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	17328590	17328590	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ATP13A2	NM_022089	exon8	c.T644G	p.I215S	CCGTAAATGGCCT	.	277.0	85.0	227.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
RPA2	6118	hgsc.bcm.edu	hg19	1	28240584	28240584	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	RPA2	NM_002946	exon2	c.A107C	p.E36A	TTCTTTTCGGCTT	.	99.0	27.0	97.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
DENND2C	163259	hgsc.bcm.edu	hg19	1	115143493	115143493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	DENND2C	NM_001256404	exon14	c.C1904T	p.A635V	CCAGGAGCTGGGA	.	116.0	28.0	136.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
RGL1	23179	hgsc.bcm.edu	hg19	1	183876147	183876147	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	RGL1	NM_015149	exon15	c.T1579G	p.Y527D	CTCAGCTATGCCC	.	63.0	17.0	59.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
EPCAM	4072	hgsc.bcm.edu	hg19	2	47601159	47601159	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	EPCAM	NM_002354	exon3	c.A397C	p.I133L	ACTGAAATAACCT	.	115.0	34.0	134.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
SMEK2	57223	hgsc.bcm.edu	hg19	2	55826141	55826141	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	SMEK2	NM_001122964	exon4	c.A332C	p.Q111P	AGGTCCTGTGTGA	.	50.0	11.0	29.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
STARD7	56910	hgsc.bcm.edu	hg19	2	96852507	96852507	+	Missense_Mutation	SNP	G	G	T	rs114169229	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	STARD7	NM_020151	exon8	c.C1074A	p.N358K	GCCCTCGTTCTTT	.	104.0	32.0	110.0	0.0	.	49	.	.	.	alt	G|0.998;A|0.002	.	PASS	Atlas-SNP
CCDC148	130940	hgsc.bcm.edu	hg19	2	159170296	159170296	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CCDC148	NM_138803	exon8	c.A875G	p.Y292C	GGAAAATATCTTT	.	99.0	32.0	68.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
SP3	6670	hgsc.bcm.edu	hg19	2	174829164	174829164	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	SP3	NM_001172712	exon2	c.A125G	p.N42S	GCACCGTTTCCGT	.	30.0	7.0	41.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFA10	4705	hgsc.bcm.edu	hg19	2	240954246	240954246	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NDUFA10	NM_004544	exon5	c.C579T	p.V193V	GATGGTGACGCTC	.	134.0	33.0	111.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
SETMAR	6419	hgsc.bcm.edu	hg19	3	4355443	4355443	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	SETMAR	NM_006515	exon2	c.G1018C	p.E340Q	ACCCTTGAGGTGA	.	91.0	29.0	76.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1D	776	hgsc.bcm.edu	hg19	3	53694259	53694259	+	Silent	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CACNA1D	NM_001128840	exon5	c.C723A	p.A241A	CCGTGCCTTTCGA	.	95.0	29.0	112.0	0.0	.	324	.	.	.	none	.	.	PASS	Atlas-SNP
QTRTD1	79691	hgsc.bcm.edu	hg19	3	113786834	113786834	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	QTRTD1	NM_001256835	exon4	c.G293A	p.G98D	ATACAGGCATGCC	.	71.0	24.0	74.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	hg19	3	123452791	123452791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MYLK	NM_053025	exon10	c.G1052A	p.R351K	TGAACTCTTGCGG	.	359.0	122.0	312.0	0.0	.	224	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	hg19	3	123663747	123663747	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CCDC14	NM_022757	exon8	c.A1313C	p.E438A	GCTATCTCAACTT	.	168.0	47.0	162.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	hg19	4	56841058	56841058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CEP135	NM_025009	exon11	c.C1396T	p.H466Y	CTCCAACATATAA	.	309.0	100.0	334.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
