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
RALGPS2	55103	hgsc.bcm.edu	hg19	1	178863074	178863074	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	RALGPS2	NM_152663	exon16	c.T1346A	p.L449X	AAGATTTGGCAGT	.	54.0	18.0	62.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf53	339779	hgsc.bcm.edu	hg19	2	27360426	27360426	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	C2orf53	NM_178553	exon3	c.C772T	p.P258S	TGCGGGGCCGGAG	.	173.0	50.0	156.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
DPP10	57628	hgsc.bcm.edu	hg19	2	116593770	116593770	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	DPP10	NM_001178034	exon22	c.C2000A	p.S667X	TAAAATCAGATGA	.	125.0	30.0	146.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
NOP58	51602	hgsc.bcm.edu	hg19	2	203165004	203165004	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	NOP58	NM_015934	exon13	c.G1316C	p.C439S	CAACCTGTTCTAA	.	554.0	177.0	468.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
TOPAZ1	375337	hgsc.bcm.edu	hg19	3	44369747	44369747	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_001145030	exon19	c.C4681G	p.L1561V	GGTGCTCTTTCCT	.	115.0	49.0	98.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	hg19	3	140409996	140409996	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	TRIM42	NM_152616	exon4	c.A2047C	p.N683H	GCCATCAATGATA	.	118.0	30.0	118.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	hg19	3	184042785	184042785	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	EIF4G1	NM_001194946	exon19	c.G2760A	p.E920E	AACAGAGGCAATA	.	67.0	25.0	71.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
NKX3-2	579	hgsc.bcm.edu	hg19	4	13543692	13543692	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	NKX3-2	NM_001189	exon2	c.C927T	p.P309P	GTAGGAGGGCTGC	.	335.0	90.0	280.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
RUFY3	22902	hgsc.bcm.edu	hg19	4	71660584	71660584	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	RUFY3	NM_001037442	exon14	c.G1530A	p.R510R	AGGAAGGGGTTCC	.	137.0	49.0	126.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
HNRPDL	9987	hgsc.bcm.edu	hg19	4	83350614	83350614	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	HNRPDL	NM_031372	exon1	c.G230C	p.G77A	CGCCCTCCCTTTA	.	87.0	32.0	68.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
NNT	23530	hgsc.bcm.edu	hg19	5	43613093	43613093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	NNT	NM_182977	exon3	c.G235A	p.V79I	GCTGGTGTTCAGA	.	126.0	54.0	132.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
CSF1R	1436	hgsc.bcm.edu	hg19	5	149459890	149459890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	CSF1R	NM_005211	exon4	c.G317A	p.R106Q	CAGGGCCGGGCAG	.	67.0	5.0	49.0	0.0	.	250	.	.	.	none	.	.	PASS	Atlas-SNP
CLPSL2	389383	hgsc.bcm.edu	hg19	6	35745347	35745347	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_207409	exon2	c.T196C	p.C66R	ATGATCTGCTTGC	.	70.0	19.0	73.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A7	10864	hgsc.bcm.edu	hg19	6	43268946	43268946	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	SLC22A7	NM_153320	exon5	c.T901C	p.C301R	CTCCACTGTGCCA	.	47.0	20.0	35.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152589267	152589267	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	SYNE1	NM_182961	exon100	c.C18739A	p.L6247I	GAAGGAGACTCTT	.	87.0	30.0	83.0	0.0	.	3227	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJB9	4189	hgsc.bcm.edu	hg19	7	108213747	108213747	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	DNAJB9	NM_012328	exon3	c.C622T	p.Q208X	GTCACTCAACGAA	.	74.0	36.0	46.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SGK223	0	hgsc.bcm.edu	hg19	8	8234618	8234618	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_001080826	exon2	c.C1301A	p.A434E	GCAGCTGCATGTT	.	54.0	15.0	42.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ECD	11319	hgsc.bcm.edu	hg19	10	74920311	74920311	+	Splice_Site	SNP	T	T	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ECD	NM_001135753	exon4	c.206-2A>C	.	ACCTCCTAAAAAC	.	204.0	49.0	175.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	hg19	10	121586617	121586617	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	INPP5F	NM_014937	exon20	c.T2724C	p.L908L	GTCTCTTAGCAGC	.	51.0	14.0	60.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
AP2A2	161	hgsc.bcm.edu	hg19	11	977190	977190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	AP2A2	NM_012305	exon5	c.C569T	p.S190F	GGACATCCCGAGT	.	80.0	21.0	53.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
