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
PRDM16	63976	hgsc.bcm.edu	hg19	1	3322089	3322089	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PRDM16	NM_022114	exon8	c.C1063A	p.H355N	CAGCGGCACATCC	.	75.0	19.0	87.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
TNFRSF8	943	hgsc.bcm.edu	hg19	1	12169703	12169703	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TNFRSF8	NM_001243	exon5	c.G502C	p.E168Q	TGCAAGGAACCCT	.	51.0	13.0	74.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	hg19	1	27056261	27056261	+	Silent	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ARID1A	NM_006015	exon2	c.G1257T	p.G419G	CCCAGGGCAGCCA	.	240.0	63.0	246.0	0.0	.	842	.	.	.	none	.	.	PASS	Atlas-SNP
DAB1	1600	hgsc.bcm.edu	hg19	1	57610985	57610985	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	DAB1	NM_021080	exon5	c.A185G	p.Q62R	GAATCTTGACATA	.	106.0	27.0	136.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	hg19	1	115428830	115428830	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	SYCP1,NS,malignant_melanoma,0,2	SYCP1	NM_003176	exon14	c.G1090C	p.E364Q	CAAATGGAAGAAT	.	121.0	34.0	112.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf110	339512	hgsc.bcm.edu	hg19	1	162825494	162825494	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	C1orf110	NM_178550	exon3	c.G242C	p.R81T	TCTGGTCTCTTCT	.	220.0	52.0	224.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
TROVE2	6738	hgsc.bcm.edu	hg19	1	193038376	193038376	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	TROVE2,NS,carcinoma,0,1	TROVE2	NM_004600	exon2	c.G192T	p.L64F	TAGATTGATTGAA	.	141.0	21.0	136.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225230800	225230800	+	Silent	SNP	T	T	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	DNAH14	NM_001373	exon13	c.T1752G	p.L584L	CAATCTTGAAGAT	.	65.0	20.0	62.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
PYCR2	29920	hgsc.bcm.edu	hg19	1	226111423	226111423	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PYCR2	NM_013328	exon2	c.T116C	p.L39P	GTGGGCAGGTTCA	.	87.0	20.0	78.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
GRHL1	29841	hgsc.bcm.edu	hg19	2	10139100	10139100	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GRHL1	NM_198182	exon15	c.A1685G	p.D562G	TCTCAGACAAATA	.	141.0	8.0	160.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
ATL2	64225	hgsc.bcm.edu	hg19	2	38527436	38527436	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ATL2	NM_001135673	exon10	c.C1106G	p.P369R	GGATGTGGAAGTT	.	38.0	11.0	41.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHH2	130271	hgsc.bcm.edu	hg19	2	43937155	43937155	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	PLEKHH2,NS,carcinoma,0,1	PLEKHH2	NM_172069	exon12	c.G1993A	p.E665K	GCTTCTGAAAGTG	.	308.0	82.0	323.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf73	129852	hgsc.bcm.edu	hg19	2	54587567	54587567	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	C2orf73	NM_001100396	exon5	c.A732T	p.R244S	CGTCAGACAGGCA	.	123.0	25.0	112.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
AFTPH	54812	hgsc.bcm.edu	hg19	2	64779245	64779245	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	AFTPH	NM_017657	exon2	c.A637G	p.S213G	CCTCTTAGCACTC	.	89.0	22.0	81.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
SH2D6	284948	hgsc.bcm.edu	hg19	2	85662170	85662170	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SH2D6	NM_198482	exon1	c.A92C	p.N31T	AGCTCAATAATCT	.	194.0	46.0	257.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
ANAPC1	64682	hgsc.bcm.edu	hg19	2	112638235	112638235	+	Silent	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ANAPC1	NM_022662	exon2	c.C168A	p.G56G	CACCAAGCCAGCA	.	267.0	75.0	272.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	hg19	2	160746833	160746833	+	Silent	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LY75	NM_002349	exon4	c.A693G	p.Q231Q	ATTAAATTGGTAG	.	105.0	12.0	115.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