C4orf22	255119	hgsc.bcm.edu	hg19	4	81256926	81256926	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	C4orf22,NS,carcinoma,0,1	C4orf22	NM_152770	exon1	c.G4C	p.D2H	GCAATGGATCAGG	.	38.0	9.0	29.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
ELF2	1998	hgsc.bcm.edu	hg19	4	140046428	140046428	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ELF2	NM_201999	exon3	c.C128A	p.A43D	AATCTGGCACTTG	.	89.0	13.0	108.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	hg19	4	177098210	177098210	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	WDR17	NM_170710	exon29	c.C3568A	p.Q1190K	TTCAGTCAGCTAT	.	84.0	20.0	97.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
MLF1IP	79682	hgsc.bcm.edu	hg19	4	185637572	185637572	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MLF1IP	NM_024629	exon6	c.C597T	p.N199N	TGCCAAGTTCTCT	.	110.0	38.0	92.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA5A	9037	hgsc.bcm.edu	hg19	5	9052121	9052121	+	Silent	SNP	C	C	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	SEMA5A	NM_003966	exon20	c.G2709C	p.S903S	CCAGTCCGACCAC	.	142.0	48.0	140.0	0.0	.	236	.	.	.	none	.	.	PASS	Atlas-SNP
HTR1A	3350	hgsc.bcm.edu	hg19	5	63257506	63257506	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	HTR1A	NM_000524	exon1	c.C41A	p.S14X	GGTGGTGATGTGG	.	224.0	71.0	197.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT8	23176	hgsc.bcm.edu	hg19	5	132099512	132099512	+	Silent	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	SEPT8	NM_015146	exon4	c.C420A	p.R140R	GAGCGAGCGGCGG	.	126.0	36.0	109.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
NEU1	4758	hgsc.bcm.edu	hg19	6	31829963	31829963	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NEU1	NM_000434	exon2	c.G165A	p.Q55Q	CAGCGGCTGCACC	.	117.0	24.0	100.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51889838	51889838	+	Silent	SNP	G	G	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PKHD1	NM_170724	exon32	c.C4770G	p.L1590L	GGTCAAGAGGCTT	.	73.0	19.0	71.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
MB21D1	115004	hgsc.bcm.edu	hg19	6	74161674	74161674	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MB21D1	NM_138441	exon1	c.T231C	p.T77T	GGCCCCAGTTGCG	.	151.0	31.0	138.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
CD164	8763	hgsc.bcm.edu	hg19	6	109697298	109697298	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CD164	NM_006016	exon4	c.G349A	p.V117M	TTGGCACTGGAGT	.	39.0	11.0	58.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
STK17A	9263	hgsc.bcm.edu	hg19	7	43663376	43663376	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	STK17A	NM_004760	exon6	c.A809T	p.E270V	AACAAGAAACATT	.	71.0	17.0	65.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82465003	82465003	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PCLO	NM_014510	exon16	c.C14229T	p.V4743V	AACCATGACTTGA	.	97.0	29.0	139.0	0.0	.	1506	.	.	.	none	.	.	PASS	Atlas-SNP
TRPV6	55503	hgsc.bcm.edu	hg19	7	142574503	142574503	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	TRPV6	NM_018646	exon5	c.A575T	p.Q192L	GAGTCCTGGGCCC	.	92.0	27.0	84.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
ABP1	26	hgsc.bcm.edu	hg19	7	150554433	150554433	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ABP1	NM_001091	exon2	c.C875A	p.P292H	ACTTCCCCAGCCC	.	63.0	16.0	60.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
