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	TTotCov	TVarCov	NTotCov	NVarCov	TVarRat	NVarRat	dbSNP_AF	dbSNP_PopFreq	dbSNP_Strength	COSMIC_Codon	COSMIC_Gene	COSMIC_Gene_Freq	COSMIC_Site_Freq	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	Confidence	Algorithm
EPB41L4A	64097	hgsc.bcm.edu	37	5	111500816	111500817	+	Splice_Site	INS	-	-	TAAAA	rs145708081	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	232	25	253	0	0.107759	0	-|0.025;TAAAA|0.975	0.975	strong	.	EPB41L4A	130	.	NM_022140	exon24	c.1933-1->TTTTA	.	.	.	PASS	Atlas-Indel
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346593	39346595	+	In_Frame_Del	DEL	CCT	CCT	-	rs377187211	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	81	30	63	0	0.37037	0	.	.	weak	KRTAP9-1_ENST00000398470,colon,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.454_456del	p.152_152del	.	.	PASS	Atlas-Indel
ZC3H18	124245	hgsc.bcm.edu	37	16	88675458	88675461	+	In_Frame_Del	DEL	GAGT	GAGT	-	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	GAGT	GAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	131	13	167	0	0.0992366	0	.	.	none	.	ZC3H18	90	.	NM_144604	exon7	c.1204_1206del	p.402_402del	.	.	PASS	Atlas-Indel
C14orf23	387978	hgsc.bcm.edu	37	14	29261305	29261306	+	RNA	INS	-	-	AAC	rs200251419	by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	112	14	164	0	0.125	0	-|0.668;AAC|0.332	0.332	strong	.	C14orf23	5	.	.	.	.	.	.	.	PASS	Atlas-Indel
SARM1	23098	hgsc.bcm.edu	37	17	26699199	26699200	+	Frame_Shift_Ins	INS	-	-	C	rs71135830	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	12	10	0	0	0.833333	.	C|1.000;|0.000	1.000	strong	.	SARM1	40	.	NM_015077	exon1	c.146_147insC	p.G49fs	.	.	PASS	Atlas-Indel
SARM1	23098	hgsc.bcm.edu	37	17	26699195	26699196	+	Frame_Shift_Ins	INS	-	-	G	rs11437592	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	12	11	0	0	0.916667	.	-|0.010;G|0.990	0.990	strong	.	SARM1	40	.	NM_015077	exon1	c.142_143insG	p.P48fs	.	.	PASS	Atlas-Indel
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346595	39346596	+	In_Frame_Ins	INS	-	-	GCTGTGGGTCCAGCTGCTGCCAGCCTA	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	85	19	77	.	0.224	.	.	.	none	KRTAP9-1_ENST00000398470,rectum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.457_458insGCTGTGGGTCCAGCTGCTGCCAGCCTA	p.C153delinsCCGSSCCQPS	.	.	PASS	Pindel
HIST1H1D	3007	hgsc.bcm.edu	37	6	26234939	26234939	+	Missense_Mutation	SNP	C	C	T	rs2050949	bycluster;byfrequency;byhapmap	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	195	10	201	1	0.0512821	0.00497512	C|0.998;T|0.002	0.002	strong	HIST1H1D,colon,carcinoma,+2,1	HIST1H1D	40	1	NM_005320	exon1	c.G223A	p.E75K	TTTTTTCTACATC	.	scavenged	Atlas-SNP
TBC1D8B	54885	hgsc.bcm.edu	37	X	106116883	106116883	+	Silent	SNP	T	T	A	rs140391999	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	236	20	232	0	0.0847458	0	T|0.999;C|0.001	.	alt	.	TBC1D8B	181	.	NM_017752	exon21	c.T3051A	p.A1017A	CATTGCTGTTGTA	.	PASS	Atlas-SNP
IST1	9798	hgsc.bcm.edu	37	16	71956517	71956517	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	64	8	69	2	0.125	0.0289855	.	.	none	KIAA0174,rectum,carcinoma,0,1	.	.	1	NM_001270976	exon8	c.C732A	p.P244P	AATGCCCATGCCC	.	scavenged	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	37	X	27766417	27766417	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	227	14	265	0	0.061674	0	.	.	none	.	DCAF8L2	79	.	NM_001136533	exon1	c.A1405G	p.N469D	AGAAATAATACCA	.	PASS	Atlas-SNP
CHEK2	11200	hgsc.bcm.edu	37	22	29091840	29091840	+	Missense_Mutation	SNP	T	T	C	rs74751600		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	122	4	103	2	0.0327869	0.0194175	.	.	weak	CHEK2,NS,carcinoma,0,36	CHEK2	438	36	NM_001005735	exon12	c.A1246G	p.K416E	AAATCTTGGAGTG	.	scavenged	Atlas-SNP
OR4C3	256144	hgsc.bcm.edu	37	11	48346855	48346855	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	349	7	330	1	0.0200573	0.0030303	.	.	none	OR4C3,NS,carcinoma,0,1	OR4C3	75	1	NM_001004702	exon1	c.C363T	p.C121C	TGAGTGCTGCATG	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284823	152284823	+	Missense_Mutation	SNP	A	A	G	rs74129459	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	166	4	213	2	0.0240964	0.00938967	A|0.984;T|0.016	.	alt	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.T2539C	p.S847P	TGCTTGACCCCGG	.	scavenged	Atlas-SNP
AMER1	139285	hgsc.bcm.edu	37	X	63412763	63412763	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	125	10	146	0	0.08	0	.	.	none	.	.	.	.	NM_152424	exon2	c.G404T	p.G135V	AAAGCCCCATGGG	.	PASS	Atlas-SNP
ADRM1	11047	hgsc.bcm.edu	37	20	60878686	60878686	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	35	6	30	0	0.171429	0	.	.	none	.	ADRM1	28	.	NM_175573	exon2	c.A62G	p.K21R	CCAACAAGTACTT	.	PASS	Atlas-SNP