HOXD4	3233	hgsc.bcm.edu	hg19	2	177017568	177017568	+	Silent	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	HOXD4	NM_014621	exon2	c.A666T	p.S222S	CAGGTCATCGTCC	.	94.0	19.0	94.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	hg19	2	179300994	179300994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PRKRA	NM_003690	exon7	c.C662T	p.S221F	CCAGGAGAATTCC	.	77.0	14.0	68.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179455837	179455837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TTN	NM_001267550	exon304	c.A60615G	p.I20205M	ATAATTTATCACA	.	149.0	35.0	181.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	hg19	3	38101345	38101345	+	Splice_Site	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	DLEC1	NM_007337	exon3	c.673+2T>A	.	TAAAGGTAATGCT	.	79.0	12.0	88.0	0.0	.	278	.	.	.	none	.	.	PASS	Atlas-SNP
FAM19A4	151647	hgsc.bcm.edu	hg19	3	68929968	68929968	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	FAM19A4	NM_182522	exon3	c.C43A	p.L15M	GCGACAGCAACAC	.	141.0	8.0	103.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
ABI3BP	25890	hgsc.bcm.edu	hg19	3	100470405	100470405	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ABI3BP	NM_015429	exon34	c.A3103G	p.I1035V	CTTTGATTGGTAA	.	116.0	21.0	94.0	0.0	.	305	.	.	.	none	.	.	PASS	Atlas-SNP
TRPC1	7220	hgsc.bcm.edu	hg19	3	142443574	142443574	+	Splice_Site	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TRPC1	NM_003304	exon1	c.172+1G>A	.	ACAAGGGTGAGAG	.	63.0	23.0	45.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
ETV5	2119	hgsc.bcm.edu	hg19	3	185774898	185774898	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	ETV5_ENST00000306376,NS,carcinoma,0,2	ETV5	NM_004454	exon11	c.G1175T	p.R392L	ATGCCTCGACCTG	.	94.0	33.0	81.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	hg19	3	191092937	191092937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CCDC50	NM_178335	exon6	c.C535T	p.H179Y	GTGAAGCACAAGA	.	84.0	14.0	84.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
MSANTD1	345222	hgsc.bcm.edu	hg19	4	3254938	3254938	+	Silent	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	MSANTD1	NM_001042690	exon2	c.T325C	p.L109L	AGGAAATTAAAAT	.	70.0	12.0	86.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
CDH9	1007	hgsc.bcm.edu	hg19	5	26988254	26988254	+	Missense_Mutation	SNP	A	A	T	rs144749356	alternate_allele	TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CDH9	NM_016279	exon2	c.T187A	p.L63M	CTTCCAATAAGAA	.	137.0	50.0	147.0	0.0	.	305	.	.	.	alt	A|1.000;G|0.000	.	PASS	Atlas-SNP
GABRG2	2566	hgsc.bcm.edu	hg19	5	161524860	161524860	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GABRG2	NM_198904	exon4	c.C544G	p.L182V	TACACCCTAAGGT	.	65.0	7.0	47.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	hg19	6	32014119	32014119	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TNXB	NM_019105	exon31	c.T10433C	p.V3478A	TGGACCACGAAGG	.	57.0	12.0	57.0	0.0	.	553	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38976613	38976613	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	DNAH8	NM_001206927	exon89	c.C13238A	p.A4413D	CTTCTGCTGTTCT	.	132.0	31.0	129.0	0.0	.	1239	.	.	.	none	.	.	PASS	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	hg19	6	43250879	43250879	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TTBK1	NM_032538	exon14	c.C2401T	p.Q801X	CGGAGCCAGGAGG	.	103.0	20.0	94.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
SCML4	256380	hgsc.bcm.edu	hg19	6	108093476	108093476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SCML4	NM_198081	exon2	c.C56T	p.T19M	ATAGGCGTGGAGT	.	115.0	18.0	113.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	hg19	6	136599311	136599311	+	Silent	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	BCLAF1	NM_014739	exon4	c.T708C	p.P236P	CTGACTAGGTGGT	.	109.0	17.0	98.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
CNKSR3	154043	hgsc.bcm.edu	hg19	6	154771340	154771340	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CNKSR3	NM_173515	exon2	c.C105T	p.I35I	GCCGTTGATCTTC	.	78.0	23.0	87.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
