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
CEP104	9731	hgsc.bcm.edu	hg19	1	3742942	3742942	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CEP104	NM_014704	exon17	c.T2247C	p.Y749Y	ATCTAGATAGTGC	.	113.0	48.0	114.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
SFPQ	6421	hgsc.bcm.edu	hg19	1	35650120	35650120	+	Silent	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SFPQ	NM_005066	exon10	c.T2061A	p.T687T	TGCTGGAGTTCCA	.	114.0	53.0	100.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
ZMPSTE24	10269	hgsc.bcm.edu	hg19	1	40724001	40724001	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZMPSTE24	NM_005857	exon1	c.T58A	p.F20I	CGTATCTTCGGGG	.	74.0	25.0	64.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
FOXD2	2306	hgsc.bcm.edu	hg19	1	47905188	47905188	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FOXD2	NM_004474	exon1	c.G1381C	p.A461P	GCCCTGGCTCCCG	.	78.0	6.0	53.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
BCAN	63827	hgsc.bcm.edu	hg19	1	156622136	156622136	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	BCAN	NM_198427	exon8	c.A1394C	p.K465T	AAGAGAAAGAGGA	.	126.0	63.0	118.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
LAMC1	3915	hgsc.bcm.edu	hg19	1	183090998	183090998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	LAMC1	NM_002293	exon12	c.G2131A	p.E711K	AGAAGAGAAACTC	.	69.0	33.0	53.0	0.0	.	176	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	hg19	1	208390905	208390905	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PLXNA2	NM_025179	exon2	c.C363T	p.Y121Y	CTCAGAGTAGTCA	.	144.0	69.0	125.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH1	3756	hgsc.bcm.edu	hg19	1	211093156	211093156	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KCNH1	NM_172362	exon7	c.T1288A	p.Y430N	ACTGGTAAGGGGT	.	214.0	108.0	224.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	hg19	1	226050526	226050526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TMEM63A	NM_014698	exon11	c.G772A	p.V258I	CATCAACCACCTC	.	187.0	67.0	134.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHH2	130271	hgsc.bcm.edu	hg19	2	43986044	43986044	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PLEKHH2	NM_172069	exon27	c.T3947G	p.L1316R	GGCAGCTTTGCCA	.	50.0	26.0	55.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
EPAS1	2034	hgsc.bcm.edu	hg19	2	46605215	46605215	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	EPAS1	NM_001430	exon10	c.A1432T	p.S478C	AGCAGCAGCTGCT	.	125.0	5.0	113.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
KCMF1	56888	hgsc.bcm.edu	hg19	2	85276536	85276536	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KCMF1	NM_020122	exon6	c.C649A	p.L217I	GGACAGCTTAATT	.	109.0	47.0	123.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
KDM3A	55818	hgsc.bcm.edu	hg19	2	86709141	86709141	+	Missense_Mutation	SNP	T	T	A	rs144469383	alternate_allele	TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KDM3A	NM_001146688	exon17	c.T2601A	p.H867Q	CCTCCATACGTTT	.	316.0	121.0	278.0	0.0	.	179	.	.	.	alt	T|1.000;C|0.000	.	PASS	Atlas-SNP
CNNM3	26505	hgsc.bcm.edu	hg19	2	97494855	97494855	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CNNM3	NM_017623	exon7	c.G2043C	p.K681N	TGAGAAGACCACC	.	123.0	67.0	119.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H6	376940	hgsc.bcm.edu	hg19	2	113089842	113089842	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZC3H6	NM_198581	exon12	c.A3347G	p.D1116G	AGGCGGACGTTCC	.	360.0	152.0	276.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H6	376940	hgsc.bcm.edu	hg19	2	113089843	113089843	+	Missense_Mutation	SNP	C	C	G	rs371812950	alternate_allele	TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZC3H6	NM_198581	exon12	c.C3348G	p.D1116E	GGCGGACGTTCCC	.	225.0	20.0	274.0	0.0	.	93	.	.	.	alt	.	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	hg19	2	121746958	121746958	+	Silent	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	GLI2	NM_005270	exon13	c.C3468G	p.A1156A	AGACGCCCTGGCC	.	104.0	42.0	94.0	0.0	.	187	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179478924	179478924	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TTN	NM_001267550	exon262	c.G49200C	p.K16400N	TGAGAGCTTGTGC	.	162.0	56.0	152.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