CSNK2A3	283106	hgsc.bcm.edu	hg19	11	11373596	11373596	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_001256686	exon1	c.A1071G	p.S357S	TGGCACTGAAGAA	.	111.0	26.0	109.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TPH1	7166	hgsc.bcm.edu	hg19	11	18051107	18051107	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	TPH1	NM_004179	exon4	c.A422G	p.Y141C	TTACGGTAGACAT	.	54.0	10.0	54.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF259	8882	hgsc.bcm.edu	hg19	11	116655623	116655623	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ZNF259	NM_003904	exon8	c.C768T	p.S256S	GTTTGTGCTGAAC	.	94.0	38.0	98.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	hg19	12	668503	668503	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	B4GALNT3	NM_173593	exon19	c.A2804T	p.K935M	TCTACAAGTCTGA	.	117.0	30.0	125.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
C2CD5	9847	hgsc.bcm.edu	hg19	12	22606969	22606969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_014802	exon24	c.G2732T	p.G911V	CTGACTCCTCCTT	.	60.0	16.0	49.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KRT84	3890	hgsc.bcm.edu	hg19	12	52776299	52776299	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	KRT84	NM_033045	exon4	c.C834T	p.F278F	GTTCATGAAAGCT	.	61.0	16.0	45.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
OR4E2	26686	hgsc.bcm.edu	hg19	14	22133689	22133689	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	OR4E2	NM_001001912	exon1	c.C393T	p.H131H	ACTCCACTACCCC	.	56.0	18.0	60.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
G2E3	55632	hgsc.bcm.edu	hg19	14	31085631	31085631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	G2E3	NM_017769	exon15	c.C2012T	p.A671V	GTTTAGCAATTCC	.	139.0	44.0	150.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
BTBD7	55727	hgsc.bcm.edu	hg19	14	93761032	93761032	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	BTBD7	NM_018167	exon3	c.A334C	p.K112Q	GCTCCTTTAATGC	.	71.0	19.0	80.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
FAM98B	283742	hgsc.bcm.edu	hg19	15	38776827	38776827	+	Silent	SNP	T	T	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	FAM98B_ENST00000397609,NS,carcinoma,0,1	FAM98B	NM_173611	exon8	c.T1269A	p.G423G	TGGTGGTGGTGGT	.	80.0	10.0	78.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
TGFB1I1	7041	hgsc.bcm.edu	hg19	16	31488254	31488254	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	TGFB1I1	NM_001042454	exon10	c.G1042T	p.G348C	TGCCAGGGCTGCC	.	44.0	26.0	43.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
COG4	25839	hgsc.bcm.edu	hg19	16	70543137	70543137	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	COG4	NM_015386	exon7	c.G999A	p.Q333Q	CACCTGCTGGTGG	.	97.0	47.0	47.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
METTL16	79066	hgsc.bcm.edu	hg19	17	2405596	2405596	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	METTL16	NM_024086	exon2	c.A30C	p.R10S	TCTATTTCTTGCA	.	72.0	31.0	57.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	hg19	17	8438748	8438748	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	MYH10	NM_001256012	exon16	c.G1851A	p.L617L	CTGGTGCAAAAGG	.	85.0	47.0	67.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	hg19	17	17697096	17697096	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	RAI1	NM_030665	exon3	c.G834C	p.Q278H	TGACCAGCAGCAG	.	82.0	6.0	45.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP23	57636	hgsc.bcm.edu	hg19	17	36623021	36623021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ARHGAP23	NM_001199417	exon7	c.G1097T	p.G366V	CACTGGGGCCAGG	.	113.0	57.0	85.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	hg19	17	39274461	39274461	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	KRTAP4-11	NM_033059	exon1	c.G107C	p.R36T	GTGGTCCTGCAGC	.	71.0	10.0	54.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
TOM1L1	10040	hgsc.bcm.edu	hg19	17	52990171	52990171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	TOM1L1	NM_005486	exon4	c.A367G	p.I123V	AATTTCATTAAGG	.	74.0	8.0	71.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	hg19	17	56670954	56670954	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	TEX14	NM_001201457	exon15	c.G2556T	p.K852N	ACTGTCCTTGGCT	.	152.0	35.0	109.0	0.0	.	343	.	.	.	none	.	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	hg19	18	2729383	2729383	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	SMCHD1	NM_015295	exon24	c.G3024A	p.T1008T	CCAGACGCTTAAA	.	65.0	23.0	57.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
