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
PADI6	353238	hgsc.bcm.edu	hg19	1	17721468	17721468	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	PADI6	NM_207421	exon13	c.T1359C	p.S453S	CATGAGTAAGACC	.	52.0	18.0	62.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
NT5C1A	84618	hgsc.bcm.edu	hg19	1	40126872	40126872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	NT5C1A	NM_032526	exon5	c.G620A	p.R207H	GCCACGCGCAGCT	.	75.0	8.0	78.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
TGFBR3	7049	hgsc.bcm.edu	hg19	1	92182200	92182200	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TGFBR3	NM_003243	exon11	c.G1632A	p.E544E	ACCTGACTCCAGA	.	215.0	93.0	210.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
GLMN	11146	hgsc.bcm.edu	hg19	1	92712690	92712690	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	GLMN	NM_053274	exon18	c.T1597A	p.S533T	CTTTAGATTTCTG	.	21.0	6.0	40.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
NUF2	83540	hgsc.bcm.edu	hg19	1	163318835	163318835	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	NUF2	NM_145697	exon13	c.A1225C	p.K409Q	CAACTAAAAGATG	.	567.0	41.0	556.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
ABL2	27	hgsc.bcm.edu	hg19	1	179078368	179078368	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ABL2	NM_007314	exon12	c.G2034T	p.Q678H	ATGGGGCTGATTC	.	108.0	46.0	92.0	0.0	.	307	.	.	.	none	.	.	PASS	Atlas-SNP
TRMT1L	81627	hgsc.bcm.edu	hg19	1	185106774	185106774	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TRMT1L	NM_030934	exon10	c.G1477T	p.E493X	TTCTCTCTTCACA	.	83.0	26.0	93.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
FAM89A	375061	hgsc.bcm.edu	hg19	1	231155814	231155814	+	Missense_Mutation	SNP	G	G	A	rs147790876		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	FAM89A,NS,carcinoma,+1,1	FAM89A	NM_198552	exon2	c.C350T	p.S117L	TGAATCGACTCGT	.	44.0	20.0	43.0	0.0	.	8	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	hg19	2	15534394	15534394	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	NBAS	NM_015909	exon28	c.G3214C	p.A1072P	TGCGTGCCTCTTC	.	112.0	28.0	102.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	hg19	2	61433163	61433163	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	USP34	NM_014709	exon72	c.A9143G	p.N3048S	CAGGCATTTCTAA	.	80.0	38.0	93.0	0.0	.	334	.	.	.	none	.	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	hg19	2	61433164	61433164	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	USP34	NM_014709	exon72	c.A9142T	p.N3048Y	AGGCATTTCTAAG	.	82.0	38.0	93.0	0.0	.	334	.	.	.	none	.	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	hg19	2	166799781	166799781	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TTC21B	NM_024753	exon5	c.A500G	p.Y167C	TCAAAATACTTCA	.	108.0	51.0	120.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	hg19	2	209150550	209150550	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	PIKFYVE	NM_015040	exon6	c.T714C	p.D238D	TTCAGATTCTGCT	.	95.0	41.0	97.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	hg19	2	241658507	241658507	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	KIF1A	NM_001244008	exon47	c.C5130T	p.S1710S	CTTGTCGCTGTTG	.	109.0	44.0	102.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D23	55773	hgsc.bcm.edu	hg19	3	100025388	100025388	+	Splice_Site	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	TBC1D23_ENST00000394144,right_lower_lobe,carcinoma,0,2	TBC1D23	NM_018309	exon13	c.1413+1G>A	.	GTTGATGTAAGTA	.	64.0	50.0	63.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
WWTR1	25937	hgsc.bcm.edu	hg19	3	149374844	149374844	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	WWTR1	NM_001168278	exon3	c.C250G	p.H84D	GGACATGCTGGGC	.	78.0	61.0	55.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