ARIH2OS	646450	hgsc.bcm.edu	hg19	3	48956576	48956576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	.	NM_001123040	exon1	c.G7A	p.G3R	GTTGTCCGAGCAT	.	52.0	20.0	39.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PRKCD	5580	hgsc.bcm.edu	hg19	3	53221398	53221398	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PRKCD	NM_212539	exon14	c.C1395G	p.H465Q	TCTACACAGCAAG	.	58.0	23.0	67.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
CADPS	8618	hgsc.bcm.edu	hg19	3	62423814	62423814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CADPS	NM_003716	exon28	c.G3742A	p.V1248I	CATTGACCTTATC	.	263.0	94.0	227.0	0.0	.	387	.	.	.	none	.	.	PASS	Atlas-SNP
FNDC3B	64778	hgsc.bcm.edu	hg19	3	172065011	172065011	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FNDC3B	NM_001135095	exon21	c.A2374T	p.S792C	CCTGATAGTTCTG	.	97.0	47.0	89.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
RNF168	165918	hgsc.bcm.edu	hg19	3	196215554	196215554	+	Missense_Mutation	SNP	G	G	T	rs144091604	bycluster;by1000genomes;alternate_allele	TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	RNF168	NM_152617	exon2	c.C302A	p.A101D	TCATCAGCTATTT	.	249.0	106.0	223.0	0.0	.	49	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85598373	85598373	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	WDFY3	NM_014991	exon67	c.G10436T	p.C3479F	TGACCACAGTTCC	.	154.0	69.0	127.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85598374	85598374	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	WDFY3	NM_014991	exon67	c.T10435C	p.C3479R	GACCACAGTTCCT	.	155.0	71.0	127.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
ADH6	130	hgsc.bcm.edu	hg19	4	100128709	100128709	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ADH6	NM_000672	exon7	c.C858A	p.S286R	CCCATAGCTCTCA	.	150.0	61.0	127.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	hg19	5	1087135	1087135	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SLC12A7	NM_006598	exon6	c.C558T	p.Y186Y	CATGTAGTAGGAC	.	180.0	88.0	144.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
C5orf49	134121	hgsc.bcm.edu	hg19	5	7831994	7831994	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	C5orf49	NM_001089584	exon3	c.A413T	p.E138V	CCGGGTTCCTTGA	.	87.0	32.0	83.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	hg19	5	34688329	34688329	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	RAI14	NM_001145525	exon4	c.G21A	p.P7P	TCTCCCGTGGCTT	.	155.0	54.0	139.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
WDR41	55255	hgsc.bcm.edu	hg19	5	76732151	76732151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	WDR41	NM_018268	exon12	c.G1162A	p.E388K	CATTTTCTTGCTG	.	114.0	55.0	127.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
MSH3	4437	hgsc.bcm.edu	hg19	5	79950745	79950745	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	MSH3,NS,carcinoma,0,1	MSH3	NM_002439	exon1	c.C199G	p.P67A	GCGCCCCCAGCTC	.	79.0	12.0	51.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	hg19	5	140256290	140256290	+	Silent	SNP	C	C	T	rs369536692		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	PCDHA12,NS,NS,0,1	PCDHA12	NM_018903	exon1	c.C1233T	p.S411S	GGACAGCGCCCTG	.	153.0	72.0	163.0	0.0	.	196	.	.	.	weak	.	.	PASS	Atlas-SNP
