1L1	NM_001134938	exon8	c.701+1G>C	.	GAGCAGGTTAGTT	.	76.0	31.0	142.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
PLRG1	5356	hgsc.bcm.edu	hg19	4	155465648	155465648	+	Silent	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.,1	PLRG1	NM_002669	exon7	c.A543G	p.K181K	AGGGGCTTTTTTA	.	66.0	25.0	97.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	hg19	5	95761622	95761622	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	PCSK1	NM_000439	exon3	c.G298C	p.E100Q	GTTGTTCAGCCCA	.	40.0	16.0	50.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	hg19	5	156590018	156590018	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	FAM71B	NM_130899	exon2	c.C1258G	p.P420A	CACTGGGCTGGGA	.	113.0	54.0	137.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
DDO	8528	hgsc.bcm.edu	hg19	6	110734538	110734538	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DDO	NM_004032	exon2	c.C212T	p.T71I	TCACTGGTGGTAT	.	125.0	53.0	207.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152631610	152631610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	SYNE1_ENST00000265368,caecum,carcinoma,0,2	SYNE1	NM_182961	exon89	c.C16940T	p.A5647V	TCCAAGGCAGCTT	.	50.0	19.0	86.0	0.0	.	3227	.	.	.	none	.	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	hg19	7	5568977	5568977	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ACTB	NM_001101	exon3	c.A178G	p.S60G	TCTTGCTCTGGGC	.	178.0	97.0	181.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
ANKMY2	57037	hgsc.bcm.edu	hg19	7	16650259	16650259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ANKMY2	NM_020319	exon6	c.A661G	p.K221E	GCATCTTCATAGC	.	74.0	35.0	94.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
ANKMY2	57037	hgsc.bcm.edu	hg19	7	16650260	16650260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ANKMY2	NM_020319	exon6	c.G660A	p.M220I	CATCTTCATAGCC	.	73.0	34.0	96.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82584714	82584714	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	PCLO	NM_014510	exon5	c.A5555T	p.H1852L	GATCTATGGAGCT	.	202.0	67.0	159.0	0.0	.	1506	.	.	.	none	.	.	PASS	Atlas-SNP
WDR91	29062	hgsc.bcm.edu	hg19	7	134871027	134871027	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	WDR91	NM_014149	exon15	c.T2120A	p.L707Q	CCACCTAGGCTCA	.	69.0	36.0	50.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ZC2HC1A	51101	hgsc.bcm.edu	hg19	8	79578395	79578395	+	Silent	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	NM_016010	exon1	c.G12C	p.L4L	GGGACTGGAAGGT	.	10.0	6.0	2.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
EFR3A	23167	hgsc.bcm.edu	hg19	8	132968018	132968018	+	Silent	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	EFR3A	NM_015137	exon7	c.C642T	p.R214R	TAGTCGCATAGGC	.	86.0	26.0	112.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
USP20	10868	hgsc.bcm.edu	hg19	9	132623219	132623219	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	USP20	NM_001008563	exon7	c.T334C	p.S112P	CAGGACTCCCCGC	.	219.0	72.0	394.0	1.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
AKR1C3	8644	hgsc.bcm.edu	hg19	10	5139704	5139704	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	AKR1C3	NM_001253908	exon3	c.G331C	p.V111L	GACTATGTTGACC	.	89.0	40.0	96.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
TACR2	6865	hgsc.bcm.edu	hg19	10	71175766	71175766	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	TACR2	NM_001057	exon1	c.T314A	p.F105Y	TAGCAGAAGGCAC	.	43.0	19.0	53.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL17	63875	hgsc.bcm.edu	hg19	11	6703594	6703594	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	MRPL17	NM_022061	exon3	c.C283T	p.P95S	ACCGAGGGGCCAG	.	141.0	48.0	197.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