C18orf8	29919	hgsc.bcm.edu	hg19	18	21106695	21106695	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	C18orf8	NM_013326	exon13	c.A1155C	p.E385D	AAAGGAATGCAAG	.	61.0	22.0	55.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF562	54811	hgsc.bcm.edu	hg19	19	9763811	9763811	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ZNF562	NM_001130032	exon6	c.T1095C	p.N365N	AGTGTGATTTCGT	.	84.0	27.0	69.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
AP2S1	1175	hgsc.bcm.edu	hg19	19	47341743	47341743	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	AP2S1	NM_004069	exon5	c.G390A	p.K130K	CAGCACCTTCGTC	.	96.0	35.0	88.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
ACSS1	84532	hgsc.bcm.edu	hg19	20	25004243	25004243	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ACSS1	NM_001252677	exon4	c.A666G	p.G222G	CCGGAGTCCTTGG	.	57.0	21.0	24.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
CCM2L	140706	hgsc.bcm.edu	hg19	20	30602782	30602782	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	.	NM_080625	exon2	c.C106T	p.R36C	GTGAGCCGCCGGC	.	113.0	42.0	89.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MAPK1	5594	hgsc.bcm.edu	hg19	22	22160189	22160189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	MAPK1	NM_002745	exon3	c.C442T	p.R148C	GGTCACGGTGCAG	.	116.0	37.0	113.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PRR14L	253143	hgsc.bcm.edu	hg19	22	32108919	32108919	+	Silent	SNP	T	T	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	PRR14L	NM_173566	exon4	c.A4906C	p.R1636R	GGTATCTTAGCTT	.	110.0	41.0	92.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
CXorf23	256643	hgsc.bcm.edu	hg19	X	19973668	19973668	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	CXorf23	NM_198279	exon4	c.T1291G	p.S431A	CTGTGGAATAGCT	.	18.0	12.0	24.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
HTATSF1	27336	hgsc.bcm.edu	hg19	X	135593689	135593689	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	HTATSF1	NM_001163280	exon10	c.T1785G	p.N595K	AGAAAATGACTCT	.	154.0	111.0	133.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
PKN3	29941	hgsc.bcm.edu	hg19	9	131477092	131477093	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	PKN3,neck,malignant_melanoma,0,1	PKN3	NM_013355	exon13	c.1600_1601insAT	p.H534fs	.	.	144.0	41.0	136.0	0.0	.	62	.	0.284722	0	none	.	.	PASS	Atlas-Indel,Pindel
C19orf18	147685	hgsc.bcm.edu	hg19	19	58472818	58472818	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	C19orf18	NM_152474	exon5	c.474delT	p.G158fs	.	.	81.0	25.0	62.0	0.0	.	27	.	0.308642	0	none	.	.	PASS	Atlas-Indel,Pindel
LRP2	4036	hgsc.bcm.edu	hg19	2	169999196	169999197	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	LRP2	NM_004525	exon71	c.13096_13097insT	p.E4366_C4367delinsX	.	.	56.0	18.0	53.0	0.0	.	751	.	0.321429	0	none	.	.	PASS	Atlas-Indel,Pindel
ECD	11319	hgsc.bcm.edu	hg19	10	74920304	74920308	+	Frame_Shift_Del	DEL	CACCT	CACCT	-	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	CACCT	CACCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ECD	NM_001135752	exon3	c.208_212del	p.70_71del	.	.	210.0	48.0	182.0	0.0	.	50	.	0.228571	0	none	.	.	PASS	Atlas-INDEL
HMGCS2	3158	hgsc.bcm.edu	hg19	1	120301769	120301769	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	HMGCS2	NM_005518	exon4	c.823delA	p.K275fs	.	.	92.0	23.0	100.0	0.0	.	58	.	0.25	0	none	.	.	PASS	Atlas-Indel,Pindel
ECD	11319	hgsc.bcm.edu	hg19	10	74920305	74920311	+	In_Frame_Del	DEL	ACCTCCT	ACCTCCT	-	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	ACCTCCT	ACCTCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	ECD	NM_001135752	exon3	c.206_211del	p.69_71del	.	.	205.0	34.0	179.0	0.0	.	50	.	0.166	.	none	.	.	PASS	Pindel
SP8	221833	hgsc.bcm.edu	hg19	7	20824939	20825106	+	In_Frame_Del	DEL	GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC	GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC	-	novel		TCGA-5P-A9K6-01A-11D-A42J-10	TCGA-5P-A9K6-10A-01D-A42M-10	GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC	GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1f41aab4-303b-428a-ac0c-df760be57c3e	22f09e94-5687-4bdb-bf4b-f54d47a940ea	.	SP8	NM_182700	exon2	c.331_498del	p.111_166del	.	.	99.0	10.0	50.0	0.0	.	43	.	0.101	.	none	.	.	PASS	Pindel