NDST1	3340	hgsc.bcm.edu	hg19	5	149927825	149927825	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	NDST1	NM_001543	exon12	c.C2191T	p.H731Y	ACCTTCCATGAGG	.	92.0	47.0	85.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
TNIP1	10318	hgsc.bcm.edu	hg19	5	150443286	150443286	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TNIP1	NM_001252385	exon3	c.G159A	p.Q53Q	TTCCATCTGGGAC	.	64.0	20.0	75.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51613145	51613145	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PKHD1	NM_170724	exon58	c.A9269T	p.N3090I	TGGAGGTTGATGT	.	106.0	47.0	95.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
EIF2AK1	27102	hgsc.bcm.edu	hg19	7	6068606	6068606	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	EIF2AK1	NM_014413	exon12	c.C1390G	p.L464V	AGGCCAGACCAAA	.	108.0	43.0	107.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
HOXA11	3207	hgsc.bcm.edu	hg19	7	27224287	27224287	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	HOXA11	NM_005523	exon1	c.C477T	p.Y159Y	CCCGGGGTAGTCG	.	139.0	53.0	132.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
CALCR	799	hgsc.bcm.edu	hg19	7	93055856	93055856	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CALCR	NM_001164737	exon16	c.T1339A	p.W447R	GGTTCCACTGAAT	.	124.0	55.0	97.0	0.0	.	200	.	.	.	none	.	.	PASS	Atlas-SNP
AP1S1	1174	hgsc.bcm.edu	hg19	7	100802348	100802348	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	AP1S1	NM_001283	exon4	c.G300C	p.E100D	GTGCGAGCTGGAC	.	46.0	15.0	31.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
AP1S1	1174	hgsc.bcm.edu	hg19	7	100802349	100802349	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	AP1S1	NM_001283	exon4	c.C301T	p.L101L	TGCGAGCTGGACA	.	48.0	16.0	31.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	hg19	7	111535707	111535707	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DOCK4	NM_014705	exon16	c.G1548T	p.R516S	AAGAGTCCTACCA	.	173.0	74.0	112.0	0.0	.	365	.	.	.	none	.	.	PASS	Atlas-SNP
PRKAG2	51422	hgsc.bcm.edu	hg19	7	151478467	151478467	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PRKAG2	NM_016203	exon3	c.A237C	p.R79S	GGGGCCTCTGGAG	.	130.0	54.0	92.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	hg19	8	3063031	3063031	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CSMD1	NM_033225	exon31	c.A4979C	p.E1660A	CCGAATTCCTTTG	.	67.0	22.0	54.0	0.0	.	1469	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0146	23514	hgsc.bcm.edu	hg19	8	48647877	48647877	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KIAA0146	NM_001080394	exon20	c.A2613T	p.E871D	CTACGAAGTGAAG	.	214.0	90.0	193.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	hg19	8	124659249	124659249	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KLHL38	NM_001081675	exon2	c.T1356C	p.Y452Y	AATGTGATAAACC	.	124.0	52.0	118.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
BICC1	80114	hgsc.bcm.edu	hg19	10	60560753	60560753	+	Silent	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	BICC1	NM_001080512	exon14	c.T1962C	p.C654C	TTCCTGTGCCAAA	.	114.0	41.0	115.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM254	80195	hgsc.bcm.edu	hg19	10	81838872	81838872	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TMEM254	NM_001270368	exon1	c.A91T	p.T31S	GCGGCTACCGCCT	.	308.0	121.0	271.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
CC2D2B	387707	hgsc.bcm.edu	hg19	10	97784670	97784670	+	Splice_Site	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CC2D2B	NM_001159747	exon10	c.839+2T>A	.	AATAGGTACTGTG	.	155.0	77.0	153.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	hg19	10	99141485	99141485	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	RRP12,colon,carcinoma,+1,1	RRP12	NM_015179	exon11	c.C1307T	p.T436M	CTCTGCGTAGCAG	.	363.0	173.0	293.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
