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	dbSNP_AF	Algorithm
PER3	8863	hgsc.bcm.edu	hg19	1	7887481	7887481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PER3	NM_016831	exon17	c.G2468A	p.G823D	CGGAAGGCCTGCA	.	100.0	38.0	101.0	0.0	.	95	.	.	Atlas-SNP
EIF4G3	8672	hgsc.bcm.edu	hg19	1	21276594	21276594	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	EIF4G3	NM_001198803	exon13	c.G590A	p.S197N	ACCTGGCTGGGCA	.	57.0	14.0	27.0	0.0	.	300	.	.	Atlas-SNP
MPL	4352	hgsc.bcm.edu	hg19	1	43805039	43805039	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	MPL	NM_005373	exon4	c.T489C	p.D163D	CAGTGATTTCCTG	.	145.0	41.0	105.0	0.0	.	651	.	.	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	hg19	1	52269532	52269532	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	NRD1	NM_002525	exon22	c.A2471G	p.E824G	CCATGTTCTCCAG	.	81.0	28.0	100.0	0.0	.	89	.	.	Atlas-SNP
ZFYVE9	9372	hgsc.bcm.edu	hg19	1	52732378	52732378	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZFYVE9	NM_004799	exon6	c.A2330C	p.N777T	ACCCTAACAATCC	.	62.0	9.0	45.0	0.0	.	131	.	.	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	hg19	1	156917232	156917232	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ARHGEF11	NM_198236	exon26	c.G2352A	p.V784V	TTCAGTCACAAAC	.	47.0	22.0	36.0	0.0	.	168	.	.	Atlas-SNP
PYHIN1	149628	hgsc.bcm.edu	hg19	1	158913594	158913594	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PYHIN1	NM_152501	exon6	c.G1017T	p.R339S	AAATAGGAAGACG	.	183.0	29.0	177.0	0.0	.	208	.	.	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237693789	237693789	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RYR2	NM_001035	exon25	c.A2885G	p.K962R	AGGTGAAAAAAAT	.	68.0	15.0	59.0	0.0	.	1273	.	.	Atlas-SNP
ZAP70	7535	hgsc.bcm.edu	hg19	2	98340508	98340508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZAP70	NM_001079	exon3	c.C9A	p.D3E	GCCAGACCCCGCG	.	20.0	14.0	23.0	0.0	.	77	.	.	Atlas-SNP
FN1	2335	hgsc.bcm.edu	hg19	2	216261911	216261911	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	FN1	NM_212476	exon23	c.A3553G	p.N1185D	CAGGGTTTGCCTC	.	49.0	8.0	61.0	0.0	.	521	.	.	Atlas-SNP
STK25	10494	hgsc.bcm.edu	hg19	2	242439594	242439594	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	STK25	NM_006374	exon5	c.A421G	p.I141V	CTTTGATGTCTCG	.	64.0	20.0	85.0	0.0	.	32	.	.	Atlas-SNP
UBA7	7318	hgsc.bcm.edu	hg19	3	49848783	49848783	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	UBA7	NM_003335	exon9	c.G1045C	p.V349L	GGGCGACTGTCCG	.	81.0	38.0	80.0	0.0	.	64	.	.	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	hg19	3	121215700	121215700	+	Missense_Mutation	SNP	G	G	T	rs373455498	alternate_allele	TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	POLQ	NM_199420	exon14	c.C2233A	p.R745S	GCCCACGATTGCA	.	59.0	24.0	63.0	0.0	.	273	.	.	Atlas-SNP
STAG1	10274	hgsc.bcm.edu	hg19	3	136057110	136057110	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	STAG1	NM_005862	exon34	c.A3763C	p.M1255L	TAGGCATTCCAAA	.	144.0	29.0	128.0	0.0	.	135	.	.	Atlas-SNP
ANKUB1	389161	hgsc.bcm.edu	hg19	3	149485434	149485434	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ANKUB1	NM_001144960	exon5	c.T1015C	p.F339L	CCCCAAAGACCCT	.	122.0	20.0	102.0	0.0	.	27	.	.	Atlas-SNP