GNPTAB	79158	hgsc.bcm.edu	37	12	102158979	102158979	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	158	11	147	0	0.0696203	0	.	.	none	GNPTAB,NS,carcinoma,-1,1	GNPTAB	120	1	NM_024312	exon13	c.C1716T	p.A572A	TCTTTTGGCTACT	.	PASS	Atlas-SNP
GPR82	27197	hgsc.bcm.edu	37	X	41586775	41586775	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	192	16	216	0	0.0833333	0	.	.	none	.	GPR82	52	.	NM_080817	exon3	c.A496G	p.I166V	CTGGGCATAATCA	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109381816	109381816	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	313	4	320	1	0.0127796	0.003125	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,4	RANBP2	488	4	NM_006267	exon20	c.G4821A	p.E1607E	GAAGGAGGGACAG	.	scavenged	Atlas-SNP
IRF5	3663	hgsc.bcm.edu	37	7	128587381	128587381	+	Silent	SNP	T	T	C	rs79724471	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	70	14	49	0	0.2	0	T|0.661;C|0.339	0.339	strong	.	IRF5	40	.	NM_001098629	exon6	c.T579C	p.P193P	GCCGCCTACTCTG	.	PASS	Atlas-SNP
ERGIC2	51290	hgsc.bcm.edu	37	12	29514613	29514613	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	143	8	131	0	0.0559441	0	.	.	none	ERGIC2,NS,carcinoma,-2,1	ERGIC2	29	1	NM_016570	exon6	c.A339G	p.V113V	ATCAAATACTGTC	.	PASS	Atlas-SNP
SIM2	6493	hgsc.bcm.edu	37	21	38072069	38072069	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	92	5	105	0	0.0543478	0	.	.	none	.	SIM2	55	.	NM_005069	exon1	c.C23T	p.A8V	AGAATGCGGCCAA	.	PASS	Atlas-SNP
SH3PXD2A	9644	hgsc.bcm.edu	37	10	105362350	105362350	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	104	5	113	0	0.0480769	0	.	.	none	.	SH3PXD2A	90	.	NM_014631	exon14	c.C2541T	p.S847S	CCACCCGCTCTCC	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91883122	91883122	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	88	6	87	0	0.0681818	0	.	.	none	.	CCDC88C	192	.	NM_001080414	exon2	c.T121G	p.L41V	CCACTAAATCCAT	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733227	52733227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	215	7	231	4	0.0325581	0.017316	.	.	none	PCMTD1,trunk,malignant_melanoma,0,3	PCMTD1	73	3	NM_052937	exon6	c.G758A	p.R253H	AGTGTGCGTCGAA	.	scavenged	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52198348	52198348	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	259	24	221	0	0.0926641	0	.	.	none	.	ZNF217	227	.	NM_006526	exon1	c.A1018T	p.S340C	CACAACTGCCCTT	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70976724	70976724	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	140	7	182	0	0.05	0	.	.	none	UACA_ENST00000322954,colon,carcinoma,+1,2	UACA	235	2	NM_018003	exon8	c.A664G	p.N222D	CACCATTTTTAAT	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388974	1388974	+	Silent	SNP	T	T	C	rs71614969	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	42	8	47	8	0.190476	0.170213	C|1.000;|0.000	1.000	weak	CRIPAK,rectum,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.T675C	p.D225D	TGCCGATGCGGAG	.	scavenged	Atlas-SNP
PRB4	5545	hgsc.bcm.edu	37	12	11461566	11461566	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	190	4	235	2	0.0210526	0.00851064	.	.	none	PRB4,caecum,carcinoma,-1,2	PRB4	59	2	NM_002723	exon3	c.A351G	p.P117P	CTTTCCTGGAGGA	.	scavenged	Atlas-SNP
ZNF676	163223	hgsc.bcm.edu	37	19	22363610	22363610	+	Silent	SNP	A	A	G	rs201622264	bycluster;byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	52	11	75	10	0.211538	0.133333	A|0.793;G|0.207	0.207	strong	ZNF676,rectum,carcinoma,0,2	ZNF676	146	2	NM_001001411	exon3	c.T909C	p.H303H	TCCAGTATGAATT	.	scavenged	Atlas-SNP
UNC13B	10497	hgsc.bcm.edu	37	9	35399645	35399645	+	Splice_Site	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	61	6	59	0	0.0983607	0	.	.	none	.	UNC13B	153	.	NM_006377	exon35	c.4009-1G>T	.	TGAACAGGATCAC	.	PASS	Atlas-SNP
AGAP6	414189	hgsc.bcm.edu	37	10	51768543	51768543	+	Missense_Mutation	SNP	T	T	C	rs76153144		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	116	3	113	0	0.0258621	0	T|0.500;C|0.500	0.500	weak	AGAP6,NS,carcinoma,0,3	AGAP6	53	3	NM_001077665	exon8	c.T658C	p.S220P	ATTCCATCGACTC	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280084	152280084	+	Silent	SNP	G	G	A	rs200015722	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	199	15	225	0	0.0753769	0	G|0.999;A|0.001	0.001	weak	.	FLG	900	.	NM_002016	exon3	c.C7278T	p.S2426S	ATGGGCGGACTCA	.	PASS	Atlas-SNP
EIF2B5	8893	hgsc.bcm.edu	37	3	183853228	183853228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	151	7	171	0	0.0463576	0	.	.	none	.	EIF2B5	62	.	NM_003907	exon1	c.C55T	p.R19C	AACAAGCGCAGCG	.	PASS	Atlas-SNP