EIF3B	8662	hgsc.bcm.edu	hg19	7	2409282	2409282	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	EIF3B	NM_001037283	exon10	c.T1579A	p.C527S	TACTTGTGTGTGA	.	95.0	19.0	95.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
CDK14	5218	hgsc.bcm.edu	hg19	7	90547017	90547017	+	Silent	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CDK14	NM_012395	exon7	c.G750T	p.G250G	CACGGGGGAGTTA	.	118.0	9.0	129.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	hg19	8	33364813	33364813	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	.	NM_001265581	exon4	c.C861T	p.N287N	GGCTCTGTTATAC	.	167.0	39.0	166.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SOX17	64321	hgsc.bcm.edu	hg19	8	55370847	55370847	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SOX17	NM_022454	exon1	c.C149G	p.A50G	CGCCGGCGAACAG	.	41.0	9.0	33.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
RPS20	6224	hgsc.bcm.edu	hg19	8	56986652	56986652	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	RPS20	NM_001146227	exon2	c.C70A	p.L24I	TTGTTAGGGTGAT	.	29.0	11.0	31.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
CRISPLD1	83690	hgsc.bcm.edu	hg19	8	75925137	75925137	+	Silent	SNP	G	G	A	rs369100451		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	CRISPLD1,NS,carcinoma,0,1	CRISPLD1	NM_031461	exon4	c.G390A	p.P130P	GCCCCCGACGTTT	.	89.0	17.0	105.0	2.0	.	94	.	.	.	weak	.	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	hg19	9	5081774	5081774	+	Silent	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	JAK2	NM_004972	exon19	c.T2484A	p.G828G	GATAGGTGCCCTG	.	122.0	25.0	105.0	0.0	.	35466	.	.	.	none	.	.	PASS	Atlas-SNP
DAB2IP	153090	hgsc.bcm.edu	hg19	9	124526156	124526156	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	DAB2IP	NM_032552	exon8	c.C1374T	p.Y458Y	CTCCTACTGGTCA	.	77.0	22.0	80.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	hg19	9	130485525	130485525	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TTC16	NM_144965	exon7	c.C785A	p.A262D	TCCTGGCTGTGCA	.	45.0	12.0	57.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
QRFP	347148	hgsc.bcm.edu	hg19	9	133768991	133768991	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	QRFP	NM_198180	exon1	c.A235T	p.R79X	GCTCTCTGCCCGA	.	84.0	20.0	79.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	hg19	10	7683994	7683994	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ITIH5	NM_001001851	exon3	c.C195T	p.A65A	AGTGAAGGCATAA	.	143.0	11.0	161.0	0.0	.	343	.	.	.	none	.	.	PASS	Atlas-SNP
SLC16A9	220963	hgsc.bcm.edu	hg19	10	61424076	61424076	+	Silent	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SLC16A9	NM_194298	exon4	c.T345C	p.L115L	ACATCCAAGACCT	.	64.0	19.0	71.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
POLR3A	11128	hgsc.bcm.edu	hg19	10	79744981	79744981	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	POLR3A	NM_007055	exon24	c.C3189T	p.I1063I	CAGGGTGATGTTC	.	75.0	18.0	51.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf76	79591	hgsc.bcm.edu	hg19	10	103769138	103769138	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	C10orf76	NM_024541	exon13	c.T947G	p.L316X	TGAGCTAATACTG	.	79.0	16.0	73.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
SEC23IP	11196	hgsc.bcm.edu	hg19	10	121689138	121689138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SEC23IP	NM_007190	exon14	c.C2333T	p.S778L	ACAACTCATTAGA	.	174.0	38.0	162.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
RIC8A	60626	hgsc.bcm.edu	hg19	11	209732	209732	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	RIC8A	NM_021932	exon3	c.A458G	p.E153G	ACCGTGAGAGGAG	.	53.0	13.0	54.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	hg19	11	6891542	6891542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	OR10A2	NM_001004460	exon1	c.C557T	p.A186V	TCTACGCCATCGT	.	126.0	28.0	158.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	hg19	11	12244191	12244191	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	MICAL2	NM_014632	exon11	c.G1350A	p.Q450Q	ACCTCAGACAACC	.	34.0	10.0	34.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	hg19	11	55798423	55798423	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	OR5AS1	NM_001001921	exon1	c.T529G	p.F177V	AATCATTTTTTCT	.	241.0	56.0	240.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	hg19	11	56344355	56344355	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	OR5M10	NM_001004741	exon1	c.G843T	p.L281F	TGGGCTCAAAAAA	.	250.0	47.0	244.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