IL12A	3592	hgsc.bcm.edu	hg19	3	159711492	159711492	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	IL12A	NM_000882	exon6	c.T467A	p.L156Q	AGGCCCTGTGCCT	.	125.0	5.0	118.0	0.0	.	23	.	.	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	hg19	3	169867033	169867033	+	Splice_Site	SNP	C	C	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PHC3	NM_024947	exon6	c.415-1G>C	.	GTTGATCTAAGGA	.	25.0	9.0	39.0	0.0	.	113	.	.	Atlas-SNP
LRRC15	131578	hgsc.bcm.edu	hg19	3	194080170	194080170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	LRRC15	NM_001135057	exon3	c.G1621A	p.A541T	TCTGGGCCTGGGT	.	76.0	32.0	81.0	0.0	.	137	.	.	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	hg19	4	77660340	77660340	+	Silent	SNP	A	A	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SHROOM3	NM_020859	exon5	c.A1014C	p.S338S	AGCCTCAGCAAAT	.	43.0	10.0	67.0	0.0	.	134	.	.	Atlas-SNP
COPS4	51138	hgsc.bcm.edu	hg19	4	83970469	83970469	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	COPS4	NM_016129	exon3	c.A305T	p.Q102L	AGGAGCAGGTAAA	.	49.0	12.0	59.0	0.0	.	31	.	.	Atlas-SNP
PPP3CA	5530	hgsc.bcm.edu	hg19	4	102117189	102117189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PPP3CA	NM_000944	exon2	c.C143T	p.A48V	AGATGCGCCTTTA	.	96.0	25.0	101.0	0.0	.	51	.	.	Atlas-SNP
NDST3	9348	hgsc.bcm.edu	hg19	4	119154228	119154228	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	NDST3	NM_004784	exon9	c.C1881G	p.S627R	CCCCAGCCCAAAA	.	80.0	27.0	119.0	0.0	.	107	.	.	Atlas-SNP
ARHGAP10	79658	hgsc.bcm.edu	hg19	4	148984418	148984418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ARHGAP10	NM_024605	exon21	c.C2147T	p.P716L	TTTCTCCTCCTGC	.	65.0	16.0	77.0	0.0	.	92	.	.	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	hg19	5	5200316	5200316	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ADAMTS16	NM_139056	exon9	c.T1385C	p.L462S	CTACATTGGCAGG	.	92.0	24.0	71.0	0.0	.	543	.	.	Atlas-SNP
SEMA6A	57556	hgsc.bcm.edu	hg19	5	115782757	115782757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SEMA6A	NM_020796	exon19	c.C2645T	p.P882L	CGCTGTGGAACTT	.	110.0	36.0	129.0	0.0	.	93	.	.	Atlas-SNP
ZNF454	285676	hgsc.bcm.edu	hg19	5	178391941	178391941	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF454	NM_001178089	exon5	c.A536G	p.E179G	CCTTTGAGTGTAG	.	87.0	10.0	78.0	0.0	.	99	.	.	Atlas-SNP
LGSN	51557	hgsc.bcm.edu	hg19	6	63990999	63990999	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	LGSN	NM_016571	exon4	c.T457G	p.L153V	TTGATAACTCTGG	.	135.0	19.0	124.0	0.0	.	82	.	.	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	hg19	6	75861697	75861697	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	COL12A1	NM_004370	exon20	c.A3886G	p.M1296V	GTCTCATGCCAGC	.	112.0	37.0	116.0	0.0	.	385	.	.	Atlas-SNP
SNAP91	9892	hgsc.bcm.edu	hg19	6	84270639	84270639	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SNAP91	NM_001242792	exon26	c.G2470C	p.V824L	GAGGAACTGAACT	.	124.0	40.0	120.0	0.0	.	199	.	.	Atlas-SNP
SOBP	55084	hgsc.bcm.edu	hg19	6	107956286	107956286	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SOBP	NM_018013	exon6	c.G2238A	p.P746P	GCCGCCGCCGCCG	.	38.0	12.0	39.0	0.0	.	53	.	.	Atlas-SNP
FAM184A	79632	hgsc.bcm.edu	hg19	6	119338099	119338099	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	FAM184A	NM_024581	exon5	c.A1343G	p.E448G	TTTGCTTCATTTA	.	292.0	103.0	310.0	0.0	.	109	.	.	Atlas-SNP
OPRM1	4988	hgsc.bcm.edu	hg19	6	154414480	154414480	+	Missense_Mutation	SNP	G	G	C	rs200463796	alternate_allele	TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	OPRM1,NS,carcinoma,0,1	OPRM1	NM_001008505	exon4	c.G1240C	p.G414R	CTGCAAGGACCTC	.	84.0	31.0	109.0	0.0	.	241	.	.	Atlas-SNP