GFRA2	2675	hgsc.bcm.edu	hg19	8	21608372	21608372	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	GFRA2	NM_001495	exon4	c.C522A	p.C174X	CTTCTTGCAGTTG	.	164.0	59.0	156.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	hg19	8	23294697	23294697	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ENTPD4	NM_004901	exon10	c.A1124G	p.D375G	ATTTCATCTTTAA	.	155.0	49.0	136.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFB9	4715	hgsc.bcm.edu	hg19	8	125562081	125562081	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	NDUFB9,NS,carcinoma,0,1	NDUFB9	NM_005005	exon4	c.T488A	p.L163X	GTGATTTGCCCCC	.	120.0	38.0	91.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
NAPRT1	93100	hgsc.bcm.edu	hg19	8	144657205	144657205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NAPRT1	NM_145201	exon12	c.G1505A	p.S502N	AGTCGGCTCAGGG	.	198.0	63.0	146.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
PRSS3	5646	hgsc.bcm.edu	hg19	9	33797999	33797999	+	Missense_Mutation	SNP	A	A	G	rs142141488		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PRSS3	NM_007343	exon3	c.A544G	p.T182A	GTGTCCACCATCT	.	120.0	5.0	106.0	0.0	.	79	.	.	.	weak	.	.	PASS	Atlas-SNP
C9orf170	401535	hgsc.bcm.edu	hg19	9	89763782	89763782	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	C9orf170	NM_001001709	exon1	c.C137G	p.S46C	TGGCCTCCTGCTC	.	252.0	75.0	280.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
OGN	4969	hgsc.bcm.edu	hg19	9	95165578	95165578	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	OGN	NM_033014	exon2	c.T112C	p.F38L	CTTCAAAATTATC	.	118.0	35.0	107.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC8A	56262	hgsc.bcm.edu	hg19	9	131670150	131670150	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	LRRC8A	NM_001127244	exon3	c.A707T	p.E236V	AGAAGGAGGGGGA	.	158.0	14.0	157.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF438	220929	hgsc.bcm.edu	hg19	10	31138561	31138561	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ZNF438	NM_182755	exon7	c.A773C	p.K258T	TTAAATTTTTCAC	.	96.0	31.0	84.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
PANK1	53354	hgsc.bcm.edu	hg19	10	91404533	91404533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PANK1	NM_148977	exon1	c.C527T	p.P176L	TGGACTGGCGGCG	.	30.0	10.0	34.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
MXI1	4601	hgsc.bcm.edu	hg19	10	112044605	112044605	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MXI1	NM_130439	exon6	c.A748T	p.S250C	GTTGAAAGCACAG	.	87.0	27.0	79.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
HSPA12A	259217	hgsc.bcm.edu	hg19	10	118440687	118440687	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	HSPA12A	NM_025015	exon9	c.C1003A	p.L335I	CCTTAAGGTGTCC	.	66.0	4.0	79.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
NAP1L4	4676	hgsc.bcm.edu	hg19	11	2970489	2970489	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NAP1L4	NM_005969	exon15	c.A1128C	p.X376Y	CAAAAATTACACC	.	560.0	166.0	603.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
CLSTN3	9746	hgsc.bcm.edu	hg19	12	7303653	7303653	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CLSTN3	NM_014718	exon16	c.A2521T	p.N841Y	CACAGAAACTCCA	.	139.0	40.0	91.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