DCDC5	100506627	hgsc.bcm.edu	hg19	11	30902745	30902745	+	Silent	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DCDC5	NM_020869	exon18	c.C2505A	p.V835V	ACAGATGACCATA	.	56.0	25.0	61.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
FDXACB1	91893	hgsc.bcm.edu	hg19	11	111749725	111749725	+	Silent	SNP	A	A	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	FDXACB1	NM_138378	exon1	c.T132C	p.D44D	CAGTGGATCCCGA	.	25.0	11.0	28.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
GUCY2C	2984	hgsc.bcm.edu	hg19	12	14772233	14772233	+	Silent	SNP	A	A	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	GUCY2C	NM_004963	exon24	c.T2787G	p.A929A	TCCAGCAGCACAG	.	91.0	29.0	82.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
CNTN1	1272	hgsc.bcm.edu	hg19	12	41316146	41316146	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	CNTN1,NS,carcinoma,0,1	CNTN1	NM_001256063	exon5	c.C316T	p.Q106X	GACAAACAGAAAG	.	84.0	38.0	69.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
KIF5A	3798	hgsc.bcm.edu	hg19	12	57975209	57975209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	KIF5A	NM_004984	exon25	c.C2767T	p.R923W	CCCGTCCGGCCTG	.	125.0	50.0	150.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	hg19	12	78604234	78604234	+	Silent	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	NAV3	NM_014903	exon39	c.C7029T	p.C2343C	AAGCTGCGACAGC	.	71.0	26.0	59.0	0.0	.	506	.	.	.	none	.	.	PASS	Atlas-SNP
TBX5	6910	hgsc.bcm.edu	hg19	12	114793542	114793542	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	TBX5,NS,carcinoma,0,1	TBX5	NM_000192	exon9	c.G1352C	p.G451A	CCCTCTCCCAGCT	.	43.0	2.0	41.0	0.0	.	188	.	.	.	none	.	.	PASS	Atlas-SNP
KCTD4	386618	hgsc.bcm.edu	hg19	13	45768535	45768535	+	Silent	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	KCTD4	NM_198404	exon2	c.C168T	p.D56D	GAAAGTGTCTGGG	.	182.0	55.0	288.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
NEMF	9147	hgsc.bcm.edu	hg19	14	50256253	50256253	+	Silent	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	NEMF	NM_004713	exon27	c.G2658A	p.Q886Q	TTCATCCTGGTCT	.	63.0	17.0	89.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
VRK1	7443	hgsc.bcm.edu	hg19	14	97321567	97321567	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	VRK1	NM_003384	exon8	c.T583A	p.L195M	GTGTACTTGGTAG	.	105.0	46.0	134.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
DUOX1	53905	hgsc.bcm.edu	hg19	15	45456067	45456067	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DUOX1	NM_017434	exon34	c.G4484T	p.R1495L	TTGGCCGTCCCCC	.	132.0	56.0	212.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
DUOX1	53905	hgsc.bcm.edu	hg19	15	45456068	45456068	+	Silent	SNP	T	T	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DUOX1	NM_017434	exon34	c.T4485A	p.R1495R	TGGCCGTCCCCCC	.	134.0	58.0	213.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF609	23060	hgsc.bcm.edu	hg19	15	64791991	64791991	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ZNF609	NM_015042	exon1	c.T373C	p.S125P	GGGCGCTCAGGAG	.	62.0	18.0	54.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
CLCN7	1186	hgsc.bcm.edu	hg19	16	1505793	1505793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	CLCN7	NM_001287	exon11	c.G920A	p.G307E	AGGACCCCACCTG	.	73.0	43.0	63.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT1	1731	hgsc.bcm.edu	hg19	16	30393873	30393873	+	Silent	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	SEPT1	NM_052838	exon2	c.A117G	p.A39A	TGCACCTGCCGTC	.	11.0	7.0	12.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR3	55027	hgsc.bcm.edu	hg19	16	50112741	50112741	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	HEATR3	NM_182922	exon7	c.G853T	p.G285X	GTTTTGGGAATGG	.	91.0	5.0	75.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