CD200R1L	344807	hgsc.bcm.edu	37	3	112546302	112546302	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	297	4	360	0	0.013468	0	.	.	none	CD200R1L,colon,carcinoma,-1,1	CD200R1L	47	1	NM_001008784	exon3	c.G342A	p.P114P	GTCCACCGGACGA	.	scavenged	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11546314	11546314	+	Missense_Mutation	SNP	T	T	C	rs34305575	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	896	21	946	10	0.0234375	0.0105708	T|0.891;C|0.109	0.109	strong	PRB2_ENST00000389362,NS,carcinoma,0,2	PRB2	168	2	NM_006248	exon3	c.A698G	p.Q233R	GCACTTTGGGACT	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234727	45234727	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	213	9	261	4	0.0422535	0.0153257	.	.	none	CDC27_ENST00000531206,NS,carcinoma,+2,10	CDC27	337	10	NM_001114091	exon6	c.A499T	p.T167S	TAAATGTTTGGTC	.	scavenged	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231774792	231774792	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	80	4	80	0	0.05	0	.	.	none	GPR55,colon,carcinoma,+1,1	GPR55	46	1	NM_005683	exon2	c.C886T	p.R296C	TCATGCGGAATTC	.	PASS	Atlas-SNP
F8	2157	hgsc.bcm.edu	37	X	154221377	154221377	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	231	16	320	0	0.0692641	0	.	.	none	.	F8	646	.	NM_000132	exon4	c.T435A	p.D145E	GACTTTATCATCT	.	PASS	Atlas-SNP
ZNF799	90576	hgsc.bcm.edu	37	19	12501907	12501907	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	200	7	204	2	0.035	0.00980392	.	.	none	ZNF799_ENST00000430385,NS,carcinoma,0,2	ZNF799	111	2	NM_001080821	exon4	c.T1305C	p.S435S	TCGAAGAGAACTG	.	scavenged	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924294	70924294	+	Silent	SNP	C	C	T	rs61738695	byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	239	9	255	5	0.0376569	0.0196078	C|0.779;T|0.221	0.221	strong	ADAM21_ENST00000267499,NS,malignant_melanoma,+1,4	ADAM21	181	4	NM_003813	exon2	c.C78T	p.S26S	TATTTCCGGCTAC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509374	195509374	+	Missense_Mutation	SNP	T	T	G	rs62282479		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	65	15	67	13	0.230769	0.19403	.	.	weak	MUC4_ENST00000463781,extremity,malignant_melanoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A9077C	p.H3026P	GTGACATGAAGAG	.	scavenged	Atlas-SNP
OR4D10	390197	hgsc.bcm.edu	37	11	59244978	59244978	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	175	17	147	0	0.0971429	0	.	.	none	.	OR4D10	120	.	NM_001004705	exon1	c.G76C	p.V26L	AGCTTAGTCTTAT	.	PASS	Atlas-SNP
NUMBL	9253	hgsc.bcm.edu	37	19	41173904	41173904	+	Silent	SNP	T	T	C	rs79658769		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	29	8	45	1	0.275862	0.0222222	C|1.000;|0.000	1.000	weak	NUMBL,colon,carcinoma,0,2	NUMBL	49	2	NM_004756	exon10	c.A1299G	p.Q433Q	TTGCTGTTGCTGC	.	scavenged	Atlas-SNP
LRRTM4	80059	hgsc.bcm.edu	37	2	77745507	77745507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	92	2	113	0	0.0217391	0	.	.	none	LRRTM4_ENST00000409093,larynx,carcinoma,0,2	LRRTM4	334	2	NM_024993	exon3	c.G1488A	p.M496I	TATATCCATGGTC	.	scavenged	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733214	52733214	+	Missense_Mutation	SNP	A	A	C	rs200377849		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	231	4	247	3	0.017316	0.0121457	.	.	weak	PCMTD1,trunk,malignant_melanoma,0,1	PCMTD1	73	1	NM_052937	exon6	c.T771G	p.N257K	TATGAAATTTCTA	.	scavenged	Atlas-SNP
ATRX	546	hgsc.bcm.edu	37	X	76907651	76907651	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	255	15	303	0	0.0588235	0	.	.	none	.	ATRX	833	.	NM_000489	exon15	c.C4510T	p.R1504X	GTTTTCGTCTCTC	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676279	56676279	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	205	18	234	10	0.0878049	0.042735	.	.	none	CS,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	CS	44	1	NM_004077	exon6	c.T513C	p.A171A	TGTAACAGCTGCA	.	scavenged	Atlas-SNP
LTB	4050	hgsc.bcm.edu	37	6	31548738	31548738	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	51	4	58	0	0.0784314	0	.	.	none	.	LTB	19	.	NM_002341	exon4	c.C483T	p.S161S	CAGAGAGCTGCGC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9002597	9002597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	118	12	140	13	0.101695	0.0928571	.	.	none	MUC16_ENST00000397910,NS,lymphoid_neoplasm,0,2	MUC16	4315	2	NM_024690	exon51	c.G40219A	p.D13407N	CTCTGTCCAGTCC	.	scavenged	Atlas-SNP
ASXL3	80816	hgsc.bcm.edu	37	18	31326209	31326209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	110	7	164	0	0.0636364	0	.	.	none	.	ASXL3	405	.	NM_030632	exon12	c.C6397T	p.P2133S	CAAAAGCCTTTTA	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216424362	216424362	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	103	7	124	0	0.0679612	0	.	.	none	.	USH2A	1168	.	NM_007123	exon12	c.C2050A	p.Q684K	ACTCTTGTAGATT	.	PASS	Atlas-SNP