ACSM4	341392	hgsc.bcm.edu	hg19	12	7476144	7476144	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ACSM4	NM_001080454	exon9	c.C1296T	p.F432F	TTTCTTCTCTAAA	.	66.0	16.0	79.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	hg19	12	53069229	53069229	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	KRT1	NM_006121	exon9	c.C1683T	p.S561S	ACCTCCGGAGCCG	.	36.0	16.0	4.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
EEA1	8411	hgsc.bcm.edu	hg19	12	93210107	93210107	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	EEA1	NM_003566	exon15	c.G1798T	p.D600Y	CCTGGTCATGCAA	.	152.0	46.0	197.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	hg19	12	124846815	124846815	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NCOR2	NM_006312	exon24	c.G2957T	p.R986L	TCCTCCCGGGGGG	.	26.0	11.0	35.0	0.0	.	475	.	.	.	none	.	.	PASS	Atlas-SNP
FBRSL1	57666	hgsc.bcm.edu	hg19	12	133146786	133146786	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	FBRSL1	NM_001142641	exon7	c.G966A	p.A322A	CTTCGCGGGCCAC	.	23.0	6.0	8.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
METTL17	64745	hgsc.bcm.edu	hg19	14	21463350	21463350	+	Silent	SNP	T	T	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	METTL17	NM_022734	exon10	c.T903A	p.A301A	AAAAGCTGGGCAC	.	131.0	40.0	110.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
CHD8	57680	hgsc.bcm.edu	hg19	14	21868201	21868201	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CHD8	NM_001170629	exon24	c.T4756A	p.Y1586N	TCAGGTAGTATAG	.	126.0	36.0	127.0	0.0	.	339	.	.	.	none	.	.	PASS	Atlas-SNP
CHD8	57680	hgsc.bcm.edu	hg19	14	21868202	21868202	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CHD8	NM_001170629	exon24	c.C4755T	p.Y1585Y	CAGGTAGTATAGC	.	126.0	35.0	126.0	0.0	.	339	.	.	.	none	.	.	PASS	Atlas-SNP
WDHD1	11169	hgsc.bcm.edu	hg19	14	55451547	55451547	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	WDHD1	NM_007086	exon15	c.A1800G	p.G600G	TTGAACTCCAAGG	.	491.0	166.0	479.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
VRTN	55237	hgsc.bcm.edu	hg19	14	74825395	74825395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	VRTN	NM_018228	exon2	c.G1909A	p.D637N	GGCAGGGATGGCC	.	105.0	30.0	92.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
TJP1	7082	hgsc.bcm.edu	hg19	15	30001031	30001031	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	TJP1	NM_003257	exon25	c.A4582G	p.T1528A	TTGGTGTGAATCG	.	127.0	7.0	130.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	hg19	15	55930800	55930800	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PRTG	NM_173814	exon14	c.A2399G	p.D800G	AGCTGATCCACAT	.	133.0	47.0	151.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
CCNB2	9133	hgsc.bcm.edu	hg19	15	59417066	59417066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CCNB2	NM_004701	exon9	c.G1187A	p.G396E	TGATAGGAAGGTC	.	105.0	35.0	84.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	64047449	64047449	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	HERC1	NM_003922	exon6	c.G1609T	p.E537X	CTCCTTCACCCCA	.	90.0	20.0	128.0	0.0	.	624	.	.	.	none	.	.	PASS	Atlas-SNP
EME2	197342	hgsc.bcm.edu	hg19	16	1823724	1823724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	EME2	NM_001257370	exon2	c.G266A	p.G89D	ACGCCGGTGCCGA	.	263.0	121.0	160.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
GSPT1	2935	hgsc.bcm.edu	hg19	16	11980375	11980375	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	GSPT1	NM_002094	exon9	c.T1206C	p.L402L	TCCAGTAAGTCCT	.	244.0	55.0	199.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