RNF216	54476	hgsc.bcm.edu	hg19	7	5754691	5754691	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RNF216	NM_207111	exon11	c.C1826G	p.S609C	TTTCCAGATCCAA	.	62.0	20.0	54.0	0.0	.	71	.	.	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	hg19	7	12414692	12414692	+	Missense_Mutation	SNP	G	G	T	rs375551327		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	VWDE	NM_001135924	exon8	c.C1186A	p.Q396K	TTGGTTGCACTAC	.	131.0	32.0	106.0	0.0	.	123	.	.	Atlas-SNP
ZPBP	11055	hgsc.bcm.edu	hg19	7	49977181	49977181	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZPBP	NM_007009	exon8	c.A999T	p.G333G	ATGAATTCCATCA	.	69.0	14.0	64.0	0.0	.	65	.	.	Atlas-SNP
CCDC146	57639	hgsc.bcm.edu	hg19	7	76908085	76908085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	CCDC146	NM_020879	exon12	c.T1457C	p.I486T	CCAACATTGTTAA	.	149.0	55.0	119.0	0.0	.	87	.	.	Atlas-SNP
TMEM229A	730130	hgsc.bcm.edu	hg19	7	123672011	123672011	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	TMEM229A	NM_001136002	exon1	c.C1047G	p.I349M	CAGGGTGATGAGG	.	54.0	13.0	37.0	0.0	.	31	.	.	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	hg19	8	10466938	10466938	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RP1L1	NM_178857	exon4	c.C4670A	p.A1557E	TCGGCCGCCATCT	.	57.0	4.0	49.0	0.0	.	453	.	.	Atlas-SNP
SGCZ	137868	hgsc.bcm.edu	hg19	8	14181674	14181674	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	SGCZ,colon,carcinoma,0,1	SGCZ	NM_139167	exon3	c.C274T	p.R92X	CAAGTCGGATTCC	.	48.0	9.0	61.0	0.0	.	96	.	.	Atlas-SNP
IDO2	169355	hgsc.bcm.edu	hg19	8	39836668	39836668	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	IDO2_ENST00000502986,NS,carcinoma,0,2	IDO2	NM_194294	exon4	c.G317C	p.G106A	CCATGGGTTATGT	.	29.0	5.0	42.0	0.0	.	78	.	.	Atlas-SNP
RP1	6101	hgsc.bcm.edu	hg19	8	55539235	55539235	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RP1	NM_006269	exon4	c.T2793C	p.P931P	AAAGCCTATAAAA	.	109.0	15.0	107.0	0.0	.	429	.	.	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	hg19	8	72958753	72958753	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	TRPA1	NM_007332	exon17	c.C2056A	p.L686I	CGTTGAGGGCTGT	.	121.0	15.0	63.0	0.0	.	256	.	.	Atlas-SNP
HHLA1	10086	hgsc.bcm.edu	hg19	8	133078139	133078139	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	HHLA1	NM_001145095	exon15	c.T1546A	p.S516T	TGTGCGAGTGGGA	.	120.0	15.0	89.0	0.0	.	35	.	.	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	hg19	9	74355007	74355007	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	TMEM2	NM_001135820	exon5	c.T1176C	p.S392S	TGTCACAGAGAAC	.	53.0	9.0	51.0	0.0	.	112	.	.	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	hg19	9	134357801	134357801	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PRRC2B	NM_013318	exon20	c.G5027T	p.S1676I	ACTTGAGTGCCGA	.	134.0	37.0	124.0	0.0	.	266	.	.	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	hg19	9	136597702	136597702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SARDH	NM_007101	exon3	c.C353T	p.P118L	TCACTGGGCCGCA	.	46.0	23.0	34.0	0.0	.	112	.	.	Atlas-SNP
GSTO1	9446	hgsc.bcm.edu	hg19	10	106025865	106025865	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	GSTO1	NM_004832	exon5	c.C489T	p.T163T	GACGACCTTCTTT	.	99.0	28.0	131.0	0.0	.	14	.	.	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	hg19	11	73020542	73020542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ARHGEF17	NM_014786	exon1	c.C859T	p.H287Y	GGCGGCCACCGCT	.	26.0	15.0	31.0	0.0	.	117	.	.	Atlas-SNP