MAGI1	9223	hgsc.bcm.edu	37	3	65425603	65425603	+	Silent	SNP	T	T	C	rs62642828	byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	123	6	122	0	0.0487805	0	T|0.742;C|0.258	0.258	strong	.	MAGI1	481	.	NM_001033057	exon9	c.A1221G	p.Q407Q	CTGCTGTTGCTGC	.	PASS	Atlas-SNP
ZFPM2	23414	hgsc.bcm.edu	37	8	106813894	106813894	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	78	3	97	0	0.0384615	0	.	.	none	ZFPM2,NS,carcinoma,+2,1	ZFPM2	219	1	NM_012082	exon8	c.G1584T	p.L528L	GCGACTGAGGCAT	.	scavenged	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	37	20	8352096	8352096	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	86	5	82	0	0.0581395	0	.	.	none	PLCB1_ENST00000378641,caecum,carcinoma,0,2	PLCB1	394	2	NM_015192	exon3	c.A245C	p.E82A	CTCCCAAGGTAGG	.	PASS	Atlas-SNP
HSD17B7	51478	hgsc.bcm.edu	37	1	162769603	162769603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	364	9	435	6	0.0247253	0.0137931	.	.	none	HSD17B7,NS,carcinoma,0,5	HSD17B7	25	5	NM_016371	exon5	c.G518A	p.S173N	CTCGCAGTGCAAG	.	scavenged	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085795	17085795	+	Silent	SNP	G	G	T	rs1057379	bycluster;byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	74	12	67	3	0.162162	0.0447761	G|0.809;T|0.191	0.191	strong	Q13209_HUMAN,NS,carcinoma,0,6	.	.	6	NM_001271733	exon8	c.C1026A	p.I342I	ACGCCGGATCTGG	.	scavenged	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851661	97851661	+	Missense_Mutation	SNP	G	G	T	rs200721525	byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	540	7	559	4	0.012963	0.00715563	G|0.982;T|0.018	0.018	strong	OR5H1,NS,carcinoma,0,7	OR5H1	71	7	NM_001005338	exon1	c.G120T	p.M40I	CATCATGGGGAAT	.	scavenged	Atlas-SNP
PROKR1	10887	hgsc.bcm.edu	37	2	68882188	68882188	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	88	6	88	0	0.0681818	0	.	.	none	.	PROKR1	69	.	NM_138964	exon2	c.G662A	p.W221X	AGATCTGGCCTGT	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723881	49723881	+	Missense_Mutation	SNP	G	G	C	rs6777426	bycluster;byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	92	5	80	1	0.0543478	0.0125	G|0.986;C|0.014	0.014	strong	MST1,extremity,malignant_melanoma,0,1	MST1	84	1	NM_020998	exon8	c.C881G	p.T294S	CTGACAGTTGTGG	.	scavenged	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676232	56676232	+	Missense_Mutation	SNP	T	T	C	rs77708038	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	182	11	188	1	0.0604396	0.00531915	T|0.994;C|0.006	0.006	weak	CS,NS,adenoma,0,1	CS	44	1	NM_004077	exon6	c.A560G	p.Q187R	ATACCCTGTGCAT	.	scavenged	Atlas-SNP
KAT2B	8850	hgsc.bcm.edu	37	3	20178459	20178459	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	100	7	141	0	0.07	0	.	.	none	KAT2B,trunk,malignant_melanoma,+1,1	KAT2B	73	1	NM_003884	exon12	c.A1775G	p.H592R	TGAATCATTTGAA	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	37	10	70405864	70405864	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	121	14	115	0	0.115702	0	.	.	none	.	TET1	255	.	NM_030625	exon4	c.A3378G	p.K1126K	ACAGAAACCACCT	.	PASS	Atlas-SNP
COPS3	8533	hgsc.bcm.edu	37	17	17163724	17163724	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	173	19	173	0	0.109827	0	.	.	none	.	COPS3	41	.	NM_003653	exon8	c.G827A	p.R276Q	AGGTTTCGGAGTT	.	PASS	Atlas-SNP
TECPR2	9895	hgsc.bcm.edu	37	14	102894692	102894692	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	297	14	305	0	0.047138	0	.	.	none	.	TECPR2	114	.	NM_001172631	exon7	c.A1057G	p.S353G	ATTTCAAGCAGGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509429	195509429	+	Missense_Mutation	SNP	A	A	G	rs28542401	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	77	6	85	2	0.0779221	0.0235294	A|0.389;C|0.096;G|0.515	0.515	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.T9022C	p.S3008P	GAAGAGAGGTGGC	.	scavenged	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72347482	72347482	+	Silent	SNP	T	T	C	rs12327359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	95	5	101	0	0.0526316	0	T|0.567;C|0.433	0.433	strong	ZNF407,NS,carcinoma,0,1	ZNF407	231	1	NM_001146190	exon1	c.T4507C	p.L1503L	TTATTTTTACATA	.	PASS	Atlas-SNP