FAM111B	374393	hgsc.bcm.edu	hg19	11	58893342	58893342	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	FAM111B	NM_198947	exon4	c.C1772A	p.T591N	GTTGTACTGTGAT	.	143.0	35.0	132.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM132A	54972	hgsc.bcm.edu	hg19	11	60704300	60704300	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TMEM132A	NM_017870	exon11	c.G2996C	p.R999P	ACATCCGCTGGGT	.	46.0	12.0	36.0	0.0	.	135	.	.	.	none	.	.	PASS	Atlas-SNP
CPT1A	1374	hgsc.bcm.edu	hg19	11	68571538	68571538	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CPT1A	NM_001876	exon5	c.C485A	p.P162H	AACATGGGTTTTC	.	88.0	18.0	62.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
PCF11	51585	hgsc.bcm.edu	hg19	11	82877674	82877674	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PCF11	NM_015885	exon5	c.A1735G	p.T579A	TCAGGCACTGAAC	.	83.0	16.0	80.0	0.0	.	220	.	.	.	none	.	.	PASS	Atlas-SNP
GPD1	2819	hgsc.bcm.edu	hg19	12	50500627	50500627	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GPD1	NM_005276	exon5	c.T539C	p.L180P	AAGAGCTGATGCA	.	50.0	11.0	32.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
PCBP2	5094	hgsc.bcm.edu	hg19	12	53848614	53848614	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PCBP2	NM_005016	exon2	c.A30C	p.L10F	TGGATTAAATGTC	.	109.0	26.0	110.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PAN2	9924	hgsc.bcm.edu	hg19	12	56720418	56720418	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PAN2	NM_014871	exon7	c.C1245T	p.N415N	AGCAGAGTTGGCA	.	66.0	23.0	70.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57548432	57548432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LRP1	NM_002332	exon8	c.A1175G	p.E392G	ATATTGAAGTGGT	.	62.0	18.0	68.0	0.0	.	428	.	.	.	none	.	.	PASS	Atlas-SNP
FAM19A2	338811	hgsc.bcm.edu	hg19	12	62148697	62148697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	FAM19A2	NM_178539	exon3	c.G215A	p.G72E	ACCTGCCCAGGGA	.	128.0	54.0	95.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	hg19	13	20048076	20048076	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	TPTE2	NM_199254	exon7	c.C370G	p.L124V	GAAGAAGAACATC	.	112.0	31.0	90.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
ATP7B	540	hgsc.bcm.edu	hg19	13	52513260	52513260	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ATP7B	NM_000053	exon17	c.T3626C	p.L1209P	CTCTGCAGCGTGT	.	60.0	16.0	73.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
IRG1	730249	hgsc.bcm.edu	hg19	13	77531223	77531223	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	IRG1	NM_001258406	exon4	c.G537C	p.K179N	GACAAAGTGCCGA	.	154.0	33.0	166.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
SLITRK1	114798	hgsc.bcm.edu	hg19	13	84455218	84455218	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SLITRK1	NM_052910	exon1	c.T425C	p.L142S	TCTCGTAATAAAT	.	72.0	25.0	79.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
SLC10A2	6555	hgsc.bcm.edu	hg19	13	103701721	103701721	+	Silent	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SLC10A2	NM_000452	exon5	c.T837C	p.T279T	CTCAGGAGTGAAG	.	97.0	18.0	86.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
OR4K17	390436	hgsc.bcm.edu	hg19	14	20586055	20586055	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	OR4K17	NM_001004715	exon1	c.A490G	p.M164V	CACTACATGACCA	.	244.0	54.0	186.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
METTL3	56339	hgsc.bcm.edu	hg19	14	21967914	21967914	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	METTL3	NM_019852	exon7	c.T1337G	p.L446R	CCCCAGAGATTTA	.	126.0	42.0	119.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	hg19	14	71524368	71524368	+	Silent	SNP	C	C	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PCNX	NM_014982	exon26	c.C4779G	p.L1593L	CTATCTCAATGCA	.	94.0	24.0	120.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