ACSM2B	348158	hgsc.bcm.edu	hg19	16	20570646	20570646	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	ACSM2B,NS,carcinoma,0,1	ACSM2B	NM_182617	exon4	c.T301C	p.C101R	GGCCACAGGCTCC	.	150.0	81.0	130.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
EFNA2	1943	hgsc.bcm.edu	hg19	19	1299934	1299934	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	EFNA2	NM_001405	exon4	c.T632C	p.L211P	CCCTCCTGGGTTC	.	36.0	7.0	23.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9082415	9082415	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MUC16	NM_024690	exon1	c.A9400T	p.T3134S	TGGCTGTGGGTTC	.	197.0	67.0	164.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
ARRDC2	27106	hgsc.bcm.edu	hg19	19	18121498	18121498	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ARRDC2	NM_015683	exon7	c.T1130G	p.I377S	CCTACATCCAAGA	.	49.0	16.0	47.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	hg19	19	39224978	39224978	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	CAPN12	NM_144691	exon16	c.A1796G	p.Q599R	AGCAGCTGCTCAC	.	96.0	35.0	80.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF135	7694	hgsc.bcm.edu	hg19	19	58574844	58574844	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	ZNF135_ENST00000401053,NS,malignant_melanoma,0,2	ZNF135	NM_007134	exon3	c.C227G	p.S76C	TCATCTCCCTGCT	.	90.0	28.0	99.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	hg19	20	42315498	42315498	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MYBL2	NM_002466	exon5	c.G286T	p.E96X	GTCATCGAGCTGG	.	72.0	27.0	79.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	hg19	20	57767884	57767884	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ZNF831	NM_178457	exon1	c.G1810A	p.G604S	GCGGGCGGCAGGA	.	168.0	59.0	195.0	0.0	.	287	.	.	.	none	.	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765164	66765164	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	AR	NM_000044	exon1	c.A176T	p.Q59L	TGCAGCAGCAGCA	.	119.0	6.0	56.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765167	66765167	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	AR	NM_000044	exon1	c.A179T	p.Q60L	AGCAGCAGCAGCA	.	118.0	13.0	52.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
MST4	0	hgsc.bcm.edu	hg19	X	131207118	131207118	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MST4	NM_016542	exon11	c.A1223C	p.Q408P	AATTTCAAAAGTA	.	279.0	162.0	317.0	1.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9301	9301	+	Missense_Mutation	SNP	C	C	A	rs9700408	bycluster;byhapmap;alternate_allele	TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	.	ENST00000362079	exon1	c.C95A	p.A32D	GCCTAGCCATGTG	.	232.0	13.0	21.0	0.0	.	.	.	.	.	alt	G|1.000;|0.000	.	PASS	Atlas-SNP
NPBWR2	2832	hgsc.bcm.edu	hg19	20	62737462	62737473	+	In_Frame_Del	DEL	GGCCCGCAGCCT	GGCCCGCAGCCT	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	GGCCCGCAGCCT	GGCCCGCAGCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NPBWR2	NM_005286	exon1	c.713_724del	p.238_242del	.	.	65.0	14.0	57.0	0.0	.	36	.	0.215385	0	none	.	.	PASS	Atlas-Indel,Pindel
STAB1	23166	hgsc.bcm.edu	hg19	3	52539392	52539395	+	Frame_Shift_Del	DEL	CTGG	CTGG	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	CTGG	CTGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	STAB1	NM_015136	exon14	c.1575_1578del	p.525_526del	.	.	157.0	31.0	174.0	0.0	.	178	.	0.197452	0	none	.	.	PASS	Atlas-INDEL
GLB1L3	112937	hgsc.bcm.edu	hg19	11	134147653	134147653	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	GLB1L3	NM_001080407	exon3	c.208delA	p.T70fs	.	.	139.0	52.0	126.0	0.0	.	102	.	0.374101	0	none	.	.	PASS	Atlas-Indel,Pindel