ATG4A	115201	hgsc.bcm.edu	37	X	107396261	107396261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	469	33	565	0	0.0703625	0	.	.	none	.	ATG4A	68	.	NM_052936	exon12	c.C1070T	p.S357L	ATCCATCACACTG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910335	29910335	+	Missense_Mutation	SNP	C	C	T	rs200058378		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	67	5	89	1	0.0746269	0.011236	C|0.999;T|0.001	0.001	weak	HLA-A,NS,carcinoma,-1,1	HLA-A	89	1	NM_001242758	exon1	c.C5T	p.A2V	GGATGGCCGTCAT	.	scavenged	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1258241	1258241	+	Silent	SNP	A	A	G	rs79773885	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	38	5	43	5	0.131579	0.116279	A|0.500;G|0.500	0.500	weak	MUC5B,NS,carcinoma,+2,2	MUC5B	473	2	NM_002458	exon25	c.A3144G	p.A1048A	GGACGCACTGGAG	.	scavenged	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52193210	52193210	+	Missense_Mutation	SNP	G	G	A	rs369074794		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	160	18	174	0	0.1125	0	.	.	weak	.	ZNF217	227	.	NM_006526	exon3	c.C2093T	p.P698L	ATTGCCGGGCAAT	.	PASS	Atlas-SNP
FOXN3	1112	hgsc.bcm.edu	37	14	89628930	89628930	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	151	5	173	0	0.0331126	0	.	.	none	FOXN3,NS,carcinoma,0,1	FOXN3	78	1	NM_001085471	exon7	c.C1301A	p.T434K	GGCAGTGTGTCGC	.	scavenged	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	37	11	55032609	55032609	+	Missense_Mutation	SNP	C	C	T	rs146290222	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	467	5	613	2	0.0107066	0.00326264	C|0.997;T|0.003	0.003	strong	TRIM48_ENST00000417545,NS,carcinoma,0,2	TRIM48	149	2	NM_024114	exon2	c.C278T	p.A93V	CCCTTGCCAGAAA	.	scavenged	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240796	39240796	+	Missense_Mutation	SNP	G	G	C	rs199957151		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	33	4	11	0	0.121212	0	.	.	weak	KRTAP4-7,NS,carcinoma,+1,1	KRTAP4-7	49	1	NM_033061	exon1	c.G338C	p.S113T	GCCCCAGCTGCTG	.	scavenged	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140552992	140552992	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	121	4	119	0	0.0330578	0	.	.	none	PCDHB7,bladder,carcinoma,0,1	PCDHB7	231	1	NM_018940	exon1	c.C576T	p.P192P	CTATCCCGAATTG	.	scavenged	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14797834	14797834	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	258	19	281	0	0.0736434	0	.	.	none	.	ANKRD30B	237	.	NM_001145029	exon20	c.C2010T	p.D670D	AAAGGACAGAGAA	.	PASS	Atlas-SNP
PPP3R2	5535	hgsc.bcm.edu	37	9	104356771	104356771	+	Missense_Mutation	SNP	C	C	T	rs140969417	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	126	4	134	0	0.031746	0	C|1.000;T|0.000	0.000	strong	PPP3R2,caecum,carcinoma,+2,2	PPP3R2	38	2	NM_147180	exon1	c.G442A	p.D148N	TCCCATCGCCATC	.	scavenged	Atlas-SNP
GALNS	2588	hgsc.bcm.edu	37	16	88901673	88901673	+	Silent	SNP	G	G	A	rs35232749	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	60	5	90	0	0.0833333	0	G|0.965;A|0.035	0.035	strong	.	GALNS	37	.	NM_000512	exon8	c.C846T	p.F282F	GAAGACGAAGGTG	.	PASS	Atlas-SNP
FANK1	92565	hgsc.bcm.edu	37	10	127585212	127585212	+	Missense_Mutation	SNP	A	A	T	rs145156460	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	72	3	73	2	0.0416667	0.0273973	.	.	weak	FANK1,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	FANK1	46	2	NM_145235	exon1	c.A1T	p.M1L	CCGACCATGGAGC	.	scavenged	Atlas-SNP
FBXO38	81545	hgsc.bcm.edu	37	5	147813265	147813265	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	226	10	275	0	0.0442478	0	.	.	none	.	FBXO38	115	.	NM_030793	exon17	c.T2597C	p.V866A	ATCTAGTGCTAAA	.	PASS	Atlas-SNP
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346591	39346591	+	Silent	SNP	C	C	T	rs76923645		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	81	30	64	0	0.37037	0	C|0.500;T|0.500	0.500	weak	KRTAP9-1_ENST00000398470,caecum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.C453T	p.P151P	CCAGCCCACCTGC	.	scavenged	Atlas-SNP
OGG1	4968	hgsc.bcm.edu	37	3	9792009	9792009	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	119	12	110	0	0.10084	0	.	.	none	.	OGG1	57	.	NM_016819	exon1	c.T39G	p.H13Q	GGGGCATCGTACT	.	PASS	Atlas-SNP
CBWD3	445571	hgsc.bcm.edu	37	9	70871836	70871836	+	Splice_Site	SNP	C	C	G	rs76283403		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	1490	29	1510	17	0.0194631	0.0112583	C|0.500;G|0.500	0.500	weak	CBWD3,rectum,carcinoma,-1,1	CBWD3	10	1	NM_201453	exon5	c.431-1C>G	.	TTTTCACGTGCAG	.	scavenged	Atlas-SNP
ZNF343	79175	hgsc.bcm.edu	37	20	2464182	2464182	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	85	3	108	0	0.0352941	0	.	.	none	ZNF343,NS,carcinoma,0,1	ZNF343	47	1	NM_024325	exon6	c.T1425C	p.S475S	TTTCCGACTAAAG	.	scavenged	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55872537	55872537	+	Missense_Mutation	SNP	A	A	G	rs61746549	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	121	6	148	1	0.0495868	0.00675676	A|0.999;G|0.001	0.001	strong	OR8H2,colon,carcinoma,0,3	OR8H2	117	3	NM_001005200	exon1	c.A19G	p.N7D	AGGAATAACACAA	.	scavenged	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52198483	52198483	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	155	10	172	0	0.0645161	0	.	.	none	.	ZNF217	227	.	NM_006526	exon1	c.A883C	p.T295P	GGAAGGTGGTGAA	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104449271	104449271	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	172	12	169	0	0.0697674	0	.	.	none	.	GRIN3A	186	.	NM_133445	exon2	c.C911T	p.T304I	TCCTGGGTGGAGG	.	PASS	Atlas-SNP