CPSF2	53981	hgsc.bcm.edu	hg19	14	92608527	92608527	+	Silent	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CPSF2	NM_017437	exon8	c.T681A	p.L227L	AACACTTCGAGGT	.	237.0	64.0	265.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
USP3	9960	hgsc.bcm.edu	hg19	15	63866572	63866572	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	USP3	NM_006537	exon11	c.C1066A	p.Q356K	AAGAATCAAGAAA	.	278.0	61.0	299.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
THSD4	79875	hgsc.bcm.edu	hg19	15	72030175	72030175	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	THSD4	NM_024817	exon10	c.G1735A	p.E579K	GCCCCTGAGATGT	.	103.0	15.0	114.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
SCAMP2	10066	hgsc.bcm.edu	hg19	15	75146985	75146985	+	Silent	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SCAMP2	NM_005697	exon2	c.C63A	p.P21P	CACAGAGGGATCC	.	66.0	15.0	97.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAM	3684	hgsc.bcm.edu	hg19	16	31341675	31341675	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ITGAM	NM_001145808	exon27	c.T3110A	p.F1037Y	TCCCGTTCTTTGG	.	107.0	38.0	95.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
GLG1	2734	hgsc.bcm.edu	hg19	16	74487150	74487150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GLG1	NM_001145667	exon26	c.G3455A	p.S1152N	CTCCCACTGATCA	.	142.0	52.0	133.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
CENPN	55839	hgsc.bcm.edu	hg19	16	81060147	81060147	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	CENPN_ENST00000439957,NS,lymphoid_neoplasm,0,3	CENPN	NM_001100624	exon9	c.T714G	p.I238M	GATCATTCATGAA	.	260.0	104.0	252.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	hg19	16	88782672	88782672	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PIEZO1	NM_001142864	exon49	c.C7063G	p.L2355V	GGAAGAGATTAGG	.	50.0	14.0	42.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
SHPK	23729	hgsc.bcm.edu	hg19	17	3526658	3526658	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SHPK	NM_013276	exon4	c.C622T	p.Q208X	GGCTCTGCGTGTT	.	86.0	23.0	98.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	hg19	17	5071273	5071273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	USP6	NM_004505	exon26	c.C3083T	p.A1028V	CGCAAGCCGAGCC	.	139.0	25.0	116.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
DLG4	1742	hgsc.bcm.edu	hg19	17	7106870	7106870	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	DLG4_ENST00000302955,NS,carcinoma,0,2	DLG4	NM_001365	exon8	c.C507T	p.R169R	CACCTCGCGCACG	.	31.0	8.0	43.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	hg19	17	17697241	17697241	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	RAI1	NM_030665	exon3	c.G979T	p.A327S	GACGCAGCCGTCC	.	48.0	11.0	51.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH3A2	224	hgsc.bcm.edu	hg19	17	19564524	19564524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ALDH3A2	NM_001031806	exon6	c.C883A	p.L295I	AGTTTGCTTGAAG	.	90.0	26.0	88.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	hg19	17	40647714	40647714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ATP6V0A1	NM_001130020	exon14	c.T1561C	p.Y521H	GGACCATACCCTT	.	67.0	17.0	78.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
NBR1	4077	hgsc.bcm.edu	hg19	17	41353793	41353793	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NBR1	NM_031862	exon18	c.A2559T	p.R853S	GATCAGAGGAGGT	.	160.0	31.0	194.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
NFE2L1	4779	hgsc.bcm.edu	hg19	17	46136179	46136179	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NFE2L1	NM_003204	exon6	c.T1495C	p.S499P	TCTTCCTCTTCTT	.	53.0	18.0	40.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
ACE	1636	hgsc.bcm.edu	hg19	17	61573760	61573760	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ACE	NM_000789	exon23	c.T3386C	p.F1129S	GGTACTTTGTCAG	.	105.0	32.0	86.0	0.0	.	187	.	.	.	none	.	.	PASS	Atlas-SNP