PSTK	118672	hgsc.bcm.edu	hg19	10	124740027	124740027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PSTK	NM_153336	exon1	c.G32A	p.G11D	GAACCGGCAGCGA	.	165.0	80.0	142.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	hg19	11	4869827	4869827	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	OR51S1	NM_001004758	exon1	c.C612T	p.A204A	GCTGTAGGCTGCA	.	176.0	64.0	140.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
USP47	55031	hgsc.bcm.edu	hg19	11	11924349	11924349	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	USP47	NM_017944	exon5	c.A477G	p.K159K	CAGCAAAAAGAGA	.	594.0	252.0	484.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
GLYATL1	92292	hgsc.bcm.edu	hg19	11	58722267	58722267	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	GLYATL1	NM_080661	exon5	c.T304C	p.Y102H	GATTCATACACAA	.	294.0	119.0	283.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
WDR74	54663	hgsc.bcm.edu	hg19	11	62600570	62600570	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	WDR74	NM_018093	exon12	c.G1012T	p.V338L	GGGGCACCTTGTT	.	83.0	35.0	95.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
DDX10	1662	hgsc.bcm.edu	hg19	11	108593893	108593893	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DDX10	NM_004398	exon13	c.T1669A	p.S557T	AAAATGTCCATCC	.	127.0	58.0	131.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
DDX25	29118	hgsc.bcm.edu	hg19	11	125791201	125791201	+	Silent	SNP	G	G	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DDX25	NM_013264	exon11	c.G1317C	p.G439G	CTTTGGGAAAAAA	.	129.0	61.0	98.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
SRPR	6734	hgsc.bcm.edu	hg19	11	126134972	126134972	+	Silent	SNP	G	G	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SRPR	NM_003139	exon11	c.C1407A	p.T469T	ACGCCGGGTGTGT	.	88.0	35.0	103.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
ACSM4	341392	hgsc.bcm.edu	hg19	12	7459269	7459269	+	Silent	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ACSM4	NM_001080454	exon2	c.A342T	p.G114G	GAGAGGAGACCGT	.	240.0	161.0	128.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
CAPZA3	93661	hgsc.bcm.edu	hg19	12	18891585	18891585	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CAPZA3	NM_033328	exon1	c.A383C	p.Y128S	AACTGTATGTGAA	.	239.0	144.0	166.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
GOLT1B	51026	hgsc.bcm.edu	hg19	12	21661461	21661461	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	GOLT1B	NM_016072	exon3	c.A262T	p.I88F	GGCATGATCTTCG	.	183.0	105.0	104.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
KRAS	3845	hgsc.bcm.edu	hg19	12	25398284	25398284	+	Missense_Mutation	SNP	C	C	T	rs121913529	bycluster	TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	KRAS_ENST00000256078,NS,adenocarcinoma,0,66	KRAS	NM_004985	exon2	c.G35A	p.G12D	ACGCCACCAGCTC	.	272.0	141.0	177.0	0.0	.	30930	.	.	.	weak	.	.	PASS	Atlas-SNP
MYF6	4618	hgsc.bcm.edu	hg19	12	81101509	81101509	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	MYF6	NM_002469	exon1	c.A11C	p.D4A	TGATGGACCTTTT	.	137.0	77.0	71.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	hg19	12	94543226	94543226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PLXNC1	NM_005761	exon1	c.G479A	p.G160D	CGCAGGGCTCGAC	.	38.0	7.0	16.0	0.0	.	135	.	.	.	none	.	.	PASS	Atlas-SNP
ATP2A2	488	hgsc.bcm.edu	hg19	12	110760813	110760813	+	Silent	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ATP2A2	NM_001681	exon6	c.T480C	p.P160P	AGTTCCTGCTGAT	.	171.0	55.0	104.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