PCDHA2	56146	hgsc.bcm.edu	37	5	140175218	140175218	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	73	2	76	0	0.0273973	0	.	.	none	PCDHA2_ENST00000526136,NS,carcinoma,+1,2	PCDHA2	404	2	NM_031495	exon1	c.G669A	p.T223T	GCTCACGGGCACC	.	scavenged	Atlas-SNP
CHEK2	11200	hgsc.bcm.edu	37	22	29091841	29091841	+	Silent	SNP	G	G	A	rs79357544		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	122	4	101	2	0.0327869	0.019802	.	.	weak	CHEK2,bladder,carcinoma,0,38	CHEK2	438	38	NM_001005735	exon12	c.C1245T	p.S415S	AATCTTGGAGTGC	.	scavenged	Atlas-SNP
LLPH	84298	hgsc.bcm.edu	37	12	66522820	66522820	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	464	23	458	19	0.049569	0.0414847	.	.	none	LLPH,NS,carcinoma,0,1	LLPH	25	1	NM_032338	exon2	c.C67G	p.P23A	CCTTTGGGGCATT	.	scavenged	Atlas-SNP
MYC	4609	hgsc.bcm.edu	37	8	128751013	128751013	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	53	4	56	0	0.0754717	0	.	.	none	.	MYC	168	.	NM_002467	exon2	c.A550T	p.S184C	GGCCACAGCGTCT	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16327915	16327915	+	Missense_Mutation	SNP	A	A	C	rs11969612	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	58	16	37	1	0.275862	0.027027	A|0.571;C|0.429	0.429	strong	ATXN1,colon,carcinoma,0,1	ATXN1	117	1	NM_001128164	exon7	c.T627G	p.H209Q	ATGCTGATGCTGC	.	scavenged	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215855677	215855677	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	87	4	92	0	0.045977	0	.	.	none	.	ABCA12	368	.	NM_173076	exon24	c.A3373C	p.T1125P	CGATGGTAACCAG	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109392255	109392255	+	Missense_Mutation	SNP	T	T	G	rs367864778		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	100	5	138	0	0.05	0	.	.	weak	.	RANBP2	488	.	NM_006267	exon24	c.T8360G	p.V2787G	TGATGGTACCTTC	.	PASS	Atlas-SNP
GPD2	2820	hgsc.bcm.edu	37	2	157369859	157369859	+	Missense_Mutation	SNP	C	C	T	rs143467322		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	166	7	170	0	0.0421687	0	C|1.000;T|0.000	0.000	weak	.	GPD2	59	.	NM_001083112	exon6	c.C512T	p.P171L	AGTTACCTTACTA	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676233	56676233	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	185	12	192	1	0.0648649	0.00520833	.	.	none	CS,NS,adenoma,+1,1	CS	44	1	NM_004077	exon6	c.C559T	p.Q187X	TACCCTGTGCATA	.	scavenged	Atlas-SNP
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346622	39346622	+	Missense_Mutation	SNP	T	T	A	rs79470847	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	98	19	69	0	0.193878	0	T|0.500;A|0.500	0.500	weak	KRTAP9-1_ENST00000398470,caecum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.T484A	p.C162S	CAGCCTTGCTGCC	.	PASS	Atlas-SNP
FAM120A	23196	hgsc.bcm.edu	37	9	96318697	96318697	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	171	15	155	0	0.0877193	0	.	.	none	.	FAM120A	105	.	NM_014612	exon13	c.T2308G	p.S770A	CAGCTATCAGCTC	.	PASS	Atlas-SNP
BCAP29	55973	hgsc.bcm.edu	37	7	107236323	107236323	+	Missense_Mutation	SNP	G	G	A	rs115169101	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	202	10	220	0	0.049505	0	G|1.000;A|0.000	0.000	strong	BCAP29,colon,carcinoma,+1,1	BCAP29	46	1	NM_018844	exon5	c.G356A	p.R119H	TGAGACGTCTGGT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017797	1017797	+	Silent	SNP	C	C	G	rs76800954	bycluster;byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	670	57	877	78	0.0850746	0.0889396	C|0.500;G|0.500	0.500	strong	MUC6_ENST00000421673,NS,carcinoma,-1,2	MUC6	408	2	NM_005961	exon31	c.G5004C	p.A1668A	TGTTGGCGCTGTG	.	scavenged	Atlas-SNP
JAG1	182	hgsc.bcm.edu	37	20	10620386	10620386	+	Silent	SNP	A	A	G	rs1051419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	468	6	484	0	0.0128205	0	G|0.694;C|0.000;A|0.306	0.694	strong	JAG1_ENST00000254958,NS,carcinoma,0,1	JAG1	213	1	NM_000214	exon26	c.T3417C	p.Y1139Y	GTTCTCATAATCC	.	scavenged	Atlas-SNP
TP53	7157	hgsc.bcm.edu	37	17	7577565	7577565	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	84	3	103	0	0.0357143	0	.	.	none	TP53_ENST00000545858,NS,carcinoma,-1,145	TP53	33396	145	NM_000546	exon7	c.A716G	p.N239S	GAACTGTTACACA	.	scavenged	Atlas-SNP