LPIN2	9663	hgsc.bcm.edu	hg19	18	2927795	2927795	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LPIN2	NM_014646	exon12	c.C1635T	p.S545S	CACCCAGGACTCA	.	134.0	24.0	151.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
SOCS6	9306	hgsc.bcm.edu	hg19	18	67992989	67992989	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SOCS6	NM_004232	exon2	c.A1085T	p.Q362L	CAGTGCAAAGTAG	.	88.0	18.0	72.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
CIRBP	1153	hgsc.bcm.edu	hg19	19	1272031	1272031	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CIRBP	NM_001280	exon6	c.A483C	p.R161S	CTACAGAGACAGT	.	110.0	35.0	154.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
GTF2F1	2962	hgsc.bcm.edu	hg19	19	6387445	6387445	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GTF2F1	NM_002096	exon5	c.G452A	p.R151Q	CGATGCCGGGCCA	.	48.0	11.0	67.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9071193	9071193	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	MUC16	NM_024690	exon3	c.A16253T	p.H5418L	GTGGAATGATGCA	.	183.0	48.0	159.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9071194	9071194	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	MUC16	NM_024690	exon3	c.C16252T	p.H5418Y	TGGAATGATGCAT	.	183.0	48.0	162.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	hg19	19	10106262	10106262	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	COL5A3	NM_015719	exon16	c.C1565A	p.P522H	CCAGGGGGTCCAT	.	41.0	9.0	40.0	0.0	.	243	.	.	.	none	.	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17720812	17720812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	UNC13A	NM_001080421	exon41	c.G4748A	p.R1583H	AACTTGCGTTTCT	.	90.0	18.0	117.0	0.0	.	299	.	.	.	none	.	.	PASS	Atlas-SNP
NLRP7	199713	hgsc.bcm.edu	hg19	19	55447667	55447667	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NLRP7	NM_001127255	exon6	c.C2262A	p.D754E	GAGCAGGTCACAC	.	81.0	22.0	69.0	0.0	.	411	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF551	90233	hgsc.bcm.edu	hg19	19	58199244	58199244	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ZNF551	NM_138347	exon3	c.G1601T	p.S534I	AGTGCAGTGAATG	.	67.0	16.0	82.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	hg19	20	3305593	3305593	+	Missense_Mutation	SNP	G	G	C	rs190605250	bycluster;by1000genomes;alternate_allele	TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	C20orf194	NM_001009984	exon14	c.C1211G	p.T404S	CCCAGAGTTTGCT	.	59.0	5.0	75.0	0.0	.	83	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
RALGAPB	57148	hgsc.bcm.edu	hg19	20	37159824	37159824	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	RALGAPB	NM_020336	exon14	c.A2065T	p.I689F	TTAAATATTGTTC	.	130.0	34.0	127.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
L3MBTL1	26013	hgsc.bcm.edu	hg19	20	42157990	42157990	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	L3MBTL1	NM_032107	exon9	c.C972T	p.F324F	GTACTTCATCCTC	.	71.0	26.0	58.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
CSE1L	1434	hgsc.bcm.edu	hg19	20	47686789	47686789	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CSE1L	NM_001256135	exon8	c.T723A	p.N241K	GAATAATTTTCAT	.	82.0	23.0	87.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
PCK1	5105	hgsc.bcm.edu	hg19	20	56137813	56137813	+	Silent	SNP	C	C	A	rs144907840	alternate_allele	TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PCK1	NM_002591	exon4	c.C468A	p.I156I	AAAGATCGGCATC	.	55.0	15.0	75.0	0.0	.	95	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
LTN1	26046	hgsc.bcm.edu	hg19	21	30339388	30339388	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LTN1	NM_015565	exon10	c.A1563C	p.K521N	TTCATCTTTTTCC	.	180.0	33.0	202.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
MX2	4600	hgsc.bcm.edu	hg19	21	42775260	42775260	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	MX2	NM_002463	exon12	c.A1640G	p.Q547R	TTAACCAAACTGT	.	105.0	24.0	128.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