TAOK3	51347	hgsc.bcm.edu	hg19	12	118681252	118681252	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TAOK3	NM_016281	exon5	c.A262G	p.K88E	AGCCTTTGTACTC	.	183.0	110.0	103.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	hg19	12	132547081	132547081	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	EP400	NM_015409	exon47	c.G8169A	p.Q2723Q	GCAGCAGCAGCAG	.	157.0	7.0	91.0	0.0	.	370	.	.	.	none	.	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	hg19	12	132547084	132547084	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	EP400	NM_015409	exon47	c.G8172A	p.Q2724Q	GCAGCAGCAGCAA	.	162.0	9.0	93.0	0.0	.	370	.	.	.	none	.	.	PASS	Atlas-SNP
FOXO1	2308	hgsc.bcm.edu	hg19	13	41134273	41134273	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FOXO1	NM_002015	exon2	c.T1355C	p.M452T	TGACTCATACCTC	.	91.0	42.0	69.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
ALG11	440138	hgsc.bcm.edu	hg19	13	52598354	52598354	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ALG11	NM_001004127	exon3	c.C488G	p.A163G	GGGAAGCTCTAAT	.	100.0	43.0	100.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
FERMT2	10979	hgsc.bcm.edu	hg19	14	53386039	53386039	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FERMT2	NM_001135000	exon3	c.T193G	p.W65G	TTTCCCACCAGAG	.	168.0	60.0	150.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
C15orf53	400359	hgsc.bcm.edu	hg19	15	38988810	38988810	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	C15orf53	NM_207444	exon1	c.T2C	p.M1T	CTGATATGGAGCT	.	116.0	56.0	113.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
GTF2A2	2958	hgsc.bcm.edu	hg19	15	59942867	59942867	+	Splice_Site	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	GTF2A2	NM_004492	exon4	c.177+1G>T	.	TCCTTACCCTGAA	.	87.0	26.0	75.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
CRAMP1L	57585	hgsc.bcm.edu	hg19	16	1691167	1691167	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CRAMP1L	NM_020825	exon5	c.T806C	p.L269P	CAAAGCTGAATGA	.	110.0	39.0	82.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
ELP5	23587	hgsc.bcm.edu	hg19	17	7162047	7162047	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	.	NM_203413	exon7	c.A780G	p.V260V	TTTAGTATCTGGT	.	176.0	95.0	119.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SLC47A1	55244	hgsc.bcm.edu	hg19	17	19480761	19480761	+	Silent	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SLC47A1	NM_018242	exon17	c.A1608G	p.K536K	CGCTAAATTGTCC	.	226.0	124.0	133.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
MED13	9969	hgsc.bcm.edu	hg19	17	60061702	60061702	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	MED13	NM_005121	exon15	c.A2718C	p.E906D	ACAATTTTCAGGC	.	200.0	63.0	137.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	hg19	17	66533874	66533874	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FAM20A	NM_017565	exon11	c.A1370G	p.K457R	GTTTTCTTTTTTA	.	116.0	28.0	76.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
LGALS3BP	3959	hgsc.bcm.edu	hg19	17	76969173	76969173	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	LGALS3BP	NM_005567	exon5	c.T508C	p.C170R	GGCCACAGAAGCC	.	119.0	29.0	63.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
FSCN2	25794	hgsc.bcm.edu	hg19	17	79495707	79495707	+	Silent	SNP	C	C	T	rs184519759	bycluster;by1000genomes;alternate_allele	TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FSCN2	NM_001077182	exon1	c.C150T	p.P50P	GGAACCCGACCCA	.	191.0	61.0	122.0	0.0	.	35	.	.	.	alt	C|0.997;G|0.003	.	PASS	Atlas-SNP
SIRT7	51547	hgsc.bcm.edu	hg19	17	79875730	79875730	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SIRT7	NM_016538	exon2	c.G207C	p.E69D	CAGGCCCTCGCGC	.	30.0	18.0	21.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
PIAS2	9063	hgsc.bcm.edu	hg19	18	44416418	44416418	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PIAS2	NM_173206	exon9	c.T1104A	p.F368L	AGCATCAAAACAC	.	205.0	15.0	181.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
DIRAS1	148252	hgsc.bcm.edu	hg19	19	2717307	2717307	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DIRAS1	NM_145173	exon2	c.G498A	p.T166T	CTCCAGCGTCAGC	.	26.0	11.0	30.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