FGFRL1	53834	hgsc.bcm.edu	hg19	4	1018294	1018294	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	FGFRL1	NM_001004356	exon6	c.T914A	p.V305E	TTGTGGTGCTGCC	.	162.0	55.0	132.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	hg19	4	88536436	88536436	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	DSPP	NM_014208	exon5	c.C2622T	p.S874S	CAGCAGCAACAGC	.	233.0	23.0	224.0	0.0	.	174	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82581488	82581488	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	Q9Y6V0-3,colon,carcinoma,0,3	PCLO	NM_014510	exon5	c.A8781T	p.E2927D	GGGTTTTTCATCT	.	89.0	6.0	57.0	0.0	.	1506	.	.	.	none	.	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82581494	82581494	+	Missense_Mutation	SNP	T	T	A	rs78195222	bycluster	TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	Q9Y6V0-3,rectum,carcinoma,0,15	PCLO	NM_014510	exon5	c.A8775T	p.E2925D	TTCATCTTCTATT	.	97.0	10.0	59.0	0.0	.	1506	.	.	.	weak	T|0.500;A|0.500	0.500	PASS	Atlas-SNP
TRIP6	7205	hgsc.bcm.edu	hg19	7	100468243	100468243	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TRIP6	NM_003302	exon6	c.G877C	p.V293L	GCTGGGGTTGTGG	.	87.0	25.0	47.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	hg19	7	149476014	149476014	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	.	NM_198455	exon7	c.A980G	p.N327S	TCTACAATGGCTG	.	142.0	63.0	115.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
INTS8	55656	hgsc.bcm.edu	hg19	8	95835690	95835690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	INTS8	NM_017864	exon1	c.G31A	p.A11T	GAGGCGGCCACCT	.	113.0	44.0	68.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
DSCC1	79075	hgsc.bcm.edu	hg19	8	120854141	120854141	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	DSCC1	NM_024094	exon7	c.G817T	p.A273S	TTCGTGCTGCTGC	.	90.0	26.0	74.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
FAM91A1	157769	hgsc.bcm.edu	hg19	8	124811759	124811759	+	Splice_Site	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	FAM91A1	NM_144963	exon17	c.1561-1G>A	.	ATTGTAGCATATT	.	60.0	16.0	75.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
MROH6	642475	hgsc.bcm.edu	hg19	8	144653908	144653908	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	.	NM_001100878	exon3	c.G531A	p.L177L	TGCGCTCAGCACT	.	200.0	61.0	106.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
RABL6	55684	hgsc.bcm.edu	hg19	9	139718091	139718091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	.	NM_024718	exon2	c.G245T	p.S82I	TCACCAGCATCCA	.	62.0	30.0	46.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	hg19	10	38120750	38120750	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ZNF248	NM_001267597	exon6	c.A1533C	p.Q511H	AGTTCTTTGATGT	.	56.0	41.0	87.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
CCAR1	55749	hgsc.bcm.edu	hg19	10	70550999	70550999	+	Silent	SNP	C	C	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CCAR1	NM_018237	exon25	c.C3429G	p.S1143S	AAAATCCAAGGAG	.	361.0	237.0	582.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
GPR26	2849	hgsc.bcm.edu	hg19	10	125447637	125447637	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	GPR26	NM_153442	exon3	c.C975T	p.G325G	CACAGGCGACTCT	.	37.0	20.0	51.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
IRF7	3665	hgsc.bcm.edu	hg19	11	613956	613956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	IRF7	NM_004031	exon5	c.C800T	p.T267M	CCTGTCGTTAGTG	.	88.0	10.0	79.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	hg19	11	1093323	1093323	+	Silent	SNP	C	C	T	rs7948036	bycluster	TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	MUC2	NM_002457	exon30	c.C5142T	p.T1714T	ACCCACCGGCACA	.	31.0	4.0	24.0	0.0	.	614	.	.	.	weak	.	.	PASS	Atlas-SNP