PFKL	5211	hgsc.bcm.edu	hg19	21	45744509	45744509	+	Missense_Mutation	SNP	G	G	A	rs138177950		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PFKL	NM_002626	exon17	c.G1786A	p.E596K	GTCTTCGAGGACC	.	54.0	14.0	32.0	0.0	.	65	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
SREBF2	6721	hgsc.bcm.edu	hg19	22	42301503	42301503	+	Missense_Mutation	SNP	C	C	T	rs372007376		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SREBF2	NM_004599	exon19	c.C3265T	p.R1089C	GCCTGCCGCCACC	.	39.0	8.0	43.0	0.0	.	99	.	.	.	weak	.	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	hg19	22	50903456	50903456	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SBF1	NM_002972	exon12	c.T1306C	p.Y436H	GGCGGTATGGGAC	.	43.0	8.0	41.0	0.0	.	211	.	.	.	none	.	.	PASS	Atlas-SNP
NUDT10	170685	hgsc.bcm.edu	hg19	X	51076122	51076122	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NUDT10	NM_153183	exon2	c.A305T	p.E102V	TCACGGAGCTGCT	.	222.0	107.0	216.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
NXT2	55916	hgsc.bcm.edu	hg19	X	108779141	108779141	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NXT2	NM_018698	exon1	c.G30A	p.Q10Q	GTCTCAGGGAGAC	.	151.0	83.0	179.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
F8	2157	hgsc.bcm.edu	hg19	X	154159622	154159622	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	F8	NM_000132	exon14	c.C2443T	p.Q815X	GACTCTGTCGCAA	.	122.0	52.0	122.0	0.0	.	646	.	.	.	none	.	.	PASS	Atlas-SNP
ITSN2	50618	hgsc.bcm.edu	hg19	2	24535088	24535094	+	Frame_Shift_Del	DEL	AGCAGAA	AGCAGAA	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	AGCAGAA	AGCAGAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ITSN2	NM_147152	exon5	c.340_346del	p.114_116del	.	.	129.0	12.0	161.0	0.0	.	224	.	0.0930233	0	none	.	.	PASS	Atlas-INDEL
GK	2710	hgsc.bcm.edu	hg19	X	30671708	30671708	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	GK	NM_203391	exon1	c.53delA	p.Q18fs	.	.	95.0	51.0	108.0	0.0	.	95	.	0.536842	0	none	.	.	PASS	Atlas-Indel,Pindel
ITSN2	50618	hgsc.bcm.edu	hg19	2	24535083	24535086	+	Frame_Shift_Del	DEL	AAAC	AAAC	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	AAAC	AAAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ITSN2	NM_147152	exon5	c.348_351del	p.116_117del	.	.	127.0	12.0	155.0	0.0	.	224	.	0.0944882	0	none	.	.	PASS	Atlas-INDEL
LTBP2	4053	hgsc.bcm.edu	hg19	14	74976904	74976904	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LTBP2	NM_000428	exon20	c.3042delT	p.C1014fs	.	.	35.0	15.0	25.0	0.0	.	158	.	0.428571	0	none	.	.	PASS	Atlas-INDEL
ALOX12	239	hgsc.bcm.edu	hg19	17	6899465	6899465	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ALOX12	NM_000697	exon1	c.28delA	p.T10fs	.	.	132.0	30.0	161.0	0.0	.	49	.	0.227273	0	none	.	.	PASS	Atlas-Indel,Pindel
REM2	161253	hgsc.bcm.edu	hg19	14	23355339	23355339	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	REM2,NS,carcinoma,0,1	REM2	NM_173527	exon4	c.625delA	p.T209fs	.	.	69.0	20.0	60.0	0.0	.	21	.	0.289855	0	none	.	.	PASS	Atlas-Indel,Pindel
MIR744	100126313	hgsc.bcm.edu	hg19	17	11985218	11985218	+	RNA	DEL	G	G	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	.	.	.	.	.	.	.	108.0	30.0	92.0	0.0	.	.	.	0.277778	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC1A2	6506	hgsc.bcm.edu	hg19	11	35287253	35287254	+	In_Frame_Ins	INS	-	-	CCCCCC	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	SLC1A2,colon,carcinoma,0,1	SLC1A2	NM_004171	exon10	c.1474_1475insGGGGGG	p.I492delinsGGI	.	.	117.0	26.0	154.0	0.0	.	54	.	0.222222	0	none	.	.	PASS	Atlas-Indel,Pindel
LTBP2	4053	hgsc.bcm.edu	hg19	14	74976906	74976906	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LTBP2	NM_000428	exon20	c.3040delT	p.C1014fs	.	.	35.0	15.0	25.0	0.0	.	158	.	0.428571	0	none	.	.	PASS	Atlas-INDEL
NIPBL	25836	hgsc.bcm.edu	hg19	5	36976168	36976169	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NIPBL	NM_015384	exon9	c.1159_1160insA	p.E387fs	.	.	122.0	32.0	126.0	0.0	.	513	.	0.262295	0	none	.	.	PASS	Atlas-Indel,Pindel
ESRP2	80004	hgsc.bcm.edu	hg19	16	68267898	68267898	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ESRP2	NM_024939	exon3	c.441delG	p.K147fs	.	.	50.0	11.0	41.0	0.0	.	118	.	0.22	0	none	.	.	PASS	Atlas-INDEL