NR3C1	2908	hgsc.bcm.edu	hg19	5	142675051	142675052	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NR3C1	NM_001024094	exon7	c.2000_2001del	p.667_667del	.	.	79.0	30.0	70.0	0.0	.	124	.	0.379747	0	none	.	.	PASS	Atlas-Indel,Pindel
VPS13C	54832	hgsc.bcm.edu	hg19	15	62221902	62221902	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	VPS13C	NM_020821	exon51	c.6085delG	p.D2029fs	.	.	91.0	33.0	84.0	0.0	.	506	.	0.362637	0	none	.	.	PASS	Atlas-Indel,Pindel
LPL	4023	hgsc.bcm.edu	hg19	8	19809403	19809405	+	In_Frame_Del	DEL	GCG	GCG	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	GCG	GCG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	LPL	NM_000237	exon3	c.372_374del	p.124_125del	.	.	159.0	52.0	143.0	0.0	.	78	.	0.327044	0	none	.	.	PASS	Atlas-Indel,Pindel
TEFM	79736	hgsc.bcm.edu	hg19	17	29226569	29226570	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	.	NM_024683	exon4	c.701_702insA	p.T234fs	.	.	192.0	56.0	186.0	0.0	.	.	.	0.291667	0	none	.	.	PASS	Atlas-Indel,Pindel
STAB1	23166	hgsc.bcm.edu	hg19	3	52539397	52539397	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	STAB1	NM_015136	exon14	c.1580delA	p.E527fs	.	.	151.0	31.0	171.0	0.0	.	178	.	0.205298	0	none	.	.	PASS	Atlas-INDEL
AHCTF1	25909	hgsc.bcm.edu	hg19	1	247070993	247070993	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	AHCTF1,colon,carcinoma,0,1	AHCTF1	NM_015446	exon5	c.652delC	p.R218fs	.	.	229.0	55.0	231.0	0.0	.	187	.	0.240175	0	none	.	.	PASS	Atlas-Indel,Pindel
NOS2	4843	hgsc.bcm.edu	hg19	17	26099337	26099346	+	Frame_Shift_Del	DEL	GGGGTTGAAG	GGGGTTGAAG	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	GGGGTTGAAG	GGGGTTGAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	NOS2	NM_000625	exon14	c.1693_1702del	p.565_568del	.	.	85.0	10.0	81.0	0.0	.	113	.	0.117647	0	none	.	.	PASS	Atlas-Indel,Pindel
PAN2	9924	hgsc.bcm.edu	hg19	12	56722345	56722360	+	Frame_Shift_Del	DEL	CTGCCGAATATCATCA	CTGCCGAATATCATCA	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	CTGCCGAATATCATCA	CTGCCGAATATCATCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	PAN2	NM_001127460	exon3	c.349_364del	p.117_122del	.	.	97.0	17.0	86.0	0.0	.	107	.	0.175258	0	none	.	.	PASS	Atlas-Indel,Pindel
MST4	0	hgsc.bcm.edu	hg19	X	131207114	131207114	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MST4	NM_016542	exon11	c.1218delA	p.K406fs	.	.	290.0	160.0	326.0	0.0	.	61	.	0.551724	0	none	.	.	PASS	Atlas-Indel,Pindel
MAN2A1	4124	hgsc.bcm.edu	hg19	5	109183439	109183439	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	MAN2A1	NM_002372	exon19	c.2923delA	p.I975fs	.	.	74.0	28.0	96.0	0.0	.	136	.	0.378378	0	none	.	.	PASS	Atlas-Indel,Pindel
ALKBH5	54890	hgsc.bcm.edu	hg19	17	18087657	18087680	+	In_Frame_Del	DEL	GCCGCAGCCGCCGTAGCCGCCGCA	GCCGCAGCCGCCGTAGCCGCCGCA	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	GCCGCAGCCGCCGTAGCCGCCGCA	GCCGCAGCCGCCGTAGCCGCCGCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	ALKBH5	NM_017758	exon1	c.99_122del	p.33_41del	.	.	53.0	10.0	57.0	0.0	.	24	.	0.189	.	none	.	.	PASS	Pindel
STAB1	23166	hgsc.bcm.edu	hg19	3	52539392	52539397	+	In_Frame_Del	DEL	CTGGAG	CTGGAG	-	novel		TCGA-5P-A9JW-01A-11D-A42J-10	TCGA-5P-A9JW-10A-01D-A42M-10	CTGGAG	CTGGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	82cf23e0-e687-4cf2-b83f-732ce4279056	d59804af-3375-4351-a1ef-125b05396a6f	.	STAB1	NM_015136	exon14	c.1575_1580del	p.525_527del	.	.	157.0	27.0	175.0	0.0	.	178	.	0.172	.	none	.	.	PASS	Pindel