OR51B4	79339	hgsc.bcm.edu	hg19	11	5323073	5323073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	OR51B4	NM_033179	exon1	c.C104T	p.S35F	AGGACGGAGAAGT	.	210.0	96.0	166.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
TTC17	55761	hgsc.bcm.edu	hg19	11	43469573	43469573	+	Missense_Mutation	SNP	G	G	A	rs150211914		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TTC17	NM_018259	exon19	c.G2687A	p.R896H	ACCAGCGTCTGGG	.	92.0	19.0	83.0	0.0	.	112	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
CDC42BPG	55561	hgsc.bcm.edu	hg19	11	64601408	64601408	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CDC42BPG	NM_017525	exon21	c.C2455T	p.R819W	AGCTCCGGAAGGA	.	124.0	47.0	131.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM8B	26521	hgsc.bcm.edu	hg19	11	111956122	111956122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TIMM8B	NM_012459	exon2	c.C194T	p.S65F	GTGCGAGAGTCTA	.	76.0	27.0	104.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	hg19	12	1005251	1005251	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	WNK1	NM_001184985	exon24	c.A6378G	p.A2126A	TGCAGCAGACGGT	.	149.0	59.0	144.0	0.0	.	403	.	.	.	none	.	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	hg19	12	6472823	6472823	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SCNN1A	NM_001159576	exon2	c.C647T	p.T216M	AAGAGCGTCTGCT	.	86.0	32.0	86.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ITGA5	3678	hgsc.bcm.edu	hg19	12	54792434	54792434	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ITGA5	NM_002205	exon28	c.C2890G	p.L964V	TCTTCAGGGCTTT	.	94.0	36.0	82.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	hg19	14	23828684	23828684	+	Missense_Mutation	SNP	G	G	A	rs147068550		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	EFS	NM_005864	exon4	c.C1003T	p.R335W	GAGGCCGGTCCTG	.	39.0	14.0	25.0	0.0	.	37	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
RIPK3	11035	hgsc.bcm.edu	hg19	14	24807103	24807103	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	RIPK3	NM_006871	exon6	c.C808A	p.P270T	CCTTGGGCTCACT	.	81.0	31.0	97.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
SYT16	83851	hgsc.bcm.edu	hg19	14	62462841	62462841	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SYT16	NM_031914	exon1	c.T104A	p.L35X	ATATGTTATCTGC	.	136.0	47.0	133.0	0.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
SYT16	83851	hgsc.bcm.edu	hg19	14	62462842	62462842	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SYT16	NM_031914	exon1	c.A105T	p.L35F	TATGTTATCTGCT	.	136.0	46.0	133.0	0.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105408237	105408237	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	AHNAK2	NM_138420	exon7	c.C13551T	p.S4517S	GTCGGCGGAAGGG	.	117.0	54.0	143.0	0.0	.	719	.	.	.	none	.	.	PASS	Atlas-SNP
VPS39	23339	hgsc.bcm.edu	hg19	15	42456665	42456665	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	VPS39	NM_015289	exon19	c.T1917C	p.A639A	CTCTCCAGCTGGG	.	77.0	31.0	61.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
DUOXA1	90527	hgsc.bcm.edu	hg19	15	45411430	45411430	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	DUOXA1	NM_144565	exon9	c.C906T	p.L302L	GCTCAGGAGTCCA	.	130.0	56.0	79.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