PRKCSH	5589	hgsc.bcm.edu	hg19	19	11558367	11558367	+	Silent	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PRKCSH	NM_001001329	exon11	c.G963A	p.E321E	GGAGGAGGAGGAA	.	114.0	10.0	101.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF823	55552	hgsc.bcm.edu	hg19	19	11833785	11833785	+	Silent	SNP	T	T	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZNF823	NM_001080493	exon4	c.A564C	p.G188G	TCCATCTCCATGG	.	152.0	69.0	146.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
SPHK2	56848	hgsc.bcm.edu	hg19	19	49132774	49132774	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SPHK2	NM_020126	exon7	c.G1709A	p.W570X	TGTGCTGGGTGCG	.	60.0	22.0	56.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	hg19	19	49657747	49657747	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	HRC	NM_002152	exon1	c.G748T	p.D250Y	CATCATCATCATC	.	25.0	11.0	22.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
POLD1	5424	hgsc.bcm.edu	hg19	19	50918121	50918121	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	POLD1	NM_002691	exon20	c.T2438A	p.L813H	GCCTGCTCTTCTC	.	99.0	44.0	73.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF331	55422	hgsc.bcm.edu	hg19	19	54080924	54080924	+	Silent	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZNF331	NM_001253801	exon5	c.C1110T	p.L370L	TCACCTCACTCAG	.	254.0	115.0	212.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
PPP6R1	22870	hgsc.bcm.edu	hg19	19	55748303	55748303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PPP6R1	NM_014931	exon16	c.C1787T	p.S596F	TTGAGGGAGAAGG	.	165.0	67.0	167.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
AAR2	25980	hgsc.bcm.edu	hg19	20	34832729	34832729	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	.	NM_001271874	exon3	c.A868C	p.K290Q	ATGATGAAGCACC	.	133.0	56.0	122.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CSF2RB	1439	hgsc.bcm.edu	hg19	22	37333782	37333782	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CSF2RB	NM_000395	exon14	c.G1932T	p.Q644H	GGCCCAGGCGATG	.	105.0	38.0	74.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
SREBF2	6721	hgsc.bcm.edu	hg19	22	42280845	42280845	+	Splice_Site	SNP	G	G	A	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SREBF2	NM_004599	exon11	c.2039-1G>A	.	ACCCTAGGGAAGC	.	132.0	64.0	126.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
SREBF2	6721	hgsc.bcm.edu	hg19	22	42280846	42280846	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SREBF2	NM_004599	exon11	c.G2039T	p.G680V	CCCTAGGGAAGCT	.	132.0	62.0	124.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
KDM5C	8242	hgsc.bcm.edu	hg19	X	53223343	53223343	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	KDM5C	NM_004187	exon23	c.G4016A	p.G1339D	CCACTGCCCTCTC	.	237.0	108.0	201.0	0.0	.	385	.	.	.	none	.	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765164	66765164	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	AR	NM_000044	exon1	c.A176T	p.Q59L	TGCAGCAGCAGCA	.	263.0	18.0	181.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
MAGT1	84061	hgsc.bcm.edu	hg19	X	77131066	77131066	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	MAGT1	NM_032121	exon2	c.T227C	p.L76P	TCCATCAGCTGAC	.	167.0	71.0	141.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
RBM33	155435	hgsc.bcm.edu	hg19	7	155530893	155530893	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	RBM33	NM_053043	exon11	c.1532delC	p.P511fs	.	.	165.0	77.0	143.0	0.0	.	157	.	0.466667	0	none	.	.	PASS	Atlas-Indel,Pindel
GABRG3	2567	hgsc.bcm.edu	hg19	15	27777821	27777821	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	GABRG3	NM_033223	exon10	c.1197delA	p.E399fs	.	.	160.0	33.0	129.0	0.0	.	115	.	0.20625	0	none	.	.	PASS	Atlas-Indel,Pindel