GRAMD1B	57476	hgsc.bcm.edu	hg19	11	123448102	123448102	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	GRAMD1B_ENST00000529750,NS,carcinoma,0,2	GRAMD1B	NM_020716	exon2	c.G51T	p.T17T	CAGCACGCCGGCC	.	47.0	2.0	85.0	0.0	.	122	.	.	Atlas-SNP
KRT85	3891	hgsc.bcm.edu	hg19	12	52754698	52754698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	KRT85	NM_002283	exon9	c.C1463T	p.P488L	TGGCAGGGGGCAC	.	42.0	18.0	40.0	0.0	.	78	.	.	Atlas-SNP
OR9K2	441639	hgsc.bcm.edu	hg19	12	55524501	55524501	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	OR9K2	NM_001005243	exon1	c.A949G	p.N317D	CTGAGGAACAAAG	.	135.0	54.0	131.0	0.0	.	63	.	.	Atlas-SNP
GRIP1	23426	hgsc.bcm.edu	hg19	12	66856725	66856725	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	GRIP1	NM_001178074	exon9	c.G1021C	p.A341P	TTAGGGCCAGCCG	.	105.0	40.0	97.0	0.0	.	106	.	.	Atlas-SNP
SOX21	11166	hgsc.bcm.edu	hg19	13	95363707	95363707	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	SOX21	NM_007084	exon1	c.C597T	p.T199T	GCCCGCGGTCGGG	.	18.0	9.0	26.0	0.0	.	21	.	.	Atlas-SNP
RNASE1	6035	hgsc.bcm.edu	hg19	14	21269973	21269973	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RNASE1	NM_198235	exon3	c.C255T	p.V85V	GAAACAGACATTC	.	135.0	65.0	130.0	0.0	.	14	.	.	Atlas-SNP
C15orf60	283677	hgsc.bcm.edu	hg19	15	73766189	73766189	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	C15orf60	NM_001042367	exon2	c.A176C	p.E59A	CCAATGAAGAATC	.	86.0	16.0	68.0	0.0	.	26	.	.	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	hg19	16	1630796	1630796	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	IFT140	NM_014714	exon13	c.G1488A	p.T496T	CTCCACCGTGTAA	.	63.0	26.0	83.0	0.0	.	128	.	.	Atlas-SNP
TRIM72	493829	hgsc.bcm.edu	hg19	16	31235616	31235616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	TRIM72,NS,lymphoid_neoplasm,0,2	TRIM72	NM_001008274	exon7	c.C974T	p.P325L	AGGACCCGCGCCA	.	39.0	18.0	44.0	0.0	.	32	.	.	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	hg19	16	31419205	31419205	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ITGAD	NM_005353	exon9	c.A977G	p.K326R	TCCAGAAGCAGCT	.	67.0	12.0	55.0	0.0	.	154	.	.	Atlas-SNP
HSDL1	83693	hgsc.bcm.edu	hg19	16	84163813	84163813	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	HSDL1	NM_031463	exon4	c.G444A	p.L148L	ATTTACCAAGATG	.	93.0	20.0	97.0	0.0	.	23	.	.	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	hg19	16	88499415	88499415	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF469	NM_001127464	exon2	c.C5453T	p.T1818M	ACCCCACGGCAGG	.	94.0	23.0	74.0	0.0	.	121	.	.	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	hg19	16	88801357	88801357	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PIEZO1	NM_001142864	exon14	c.A1774G	p.S592G	CGAAGCTGACCAC	.	34.0	6.0	36.0	0.0	.	79	.	.	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11784551	11784551	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	DNAH9	NM_001372	exon55	c.T10627C	p.C3543R	AAAGAATGTGAAT	.	69.0	42.0	82.0	0.0	.	695	.	.	Atlas-SNP
ZNF624	57547	hgsc.bcm.edu	hg19	17	16527675	16527675	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF624	NM_020787	exon6	c.A525G	p.I175M	TCTCAATATCCTA	.	90.0	54.0	160.0	0.0	.	91	.	.	Atlas-SNP
CHMP6	79643	hgsc.bcm.edu	hg19	17	78972941	78972941	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	CHMP6	NM_024591	exon8	c.G594A	p.V198V	GCTGGTGGCAGCT	.	37.0	13.0	50.0	0.0	.	16	.	.	Atlas-SNP