MYO9A	4649	hgsc.bcm.edu	hg19	15	72192260	72192260	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	MYO9A	NM_006901	exon24	c.C3238G	p.L1080V	GGAGAAGAGCAGC	.	72.0	28.0	58.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	hg19	15	85452001	85452001	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SLC28A1	NM_004213	exon9	c.T770C	p.L257P	AGGCGCTGGTCAA	.	56.0	24.0	49.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	hg19	15	86122639	86122639	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	AKAP13	NM_007200	exon7	c.A1340C	p.Q447P	TGCTTCAGAGAGA	.	207.0	94.0	159.0	0.0	.	394	.	.	.	none	.	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	hg19	16	19474683	19474683	+	Silent	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	TMC5	NM_001105249	exon7	c.T1230A	p.I410I	CTCCATTTCCCGG	.	78.0	30.0	109.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
RBBP6	5930	hgsc.bcm.edu	hg19	16	24578519	24578519	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	RBBP6	NM_018703	exon15	c.T1645C	p.S549P	GGCCCGTCACTAC	.	125.0	40.0	108.0	0.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
BCKDK	10295	hgsc.bcm.edu	hg19	16	31121525	31121525	+	Splice_Site	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	BCKDK	NM_001271926	exon6	c.424-1G>T	.	CCTGCAGATCAAG	.	78.0	32.0	79.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
SRR	63826	hgsc.bcm.edu	hg19	17	2226627	2226627	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SRR	NM_021947	exon7	c.G792T	p.E264D	CACAGAGGATGAA	.	144.0	17.0	172.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	hg19	17	5085263	5085263	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ZNF594	NM_032530	exon2	c.T2289A	p.C763X	CTGATTACACCAA	.	94.0	33.0	90.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
GRN	2896	hgsc.bcm.edu	hg19	17	42427873	42427873	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	GRN	NM_002087	exon6	c.A526C	p.T176P	GTTCACACCCGCT	.	62.0	8.0	54.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
GREB1L	80000	hgsc.bcm.edu	hg19	18	19031043	19031043	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	GREB1L	NM_001142966	exon13	c.G1780T	p.E594X	TTGAAAGAAATTA	.	87.0	9.0	93.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ESCO1	114799	hgsc.bcm.edu	hg19	18	19154134	19154134	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ESCO1	NM_052911	exon4	c.C671T	p.S224F	TTTTCAGATCCTT	.	50.0	20.0	52.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
MEX3C	51320	hgsc.bcm.edu	hg19	18	48703464	48703464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	MEX3C	NM_016626	exon2	c.G1237A	p.D413N	TTACATCGGTACC	.	76.0	4.0	75.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
NFIC	4782	hgsc.bcm.edu	hg19	19	3381992	3381992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	NFIC	NM_001245004	exon2	c.G313A	p.V105M	GGCTGCGTGCTCT	.	68.0	7.0	60.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	hg19	19	41596036	41596036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	CYP2A13,NS,carcinoma,0,1	CYP2A13	NM_000766	exon3	c.G428T	p.R143L	GCAAGCGCGGCAT	.	176.0	20.0	146.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	hg19	19	41596037	41596037	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CYP2A13	NM_000766	exon3	c.C429T	p.R143R	CAAGCGCGGCATC	.	176.0	20.0	144.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
HNRNPUL1	11100	hgsc.bcm.edu	hg19	19	41808585	41808585	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	HNRNPUL1	NM_007040	exon12	c.C1703A	p.P568Q	CGTTGCCAGATGT	.	82.0	23.0	85.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	hg19	19	45322442	45322442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	BCAM	NM_001013257	exon11	c.G1466A	p.G489E	AATTGGGGGGCAG	.	79.0	37.0	85.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	hg19	19	57640983	57640983	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	USP29	NM_020903	exon4	c.C940A	p.L314I	GACTTACTCACTC	.	127.0	42.0	120.