DCST2	127579	hgsc.bcm.edu	hg19	1	155005652	155005652	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DCST2	NM_144622	exon2	c.358delA	p.S120fs	.	.	235.0	112.0	204.0	0.0	.	80	.	0.476596	0	none	.	.	PASS	Atlas-Indel,Pindel
TRPM6	140803	hgsc.bcm.edu	hg19	9	77407567	77407567	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TRPM6	NM_017662	exon19	c.2512delC	p.P838fs	.	.	120.0	55.0	135.0	0.0	.	377	.	0.458333	0	none	.	.	PASS	Atlas-INDEL
FAM200A	221786	hgsc.bcm.edu	hg19	7	99145242	99145243	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FAM200A	NM_145111	exon2	c.789_790insA	p.N263fs	.	.	125.0	54.0	93.0	0.0	.	27	.	0.432	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF407	55628	hgsc.bcm.edu	hg19	18	72352965	72352973	+	In_Frame_Del	DEL	ATCAAAACC	ATCAAAACC	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	ATCAAAACC	ATCAAAACC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZNF407	NM_001146190	exon2	c.4688_4696del	p.1563_1566del	.	.	214.0	70.0	222.0	0.0	.	231	.	0.327103	0	none	.	.	PASS	Atlas-Indel,Pindel
RNF103	7844	hgsc.bcm.edu	hg19	2	86839326	86839326	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	RNF103	NM_005667	exon3	c.439delT	p.F147fs	.	.	137.0	59.0	130.0	0.0	.	58	.	0.430657	0	none	.	.	PASS	Atlas-Indel,Pindel
TRPM6	140803	hgsc.bcm.edu	hg19	9	77407562	77407564	+	In_Frame_Del	DEL	ATT	ATT	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TRPM6	NM_017662	exon19	c.2515_2517del	p.839_839del	.	.	113.0	51.0	137.0	0.0	.	377	.	0.451327	0	none	.	.	PASS	Atlas-INDEL
TNIP1	10318	hgsc.bcm.edu	hg19	5	150443282	150443283	+	In_Frame_Ins	INS	-	-	ATA	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TNIP1	NM_001252385	exon3	c.163_164insTAT	p.E55delinsYE	.	.	68.0	18.0	79.0	0.0	.	51	.	0.264706	0	none	.	.	PASS	Atlas-INDEL
PRAMEF2	65122	hgsc.bcm.edu	hg19	1	12918882	12918890	+	In_Frame_Del	DEL	ACCGAGACT	ACCGAGACT	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	ACCGAGACT	ACCGAGACT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PRAMEF2	NM_023014	exon2	c.17_25del	p.6_9del	.	.	208.0	73.0	179.0	0.0	.	85	.	0.350962	0	none	.	.	PASS	Atlas-Indel,Pindel
NSMAF	8439	hgsc.bcm.edu	hg19	8	59510054	59510055	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	NSMAF	NM_001144772	exon21	c.1777_1778insG	p.Q593fs	.	.	114.0	47.0	96.0	0.0	.	156	.	0.412281	0	none	.	.	PASS	Atlas-Indel,Pindel
NCOA1	8648	hgsc.bcm.edu	hg19	2	24930212	24930212	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	NCOA1	NM_147223	exon11	c.1872delT	p.S624fs	.	.	206.0	78.0	204.0	0.0	.	210	.	0.378641	0	none	.	.	PASS	Atlas-Indel,Pindel
C12orf40	283461	hgsc.bcm.edu	hg19	12	40034792	40034792	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	C12orf40	NM_001031748	exon2	c.58delC	p.Q20fs	.	.	197.0	42.0	95.0	0.0	.	118	.	0.213198	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC12A6	9990	hgsc.bcm.edu	hg19	15	34551060	34551067	+	Frame_Shift_Del	DEL	TGTTCCTT	TGTTCCTT	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	TGTTCCTT	TGTTCCTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SLC12A6	NM_133647	exon4	c.491_498del	p.164_166del	.	.	113.0	17.0	108.0	0.0	.	205	.	0.150442	0	none	.	.	PASS	Atlas-Indel,Pindel
DYNC1H1	1778	hgsc.bcm.edu	hg19	14	102431117	102431140	+	In_Frame_Del	DEL	TGCAGAAGCACCTGCGCAAGCTGG	TGCAGAAGCACCTGCGCAAGCTGG	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	TGCAGAAGCACCTGCGCAAGCTGG	TGCAGAAGCACCTGCGCAAGCTGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	DYNC1H1	NM_001376	exon1	c.88_111del	p.30_37del	.	.	106.0	36.0	93.0	0.0	.	395	.	0.339623	0	none	.	.	PASS	Atlas-Indel,Pindel
SYNCRIP	10492	hgsc.bcm.edu	hg19	6	86324737	86324740	+	Frame_Shift_Del	DEL	CTCG	CTCG	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	CTCG	CTCG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	SYNCRIP	NM_001159677	exon11	c.1607_1610del	p.536_537del	.	.	98.0	37.0	83.0	0.0	.	80	.	0.377551	0	none	.	.	PASS	Atlas-Indel,Pindel