CIAPIN1	57019	hgsc.bcm.edu	hg19	16	57463170	57463170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	CIAPIN1	NM_020313	exon9	c.G851A	p.R284H	GCACAGCGGAAGG	.	73.0	38.0	83.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	hg19	17	7727461	7727461	+	Missense_Mutation	SNP	G	G	A	rs368019673		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DNAH2	NM_020877	exon75	c.G11501A	p.R3834Q	CCCCACGATCCCC	.	205.0	26.0	180.0	0.0	.	498	.	.	.	weak	.	.	PASS	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	hg19	17	28407885	28407885	+	Silent	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	EFCAB5	NM_198529	exon17	c.G3312C	p.L1104L	ATTCCTGGCTCTG	.	63.0	24.0	82.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
HELZ	9931	hgsc.bcm.edu	hg19	17	65214853	65214853	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	HELZ	NM_014877	exon4	c.A68C	p.E23A	GCCATTTCATAGT	.	142.0	34.0	120.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
COG1	9382	hgsc.bcm.edu	hg19	17	71199203	71199203	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	COG1	NM_018714	exon8	c.C2138A	p.A713D	CCACAGCCACCAG	.	87.0	58.0	83.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
FDXR	2232	hgsc.bcm.edu	hg19	17	72861043	72861043	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	FDXR	NM_001258012	exon7	c.T749G	p.I250S	TTCGTGATGTCCG	.	102.0	54.0	80.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SLC26A11	284129	hgsc.bcm.edu	hg19	17	78197109	78197109	+	Silent	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	SLC26A11	NM_173626	exon5	c.C486G	p.A162A	TGCTGCCGTCACC	.	82.0	4.0	84.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
EMILIN2	84034	hgsc.bcm.edu	hg19	18	2913257	2913257	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	EMILIN2	NM_032048	exon8	c.G3017T	p.G1006V	GCCCGGGGGCATT	.	49.0	13.0	76.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC178	374864	hgsc.bcm.edu	hg19	18	30926327	30926327	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	NM_001105528	exon8	c.A506G	p.E169G	ATGGCCTCTGAGA	.	83.0	26.0	79.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9059472	9059472	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	MUC16	NM_024690	exon3	c.C27974A	p.A9325D	GAGATGGCTTCTG	.	143.0	69.0	199.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF317	57693	hgsc.bcm.edu	hg19	19	9271676	9271676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ZNF317	NM_020933	exon7	c.G1355A	p.G452E	TCTGCGGGAAAGC	.	58.0	20.0	67.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	hg19	19	13996869	13996869	+	Splice_Site	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	C19orf57	NM_024323	exon8	c.1669-1G>C	.	AAAGAGCTGGAAA	.	58.0	21.0	58.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
CD22	933	hgsc.bcm.edu	hg19	19	35828752	35828752	+	Silent	SNP	C	C	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	CD22	NM_001185100	exon5	c.C813T	p.N271N	CAGCAACCCGGAG	.	77.0	32.0	107.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
SCAF1	58506	hgsc.bcm.edu	hg19	19	50161552	50161552	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	SCAF1	NM_021228	exon11	c.A3835C	p.K1279Q	TTCCGCAAGCACG	.	20.0	10.0	28.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	hg19	19	55144006	55144006	+	Silent	SNP	C	C	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	LILRB1	NM_001081637	exon6	c.C753A	p.G251G	TGCTGGCTACAAC	.	110.0	44.0	173.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF543	125919	hgsc.bcm.edu	hg19	19	57839968	57839968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ZNF543	NM_213598	exon4	c.G1138A	p.A380T	GAGAGTGCAGACC	.	83.0	35.0	119.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF335	63925	hgsc.bcm.edu	hg19	20	44578919	44578919	+	Silent	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ZNF335	NM_022095	exon22	c.C3426G	p.T1142T	GGTCTGGGTAGGG	.	97.0	30.0	133.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