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	hg19	19	57640984	57640984	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	USP29	NM_020903	exon4	c.T941A	p.L314H	ACTTACTCACTCA	.	128.0	45.0	120.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	hg19	19	57967199	57967199	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	VN1R1	NM_020633	exon1	c.T656C	p.L219S	GCATGTAATGAGC	.	100.0	38.0	91.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF341	84905	hgsc.bcm.edu	hg19	20	32376749	32376749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ZNF341	NM_032819	exon13	c.G1912A	p.E638K	ATCCACGAGCCCT	.	199.0	24.0	209.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
ADNP	23394	hgsc.bcm.edu	hg19	20	49510165	49510165	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ADNP	NM_015339	exon5	c.A1086G	p.Q362Q	CTGAGATTGTTGA	.	63.0	22.0	66.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCB1	6598	hgsc.bcm.edu	hg19	22	24176330	24176330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	SMARCB1_ENST00000344921,NS,carcinoma,0,4	SMARCB1	NM_003073	exon9	c.G1121A	p.R374Q	CCAGGCGGATGAG	.	64.0	44.0	98.0	0.0	.	586	.	.	.	none	.	.	PASS	Atlas-SNP
VSIG4	11326	hgsc.bcm.edu	hg19	X	65253395	65253395	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	VSIG4	NM_001100431	exon2	c.C333T	p.Y111Y	ACACGTGTAGTGG	.	133.0	104.0	91.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
AMOT	154796	hgsc.bcm.edu	hg19	X	112065566	112065566	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	AMOT	NM_001113490	exon1	c.T789A	p.Y263X	CTCACTATAGAAG	.	62.0	49.0	63.0	0.0	.	204	.	.	.	none	.	.	PASS	Atlas-SNP
AP2A1	160	hgsc.bcm.edu	hg19	19	50305265	50305285	+	In_Frame_Del	DEL	CTGGGGCTGCGGGCAGCCCCT	CTGGGGCTGCGGGCAGCCCCT	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	CTGGGGCTGCGGGCAGCCCCT	CTGGGGCTGCGGGCAGCCCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	AP2A1	NM_130787	exon15	c.1980_2000del	p.660_667del	.	.	58.0	13.0	82.0	0.0	.	108	.	0.224138	0	none	.	.	PASS	Atlas-Indel,Pindel
PLEKHO2	80301	hgsc.bcm.edu	hg19	15	65157740	65157740	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	PLEKHO2	NM_025201	exon6	c.1125delG	p.L375fs	.	.	54.0	24.0	43.0	0.0	.	50	.	0.444444	0	none	.	.	PASS	Atlas-Indel,Pindel
PCCB	5096	hgsc.bcm.edu	hg19	3	135974705	135974706	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	PCCB	NM_001178014	exon2	c.191_192insA	p.L64fs	.	.	113.0	50.0	110.0	0.0	.	52	.	0.442478	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF77	58492	hgsc.bcm.edu	hg19	19	2936619	2936620	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ZNF77	NM_021217	exon3	c.214_215insT	p.V72fs	.	.	80.0	30.0	68.0	0.0	.	47	.	0.375	0	none	.	.	PASS	Atlas-Indel,Pindel
RNF216	54476	hgsc.bcm.edu	hg19	7	5792508	5792510	+	In_Frame_Del	DEL	TCT	TCT	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	RNF216	NM_207111	exon3	c.169_171del	p.57_57del	.	.	104.0	20.0	53.0	0.0	.	71	.	0.192308	0	none	.	.	PASS	Atlas-Indel,Pindel
UBE3B	89910	hgsc.bcm.edu	hg19	12	109961880	109961880	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	UBE3B	NM_183415	exon22	c.2461delT	p.S821fs	.	.	63.0	19.0	81.0	0.0	.	116	.	0.301587	0	none	.	.	PASS	Atlas-Indel,Pindel
CD3EAP	10849	hgsc.bcm.edu	hg19	19	45911526	45911526	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CD3EAP	NM_012099	exon3	c.299delA	p.E100fs	.	.	70.0	32.0	51.0	0.0	.	27	.	0.457143	0	none	.	.	PASS	Atlas-Indel,Pindel
ABCG1	9619	hgsc.bcm.edu	hg19	21	43693428	43693428	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ABCG1	NM_207174	exon4	c.452delA	p.K151fs	.	.	84.0	33.0	55.0	0.0	.	140	.	0.392857	0	none	.	.	PASS	Atlas-Indel,Pindel