DOPEY1	23033	hgsc.bcm.edu	37	6	83849764	83849764	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	169	8	208	0	0.0473373	0	.	.	none	.	DOPEY1	190	.	NM_015018	exon22	c.T5166C	p.T1722T	TCTTACTCTTTTG	.	PASS	Atlas-SNP
NUBPL	80224	hgsc.bcm.edu	37	14	32142594	32142594	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	353	17	382	0	0.0481586	0	.	.	none	.	NUBPL	21	.	NM_025152	exon5	c.T416G	p.I139S	ATGGTATTGCTTG	.	PASS	Atlas-SNP
RNF19A	25897	hgsc.bcm.edu	37	8	101276899	101276899	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	108	8	114	0	0.0740741	0	.	.	none	.	RNF19A	67	.	NM_015435	exon7	c.G1306A	p.G436S	TCTTACCTACAGT	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851659	97851659	+	Missense_Mutation	SNP	A	A	T	rs199787047	byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	526	7	546	4	0.013308	0.00732601	A|0.978;T|0.022	0.022	strong	OR5H1,NS,carcinoma,-2,7	OR5H1	71	7	NM_001005338	exon1	c.A118T	p.M40L	ACCATCATGGGGA	.	scavenged	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448539	89448539	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	197	7	245	2	0.035533	0.00816326	.	.	none	CCBL2,NS,carcinoma,-1,1	.	.	1	NM_001162536	exon3	c.G971C	p.R324P	CTGTCTCGACTTC	.	scavenged	Atlas-SNP
C2orf44	80304	hgsc.bcm.edu	37	2	24253911	24253911	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	256	4	284	0	0.015625	0	.	.	none	C2orf44,bladder,carcinoma,-1,1	C2orf44	56	1	NM_025203	exon4	c.T2058C	p.S686S	AGAAAAAGAGTCT	.	scavenged	Atlas-SNP
SMPDL3A	10924	hgsc.bcm.edu	37	6	123116916	123116916	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	242	10	265	0	0.0413223	0	.	.	none	.	SMPDL3A	31	.	NM_006714	exon2	c.T207C	p.N69N	TGCAAATGCCTCC	.	PASS	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45003779	45003779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	95	7	81	0	0.0736842	0	.	.	none	B2M,colon,carcinoma,0,2	B2M	99	2	NM_004048	exon1	c.T35C	p.L12P	TCGCGCTACTCTC	.	PASS	Atlas-SNP
ELF4	2000	hgsc.bcm.edu	37	X	129201410	129201410	+	Silent	SNP	C	C	T	rs369363653		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	146	9	139	0	0.0616438	0	.	.	weak	.	ELF4	67	.	NM_001421	exon9	c.G1278A	p.T426T	CAGCACCGTGGTC	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	38053568	38053568	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	144	27	147	0	0.1875	0	.	.	none	.	TBC1D1	94	.	NM_001253912	exon12	c.T1959C	p.S653S	TCAGTCTTCAGCT	.	PASS	Atlas-SNP
FBP2	8789	hgsc.bcm.edu	37	9	97346890	97346890	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	78	8	64	0	0.102564	0	.	.	none	.	FBP2	26	.	NM_003837	exon3	c.C395G	p.S132C	CCGATGGAGGCCA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72831382	72831382	+	Silent	SNP	T	T	C	rs112722798	bycluster;byfrequency	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	112	3	134	0	0.0267857	0	T|0.999;C|0.001	0.001	strong	ZFHX3,NS,carcinoma,0,1	ZFHX3	404	1	NM_006885	exon9	c.A5199G	p.Q1733Q	TTGTTGTTGTTGC	.	scavenged	Atlas-SNP
HTATSF1	27336	hgsc.bcm.edu	37	X	135593333	135593333	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	139	10	124	0	0.0719424	0	.	.	none	.	HTATSF1	66	.	NM_001163280	exon10	c.G1429A	p.E477K	GGGTTTGAAGGCA	.	PASS	Atlas-SNP
TMSB4X	7114	hgsc.bcm.edu	37	X	12994394	12994394	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	323	20	348	0	0.0619195	0	.	.	none	.	TMSB4X	3	.	NM_021109	exon2	c.C14G	p.P5R	ACAAACCCGATAT	.	PASS	Atlas-SNP
IRF5	3663	hgsc.bcm.edu	37	7	128587374	128587374	+	Missense_Mutation	SNP	G	G	A	rs113806178	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	89	22	48	0	0.247191	0	G|0.714;A|0.286	0.286	strong	IRF5,NS,haematopoietic_neoplasm,0,2	IRF5	40	2	NM_001098629	exon6	c.G572A	p.R191Q	CTCTGCGGCCGCC	.	PASS	Atlas-SNP
IL13RA1	3597	hgsc.bcm.edu	37	X	117907928	117907928	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	92	6	89	0	0.0652174	0	.	.	none	.	IL13RA1	41	.	NM_001560	exon9	c.T1096A	p.Y366N	CTGCTTTACCTAA	.	PASS	Atlas-SNP
PMPCB	9512	hgsc.bcm.edu	37	7	102937911	102937911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	95	9	93	0	0.0947368	0	.	.	none	.	PMPCB	35	.	NM_004279	exon1	c.C5T	p.A2V	AAATGGCGGCTGC	.	PASS	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	37	2	209218719	209218719	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	128	7	150	0	0.0546875	0	.	.	none	.	PIKFYVE	223	.	NM_015040	exon40	c.A5942G	p.K1981R	TCCTAAAGATGGT	.	PASS	Atlas-SNP
