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	Algorithm
GRID2	2895	hgsc.bcm.edu	37	4	94006231	94006232	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	GRID2	NM_001510	exon3	c.329_330del	p.110_110del	.	.	63.0	18.0	103.0	0.0	.	233	.	Pindel,Atlas-Indel
MUC2	4583	hgsc.bcm.edu	37	11	1092602	1092619	+	In_Frame_Del	DEL	CCACCACTCCCAGCCCTC	CCACCACTCCCAGCCCTC	-	rs201595190		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	CCACCACTCCCAGCCCTC	CCACCACTCCCAGCCCTC	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	MUC2	NM_002457	exon30	c.4420_4437del	p.1474_1479del	.	.	118.0	21.0	145.0	0.0	.	614	.	Atlas-Indel
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643066	1643067	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	-	-	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	KRTAP5-4,NS,carcinoma,0,3	KRTAP5-4	NM_001012709	exon1	c.258_259insG	p.G86fs	.	.	172.0	11.0	197.0	0.0	.	78	.	Atlas-Indel
ZNF638	27332	hgsc.bcm.edu	37	2	71607352	71607355	+	In_Frame_Del	DEL	AACA	AACA	-	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	AACA	AACA	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	ZNF638	NM_001252612	exon9	c.2266_2268del	p.756_756del	.	.	270.0	45.0	303.0	0.0	.	179	.	Pindel,Atlas-Indel
TMEM51-AS1	200197	hgsc.bcm.edu	37	1	15439098	15439098	+	RNA	SNP	C	C	T	rs114844404	bycluster	TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	.	.	.	.	TTTTCTCCTCCCG	.	76.0	37.0	89.0	0.0	.	.	.	Atlas-SNP
KL	9365	hgsc.bcm.edu	37	13	33638015	33638015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_004795	exon5	c.G2731A	p.G911R	CTTTGCGGATACT	.	138.0	25.0	175.0	0.0	.	.	.	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31620583	31620583	+	Missense_Mutation	SNP	C	C	T	rs148108999	bycluster;by1000genomes	TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_000379	exon6	c.G446A	p.R149H	GTGCAGCGGCACA	.	88.0	12.0	100.0	0.0	0.000	.	.	Atlas-SNP
ATP1A3	478	hgsc.bcm.edu	37	19	42474678	42474678	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_001256214	exon17	c.C2319T	p.D773D	TAGGTTGTCGAAG	.	91.0	29.0	104.0	0.0	.	.	.	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6127718	6127718	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_000552	exon28	c.C4866T	p.D1622D	CTGGATGTCTCCA	.	378.0	39.0	131.0	0.0	.	.	.	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29162850	29162850	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_024857	exon2	c.G1751T	p.S584I	AAGCCAGCTTGCT	.	112.0	16.0	119.0	0.0	.	.	.	Atlas-SNP
C1orf194	127003	hgsc.bcm.edu	37	1	109650648	109650648	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_001122961	exon2	c.T57A	p.Y19X	GTTCTTATATGGC	.	62.0	7.0	70.0	0.0	.	.	.	Atlas-SNP
DNAJC27	51277	hgsc.bcm.edu	37	2	25174379	25174379	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_016544	exon6	c.A573G	p.K191K	AGGGCGTTTCCCG	.	81.0	15.0	95.0	0.0	.	.	.	Atlas-SNP
OTUD4	54726	hgsc.bcm.edu	37	4	146059041	146059041	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	OTUD4,bladder,carcinoma,0,2	OTUD4	NM_001102653	exon21	c.T2691C	p.H897H	GGGAGGATGAGCC	.	101.0	6.0	112.0	1.0	.	0	2	Atlas-SNP
DENND1B	163486	hgsc.bcm.edu	37	1	197704897	197704897	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_001195216	exon3	c.C112G	p.P38A	CAGGGGGAATCCT	.	47.0	16.0	47.0	0.0	.	.	.	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91655323	91655323	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_001102368	exon9	c.C1004T	p.A335V	CCCATGCCCGCTC	.	87.0	17.0	106.0	0.0	.	.	.	Atlas-SNP
PGAP1	80055	hgsc.bcm.edu	37	2	197791204	197791204	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_024989	exon1	c.C137G	p.P46R	TACTCCGGGTACT	.	203.0	37.0	206.0	0.0	.	.	.	Atlas-SNP
MIER3	166968	hgsc.bcm.edu	37	5	56219302	56219302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_152622	exon13	c.G1303A	p.V435I	TTACAACAGGCAC	.	96.0	14.0	116.0	0.0	.	.	.	Atlas-SNP
LNX1-AS1	100873939	hgsc.bcm.edu	37	4	54373461	54373461	+	RNA	SNP	A	A	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	.	.	.	.	CCATCCAGCCTTA	.	63.0	20.0	79.0	0.0	.	.	.	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63935695	63935695	+	Missense_Mutation	SNP	T	T	C	rs375304469		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_003922	exon58	c.A11239G	p.I3747V	GAGTGATGTGTCC	.	295.0	92.0	358.0	0.0	.	.	.	Atlas-SNP
SETX	23064	hgsc.bcm.edu	37	9	135171355	135171355	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_015046	exon15	c.C6010G	p.L2004V	ACACGAGGACACG	.	84.0	43.0	118.0	0.0	.	.	.	Atlas-SNP
FLJ36000	0	hgsc.bcm.edu	37	17	21906338	21906338	+	RNA	SNP	G	G	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	.	.	.	.	TCCCACGGTTGTC	.	57.0	4.0	49.0	0.0	.	.	.	Atlas-SNP
IRX6	79190	hgsc.bcm.edu	37	16	55363165	55363165	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_024335	exon5	c.G1275T	p.A425A	CTGTGCGCCGTGC	.	65.0	15.0	60.0	0.0	.	.	.	Atlas-SNP
WDR4	10785	hgsc.bcm.edu	37	21	44273835	44273835	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_018669	exon9	c.G819A	p.L273L	GGCGTCCAGCTGG	.	48.0	6.0	36.0	0.0	.	.	.	Atlas-SNP
CRLF3	51379	hgsc.bcm.edu	37	17	29123252	29123252	+	Missense_Mutation	SNP	C	C	T	rs368117589	alternate_allele	TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	.	.	NM_015986	exon4	c.G529A	p.V177I	ATGCTACTGTTCC	.	94.0	22.0	100.0	0.0	.	.	.	Atlas-SNP
BDKRB2	624	hgsc.bcm.edu	37	14	96707057	96707057	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	BDKRB2,NS,carcinoma,0,1	BDKRB2	NM_000623	exon3	c.G392A	p.R131H	TCTGCCGCGTGGT	.	46.0	9.0	42.0	0.0	.	0	1	Atlas-SNP
ARFGEF2	10564	hgsc.bcm.edu	37	20	47588957	47588957	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAM3-01A-11D-A435-10	TCGA-2G-AAM3-10A-01D-A438-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	10f7b131-38a9-4636-87e4-f0556ade7b0f	fe8b69d7-9bb8-469d-a362-9b55620b0e07	ARFGEF2,NS,carcinoma,0,1	ARFGEF2	NM_006420	exon11	c.G1520C	p.C507S	GGATCTGTGCAGG	.	96.0	11.0	85.0	0.0	.	0	1	Atlas-SNP