PARD6B	84612	hgsc.bcm.edu	hg19	20	49366295	49366295	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	PARD6B,NS,carcinoma,0,1	PARD6B	NM_032521	exon3	c.A389G	p.H130R	AGCCACATATAGT	.	48.0	16.0	77.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
GAL3ST1	9514	hgsc.bcm.edu	hg19	22	30951203	30951203	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	GAL3ST1	NM_004861	exon4	c.G1009C	p.A337P	CGTTGGCATGGCG	.	25.0	13.0	23.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	hg19	22	37914027	37914027	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	CARD10	NM_014550	exon2	c.C324G	p.F108L	CAGCGTGAAGTGT	.	60.0	13.0	93.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	14102	14102	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	ENST00000361567	exon1	c.T1766C	p.L589P	ACTTCCTCTCTTT	.	152.0	74.0	8.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
BAI3	577	hgsc.bcm.edu	hg19	6	69666026	69666027	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	BAI3	NM_001704	exon7	c.1306_1307insA	p.E436fs	.	.	53.0	22.0	37.0	0.0	.	451	.	0.415094	0	none	.	.	PASS	Atlas-INDEL
MANSC1	54682	hgsc.bcm.edu	hg19	12	12483592	12483592	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	MANSC1	NM_018050	exon4	c.666delT	p.N222fs	.	.	109.0	37.0	107.0	0.0	.	38	.	0.33945	0	none	.	.	PASS	Atlas-INDEL
LIX1L	128077	hgsc.bcm.edu	hg19	1	145497429	145497430	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	LIX1L	NM_153713	exon4	c.634_635insT	p.I212fs	.	.	44.0	15.0	58.0	0.0	.	28	.	0.340909	0	none	.	.	PASS	Atlas-INDEL
ABCB9	23457	hgsc.bcm.edu	hg19	12	123429030	123429030	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ABCB9	NM_001243014	exon7	c.1289delA	p.Y430fs	.	.	180.0	58.0	210.0	0.0	.	50	.	0.322222	0	none	.	.	PASS	Atlas-INDEL
KDM6A	7403	hgsc.bcm.edu	hg19	X	44870257	44870257	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	KDM6A	NM_021140	exon5	c.435delA	p.A145fs	.	.	20.0	13.0	35.0	0.0	.	274	.	0.65	0	none	.	.	PASS	Atlas-INDEL
RMDN3	55177	hgsc.bcm.edu	hg19	15	41037304	41037305	+	Frame_Shift_Ins	INS	-	-	GCACT	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	.	NM_018145	exon5	c.678_679insAGTGC	p.A226fs	.	.	61.0	16.0	114.0	0.0	.	.	.	0.262295	0	none	.	.	PASS	Atlas-INDEL
DUOX1	53905	hgsc.bcm.edu	hg19	15	45453182	45453182	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	DUOX1	NM_175940	exon29	c.3849delG	p.L1283fs	.	.	61.0	22.0	67.0	0.0	.	125	.	0.360656	0	none	.	.	PASS	Atlas-INDEL
KRT32	3882	hgsc.bcm.edu	hg19	17	39622089	39622090	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	KRT32	NM_002278	exon3	c.644_645insG	p.D215fs	.	.	146.0	85.0	120.0	0.0	.	57	.	0.582192	0	none	.	.	PASS	Atlas-INDEL
EXOC3L2	90332	hgsc.bcm.edu	hg19	19	45720794	45720794	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	EXOC3L2	NM_138568	exon8	c.812delG	p.R271fs	.	.	19.0	10.0	28.0	0.0	.	30	.	0.526316	0	none	.	.	PASS	Atlas-INDEL
ABL2	27	hgsc.bcm.edu	hg19	1	179087902	179087902	+	Splice_Site	DEL	A	A	-	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ABL2	NM_001168237	exon8	c.1046-2T>-	.	.	.	98.0	37.0	182.0	0.0	.	307	.	0.377551	0	none	.	.	PASS	Atlas-INDEL
ITGB4	3691	hgsc.bcm.edu	hg19	17	73752854	73752855	+	In_Frame_Ins	INS	-	-	GCTGCA	novel		TCGA-A4-7584-01A-11D-2136-08	TCGA-A4-7584-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a4f7bf60-293b-44c8-a121-1d8b2c590f78	969e0233-3df2-44b1-a37c-f056f8c5ba97	.	ITGB4	NM_000213	exon37	c.4967_4968insGCTGCA	p.S1656delinsSLQ	.	.	137.0	35.0	166.0	0.0	.	165	.	0.255474	0	none	.	.	PASS	Atlas-INDEL