CASC3	22794	hgsc.bcm.edu	hg19	17	38297029	38297030	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CASC3	NM_007359	exon1	c.227_228del	p.76_76del	.	.	114.0	34.0	106.0	0.0	.	39	.	0.298246	0	none	.	.	PASS	Atlas-Indel,Pindel
PTDSS2	81490	hgsc.bcm.edu	hg19	11	460237	460243	+	Frame_Shift_Del	DEL	ATGTGAC	ATGTGAC	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	ATGTGAC	ATGTGAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	PTDSS2	NM_030783	exon2	c.232_238del	p.78_80del	.	.	111.0	32.0	148.0	0.0	.	27	.	0.288288	0	none	.	.	PASS	Atlas-Indel,Pindel
RP1L1	94137	hgsc.bcm.edu	hg19	8	10466011	10466031	+	In_Frame_Del	DEL	TCCCCTTCAGCCTCCTGGGCA	TCCCCTTCAGCCTCCTGGGCA	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	TCCCCTTCAGCCTCCTGGGCA	TCCCCTTCAGCCTCCTGGGCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	RP1L1,NS,malignant_melanoma,0,1	RP1L1	NM_178857	exon4	c.5578_5598del	p.1860_1866del	.	.	45.0	14.0	38.0	0.0	.	453	.	0.311111	0	none	.	.	PASS	Atlas-INDEL
CACNA1S	779	hgsc.bcm.edu	hg19	1	201009812	201009815	+	Frame_Shift_Del	DEL	GCAT	GCAT	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	GCAT	GCAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	CACNA1S	NM_000069	exon42	c.5162_5165del	p.1721_1722del	.	.	45.0	18.0	59.0	0.0	.	249	.	0.4	0	none	.	.	PASS	Atlas-Indel,Pindel
ASAP2	8853	hgsc.bcm.edu	hg19	2	9347341	9347342	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ASAP2	NM_001135191	exon1	c.107_108del	p.36_36del	.	.	96.0	24.0	70.0	0.0	.	91	.	0.25	0	none	.	.	PASS	Atlas-Indel,Pindel
FAM172A	83989	hgsc.bcm.edu	hg19	5	93217216	93217216	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	FAM172A	NM_032042	exon7	c.747delC	p.N249fs	.	.	88.0	35.0	75.0	0.0	.	38	.	0.397727	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC12A7	10723	hgsc.bcm.edu	hg19	5	1094341	1094342	+	In_Frame_Ins	INS	-	-	TTT	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SLC12A7	NM_006598	exon2	c.147_148insAAA	p.N49delinsKN	.	.	84.0	35.0	86.0	0.0	.	97	.	0.416667	0	none	.	.	PASS	Atlas-Indel,Pindel
TRPM1	4308	hgsc.bcm.edu	hg19	15	31330016	31330017	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	TRPM1,colon,carcinoma,0,1	TRPM1	NM_001252020	exon19	c.2520_2521del	p.840_841del	.	.	87.0	30.0	63.0	0.0	.	183	.	0.344828	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF141	7700	hgsc.bcm.edu	hg19	4	367429	367430	+	In_Frame_Ins	INS	-	-	ACA	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ZNF141	NM_003441	exon4	c.1203_1204insACA	p.G401delinsGT	.	.	277.0	110.0	304.0	0.0	.	48	.	0.397112	0	none	.	.	PASS	Atlas-Indel,Pindel
ATP7B	540	hgsc.bcm.edu	hg19	13	52516678	52516679	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	ATP7B	NM_000053	exon15	c.3256_3257insA	p.E1086fs	.	.	42.0	15.0	57.0	0.0	.	123	.	0.357143	0	none	.	.	PASS	Atlas-Indel,Pindel
PBRM1	55193	hgsc.bcm.edu	hg19	3	52597437	52597437	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.,3	PBRM1	NM_018313	exon25	c.3874delG	p.A1292fs	.	.	108.0	89.0	100.0	0.0	.	1252	.	0.824074	0	none	.	.	PASS	Atlas-Indel,Pindel
SETD2	29072	hgsc.bcm.edu	hg19	3	47162892	47162892	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	SETD2	NM_014159	exon3	c.3235delC	p.P1079fs	.	.	48.0	41.0	40.0	0.0	.	721	.	0.854167	0	none	.	.	PASS	Atlas-Indel,Pindel
GLRB	2743	hgsc.bcm.edu	hg19	4	157999276	157999277	+	In_Frame_Ins	INS	-	-	AGAAGCAGTATCTATGCCCATCGTATGTTCTTCATGTCTTATATT	novel		TCGA-5P-A9JU-01A-11D-A42J-10	TCGA-5P-A9JU-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d6969c41-5fa5-4853-95a0-0e473b44a505	f87abecd-d116-48b1-bf22-7584bab45053	.	GLRB	NM_000824	exon2	c.100_101insAGAAGCAGTATCTATGCCCATCGTATGTTCTTCATGTCTTATATT	p.K34delinsKKQYLCPSYVLHVLYX	.	.	111.0	21.0	129.0	0.0	.	74	.	0.189	.	none	.	.	PASS	Pindel