WDR19	57728	hgsc.bcm.edu	hg19	4	39206803	39206804	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.,2	WDR19	NM_025132	exon8	c.633_634insT	p.L211fs	.	.	72.0	30.0	62.0	0.0	.	96	.	0.416667	0	none	.	.	PASS	Atlas-Indel,Pindel
TCP10L2	401285	hgsc.bcm.edu	hg19	6	167591988	167591988	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	TCP10L2_ENST00000366832,NS,carcinoma,0,2	TCP10L2	NM_001145121	exon5	c.614delC	p.P205fs	.	.	647.0	129.0	620.0	0.0	.	41	.	0.199382	0	none	.	.	PASS	Atlas-Indel,Pindel
FAM208A	23272	hgsc.bcm.edu	hg19	3	56694972	56694972	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	FAM208A	NM_001112736	exon10	c.1235delA	p.Y412fs	.	.	152.0	58.0	148.0	0.0	.	113	.	0.381579	0	none	.	.	PASS	Atlas-Indel,Pindel
ARAP1	116985	hgsc.bcm.edu	hg19	11	72408128	72408132	+	Frame_Shift_Del	DEL	CTGCT	CTGCT	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	CTGCT	CTGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ARAP1	NM_001040118	exon22	c.3063_3067del	p.1021_1023del	.	.	69.0	24.0	84.0	0.0	.	168	.	0.347826	0	none	.	.	PASS	Atlas-Indel,Pindel
BCAS1	8537	hgsc.bcm.edu	hg19	20	52569985	52569991	+	Frame_Shift_Del	DEL	AGCCCCC	AGCCCCC	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	AGCCCCC	AGCCCCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	BCAS1	NM_003657	exon11	c.1661_1667del	p.554_556del	.	.	68.0	19.0	61.0	0.0	.	77	.	0.279412	0	none	.	.	PASS	Atlas-Indel,Pindel
NUDT16L1	84309	hgsc.bcm.edu	hg19	16	4743827	4743827	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	NUDT16L1	NM_001193452	exon1	c.99delC	p.Y33X	.	.	142.0	77.0	81.0	0.0	.	13	.	0.542253	0	none	.	.	PASS	Atlas-INDEL
CTDSPL	10217	hgsc.bcm.edu	hg19	3	38017370	38017370	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	CTDSPL	NM_001008392	exon7	c.689delT	p.F230fs	.	.	96.0	30.0	74.0	0.0	.	17	.	0.3125	0	none	.	.	PASS	Atlas-Indel,Pindel
PTPN14	5784	hgsc.bcm.edu	hg19	1	214588010	214588010	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	PTPN14	NM_005401	exon4	c.405delG	p.L135fs	.	.	76.0	34.0	80.0	0.0	.	168	.	0.447368	0	none	.	.	PASS	Atlas-Indel,Pindel
VN1R2	317701	hgsc.bcm.edu	hg19	19	53762550	53762564	+	In_Frame_Del	DEL	TCTCCTGGGAACAGA	TCTCCTGGGAACAGA	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	TCTCCTGGGAACAGA	TCTCCTGGGAACAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	VN1R2	NM_173856	exon1	c.921_935del	p.307_312del	.	.	131.0	39.0	105.0	0.0	.	71	.	0.29771	0	none	.	.	PASS	Atlas-Indel,Pindel
ZC3H6	376940	hgsc.bcm.edu	hg19	2	113089842	113089843	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	ZC3H6	NM_198581	exon12	c.3346_3347del	p.1116_1116del	.	.	357.0	81.0	273.0	0.0	.	93	.	0.227	.	none	.	.	PASS	Pindel
TRPM6	140803	hgsc.bcm.edu	hg19	9	77407562	77407567	+	In_Frame_Del	DEL	ATTGGA	ATTGGA	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	ATTGGA	ATTGGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TRPM6	NM_017662	exon19	c.2512_2517del	p.838_839del	.	.	120.0	42.0	137.0	0.0	.	377	.	0.350	.	none	.	.	PASS	Pindel
TNIP1	10318	hgsc.bcm.edu	hg19	5	150443283	150443286	+	Frame_Shift_Del	DEL	CATC	CATC	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	CATC	CATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	TNIP1	NM_001252385	exon3	c.160_163del	p.54_55del	.	.	66.0	14.0	77.0	0.0	.	51	.	0.212	.	none	.	.	PASS	Pindel
NUDT16L1	84309	hgsc.bcm.edu	hg19	16	4743827	4743828	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-GL-A9DC-01A-11D-A36X-10	TCGA-GL-A9DC-10A-01D-A370-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4dbe2fec-20a5-4107-a6b3-b91b4646f2cb	ac49247f-bdb9-4f02-b075-ac3855d5a824	.	NUDT16L1	NM_001193452	exon1	c.99_100del	p.33_34del	.	.	141.0	55.0	82.0	0.0	.	13	.	0.390	.	none	.	.	PASS	Pindel