NETO1	81832	hgsc.bcm.edu	hg19	18	70423359	70423359	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	NETO1,NS,carcinoma,0,2	NETO1	NM_001201465	exon8	c.T892G	p.F298V	GGCAGAAGAATGT	.	158.0	26.0	152.0	0.0	.	178	.	.	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	hg19	19	8161856	8161856	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	FBN3	NM_032447	exon42	c.C5322T	p.C1774C	CTGCTGGCAGGGA	.	30.0	11.0	37.0	0.0	.	300	.	.	Atlas-SNP
OR7D2	162998	hgsc.bcm.edu	hg19	19	9297230	9297230	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	OR7D2	NM_175883	exon1	c.T773C	p.V258A	TTGGGGTCCACTT	.	60.0	21.0	69.0	0.0	.	55	.	.	Atlas-SNP
IL27RA	9466	hgsc.bcm.edu	hg19	19	14150478	14150478	+	Splice_Site	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	IL27RA	NM_004843	exon3	c.376+1G>A	.	CCCAAAGTAACGT	.	65.0	22.0	53.0	0.0	.	56	.	.	Atlas-SNP
ZNF429	353088	hgsc.bcm.edu	hg19	19	21720356	21720356	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF429	NM_001001415	exon4	c.A1501G	p.K501E	CATAAAAAAATTC	.	29.0	10.0	33.0	0.0	.	338	.	.	Atlas-SNP
AP2A1	160	hgsc.bcm.edu	hg19	19	50306439	50306439	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	AP2A1	NM_014203	exon18	c.G2313A	p.Q771Q	CCGACAGAACCTG	.	35.0	14.0	34.0	0.0	.	108	.	.	Atlas-SNP
ZNF470	388566	hgsc.bcm.edu	hg19	19	57088623	57088623	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF470	NM_001001668	exon6	c.A826G	p.R276G	CATCAGAGAATAC	.	132.0	26.0	93.0	0.0	.	103	.	.	Atlas-SNP
ZNF17	7565	hgsc.bcm.edu	hg19	19	57931549	57931549	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ZNF17	NM_006959	exon3	c.A689G	p.N230S	GGTACAACTCCGA	.	84.0	34.0	59.0	0.0	.	49	.	.	Atlas-SNP
CHD6	84181	hgsc.bcm.edu	hg19	20	40085989	40085989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	CHD6	NM_032221	exon18	c.G2744A	p.R915H	ATCTCGCGCTCGT	.	67.0	34.0	70.0	0.0	.	312	.	.	Atlas-SNP
MED14	9282	hgsc.bcm.edu	hg19	X	40562816	40562816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	MED14	NM_004229	exon11	c.A1291G	p.I431V	TCTCTATGGAAGC	.	153.0	88.0	214.0	0.0	.	108	.	.	Atlas-SNP
KLHL13	90293	hgsc.bcm.edu	hg19	X	117053617	117053617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	KLHL13	NM_001168299	exon5	c.G446A	p.R149K	ATTTTCCTTAGAC	.	113.0	66.0	168.0	0.0	.	87	.	.	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	5970	5970	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	.	ENST00000361624	exon1	c.G67A	p.G23S	TTATTCGGCGCAT	.	16.0	10.0	47.0	0.0	.	.	.	.	Atlas-SNP
RIPK2	8767	hgsc.bcm.edu	hg19	8	90796369	90796370	+	Splice_Site	INS	-	-	AAAA	rs374266923		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	RIPK2	NM_003821	exon8	c.1029+2->AAAA	.	.	.	136.0	13.0	75.0	0.0	.	37	.	.	Atlas-INDEL
PDGFC	56034	hgsc.bcm.edu	hg19	4	157892010	157892019	+	Frame_Shift_Del	DEL	GGCCGGCCAG	GGCCGGCCAG	-	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	GGCCGGCCAG	GGCCGGCCAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	PDGFC	NM_016205	exon1	c.38_47del	p.13_16del	.	.	43.0	11.0	71.0	0.0	.	46	.	.	Atlas-Indel,Pindel
ARAP1	116985	hgsc.bcm.edu	hg19	11	72406835	72406836	+	Frame_Shift_Ins	INS	-	-	TGGGA	novel		TCGA-RC-A6M3-01A-11D-A32G-10	TCGA-RC-A6M3-10A-01D-A32G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	00fb960e-81b6-45ea-bf27-b39c7dcdce6a	58134b29-9c26-4b08-8b60-e053d9564b76	.	ARAP1	NM_001040118	exon24	c.3348_3349insTCCCA	p.Q1116fs	.	.	43.0	20.0	62.0	0.0	.	168	.	.	Atlas-Indel,Pindel