ATRNL1	26033	hgsc.bcm.edu	hg19	10	116919947	116919947	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ATRNL1	NM_207303	exon6	c.975delT	p.F325fs	.	.	142.0	32.0	129.0	0.0	.	219	.	0.225352	0	none	.	.	PASS	Atlas-INDEL
CD1C	911	hgsc.bcm.edu	hg19	1	158262079	158262080	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	CD1C	NM_001765	exon3	c.534_535insAA	p.Y178fs	.	.	78.0	21.0	74.0	0.0	.	100	.	0.269231	0	none	.	.	PASS	Atlas-Indel,Pindel
ACSM2A	123876	hgsc.bcm.edu	hg19	16	20489924	20489925	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ACSM2A	NM_001010845	exon11	c.1206_1207insC	p.L402fs	.	.	60.0	18.0	58.0	0.0	.	120	.	0.3	0	none	.	.	PASS	Atlas-Indel,Pindel
C3AR1	719	hgsc.bcm.edu	hg19	12	8212016	8212016	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	C3AR1	NM_004054	exon2	c.767delC	p.S256fs	.	.	97.0	34.0	61.0	0.0	.	61	.	0.350515	0	none	.	.	PASS	Atlas-Indel,Pindel
THOC1	9984	hgsc.bcm.edu	hg19	18	267995	267995	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	THOC1	NM_005131	exon1	c.26delG	p.S9fs	.	.	58.0	16.0	44.0	0.0	.	43	.	0.275862	0	none	.	.	PASS	Atlas-Indel,Pindel
SETX	23064	hgsc.bcm.edu	hg19	9	135203246	135203246	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	SETX	NM_015046	exon10	c.3740delC	p.S1247X	.	.	143.0	31.0	173.0	0.0	.	234	.	0.216783	0	none	.	.	PASS	Atlas-Indel,Pindel
WDR96	80217	hgsc.bcm.edu	hg19	10	105926263	105926263	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	WDR96	NM_025145	exon23	c.3023delA	p.Q1008fs	.	.	94.0	26.0	88.0	0.0	.	183	.	0.276596	0	none	.	.	PASS	Atlas-Indel,Pindel
NTRK2	4915	hgsc.bcm.edu	hg19	9	87359981	87359981	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	NTRK2	NM_001018066	exon11	c.1288delC	p.H430fs	.	.	91.0	18.0	99.0	0.0	.	331	.	0.197802	0	none	.	.	PASS	Atlas-Indel,Pindel
KIAA0232	9778	hgsc.bcm.edu	hg19	4	6863999	6864000	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	KIAA0232	NM_001100590	exon6	c.1890_1891insA	p.G630fs	.	.	79.0	22.0	84.0	0.0	.	102	.	0.278481	0	none	.	.	PASS	Atlas-Indel,Pindel
DNAJC6	9829	hgsc.bcm.edu	hg19	1	65830460	65830461	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	DNAJC6,NS,carcinoma,0,1	DNAJC6	NM_001256864	exon2	c.335_336del	p.112_112del	.	.	47.0	11.0	41.0	0.0	.	104	.	0.234043	0	none	.	.	PASS	Atlas-Indel,Pindel
FUBP1	8880	hgsc.bcm.edu	hg19	1	78425867	78425892	+	In_Frame_Del	DEL	CTTCTACCTGGATCAGGAGGAGCCTG	CTTCTACCTGGATCAGGAGGAGCCTG	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	CTTCTACCTGGATCAGGAGGAGCCTG	CTTCTACCTGGATCAGGAGGAGCCTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	FUBP1	NM_003902	exon16	c.1559_1576del	p.520_526del	.	.	89.0	11.0	117.0	0.0	.	112	.	0.123596	0	none	.	.	PASS	Atlas-INDEL
PYCRL	65263	hgsc.bcm.edu	hg19	8	144687925	144687956	+	Frame_Shift_Del	DEL	GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC	GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC	GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	PYCRL	NM_023078	exon6	c.776_807del	p.259_269del	.	.	89.0	11.0	96.0	0.0	.	14	.	0.124	.	none	.	.	PASS	Pindel
ITSN2	50618	hgsc.bcm.edu	hg19	2	24535083	24535094	+	In_Frame_Del	DEL	AAACGAGCAGAA	AAACGAGCAGAA	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	AAACGAGCAGAA	AAACGAGCAGAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ITSN2	NM_147152	exon5	c.340_351del	p.114_117del	.	.	143.0	18.0	165.0	0.0	.	224	.	0.126	.	none	.	.	PASS	Pindel
LTBP2	4053	hgsc.bcm.edu	hg19	14	74976904	74976906	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	LTBP2	NM_000428	exon20	c.3040_3042del	p.1014_1014del	.	.	36.0	10.0	25.0	0.0	.	158	.	0.278	.	none	.	.	PASS	Pindel
ATRNL1	26033	hgsc.bcm.edu	hg19	10	116919943	116919943	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IA-A83S-01A-11D-A34Z-10	TCGA-IA-A83S-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	239993db-83a2-4300-9378-31070f75b60b	2d7ce817-8f00-4d31-b073-fca46cc77009	.	ATRNL1	NM_207303	exon6	c.971delC	p.T324fs	.	.	144.0	22.0	134.0	0.0	.	219	.	0.153	.	none	.	.	PASS	Pindel