PDLIM4	8572	hgsc.bcm.edu	37	5	131607911	131607911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	52	6	44	0	0.115385	0	.	.	none	.	PDLIM4	22	.	NM_003687	exon7	c.G982A	p.E328K	AAGGTGGAACTCG	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	37	2	186671112	186671112	+	Silent	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	195	8	206	0	0.0410256	0	.	.	none	.	FSIP2	251	.	NM_173651	exon17	c.T17346G	p.S5782S	ATCTTCTTCTCCA	.	PASS	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	37	12	2794937	2794937	+	Missense_Mutation	SNP	C	C	T	rs201777030		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	53	6	62	5	0.113208	0.0806452	.	.	weak	Q6YL47_HUMAN,trunk,malignant_melanoma,0,3	CACNA1C	1023	3	NM_199460	exon47	c.C5858T	p.T1953M	AACTGACGCTCCC	.	scavenged	Atlas-SNP
BTC	685	hgsc.bcm.edu	37	4	75681165	75681165	+	Missense_Mutation	SNP	C	C	T	rs375367986		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	276	6	275	0	0.0217391	0	.	.	weak	BTC,NS,carcinoma,-1,3	BTC	23	3	NM_001729	exon3	c.G185A	p.R62Q	CCTTTCCGCTTTG	.	scavenged	Atlas-SNP
GPR82	27197	hgsc.bcm.edu	37	X	41586752	41586752	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	208	18	228	0	0.0865385	0	.	.	none	.	GPR82	52	.	NM_080817	exon3	c.A473C	p.Y158S	GCATTTACATATG	.	PASS	Atlas-SNP
FAM72B	653820	hgsc.bcm.edu	37	1	120846059	120846059	+	Missense_Mutation	SNP	G	G	A	rs17846387		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	689	13	847	8	0.0188679	0.0094451	.	.	weak	FAM72B,NS,carcinoma,0,1	FAM72B	10	1	NM_001100910	exon3	c.G295A	p.G99R	AACAACGGACACT	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179429212	179429212	+	Missense_Mutation	SNP	C	C	A	rs371910831	alternate_allele	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	211	3	222	0	0.014218	0	.	.	alt	TTN_ENST00000359218,colon,carcinoma,-1,6	TTN	18412	6	NM_001267550	exon326	c.G81647T	p.R27216L	ATCCAGCGGCCAT	.	scavenged	Atlas-SNP
RBM10	8241	hgsc.bcm.edu	37	X	47045745	47045745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	204	16	167	0	0.0784314	0	.	.	none	.	RBM10	117	.	NM_001204468	exon23	c.G2821A	p.G941S	GGCAGCGGCCTGG	.	PASS	Atlas-SNP
PLCZ1	89869	hgsc.bcm.edu	37	12	18841114	18841114	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	93	7	94	0	0.0752688	0	.	.	none	.	PLCZ1	107	.	NM_033123	exon13	c.A1500G	p.S500S	GTTAGATGATGAA	.	PASS	Atlas-SNP
ADRM1	11047	hgsc.bcm.edu	37	20	60878716	60878716	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	37	7	36	0	0.189189	0	.	.	none	.	ADRM1	28	.	NM_175573	exon2	c.T92G	p.M31R	GAAAGATGTCCCT	.	PASS	Atlas-SNP
OR4C13	283092	hgsc.bcm.edu	37	11	49974680	49974680	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	185	9	227	0	0.0486486	0	.	.	none	.	OR4C13	96	.	NM_001001955	exon1	c.T706A	p.S236T	GCCCTCTCTACCT	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237872827	237872827	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	148	3	179	0	0.0202703	0	.	.	none	RYR2,NS,carcinoma,0,1	RYR2	1273	1	NM_001035	exon70	c.G10190T	p.R3397L	TCTTCCGCATGGT	.	scavenged	Atlas-SNP
C4orf48	401115	hgsc.bcm.edu	37	4	2044128	2044128	+	Missense_Mutation	SNP	C	C	T	rs570712	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	7	7	0	0	1	.	C|0.139;T|0.861	0.861	strong	.	C4orf48	4	.	NM_001168243	exon2	c.C149T	p.P50L	CGCCGCCGCTGCT	.	PASS	Atlas-SNP
XPO1	7514	hgsc.bcm.edu	37	2	61719472	61719472	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	262	8	269	0	0.0305344	0	.	.	none	XPO1,NS,carcinoma,0,17	XPO1	108	17	NM_003400	exon15	c.G1711A	p.E571K	TGAATTCGAACAG	.	scavenged	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152733644	152733644	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	83	6	93	0	0.0722892	0	.	.	none	.	KPRP	152	.	NM_001025231	exon2	c.C1580G	p.A527G	CCGAAGCTCCCTA	.	PASS	Atlas-SNP
WDR53	348793	hgsc.bcm.edu	37	3	196281315	196281315	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	619	28	669	0	0.0452342	0	.	.	none	.	WDR53	26	.	NM_182627	exon4	c.A844G	p.T282A	GTTTTGTGGGACT	.	PASS	Atlas-SNP
SIGLEC5	8778	hgsc.bcm.edu	37	19	52132668	52132668	+	Missense_Mutation	SNP	T	T	C	rs34553740	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	533	13	541	5	0.0243902	0.00924214	.	.	weak	SIGLEC5,NS,carcinoma,0,1	SIGLEC5	67	1	NM_003830	exon3	c.A643G	p.M215V	GTTTCATCTGACA	.	scavenged	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153741377	153741377	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	84	4	70	0	0.047619	0	.	.	none	.	INTS3	83	.	NM_023015	exon22	c.T2253G	p.D751E	TCCAGATGAAACC	.	PASS	Atlas-SNP
VMA21	203547	hgsc.bcm.edu	37	X	150573449	150573449	+	Silent	SNP	C	C	G	rs139323488	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	179	11	145	0	0.0614525	0	C|0.996;T|0.004	.	alt	.	VMA21	17	.	NM_001017980	exon3	c.C225G	p.A75A	GGTCGCCGTCCAT	.	PASS	Atlas-SNP
RBMXL2	27288	hgsc.bcm.edu	37	11	7110751	7110751	+	Missense_Mutation	SNP	A	A	G	rs11041171	bycluster;by1000genomes	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	6	6	0	0	1	.	A|0.078;G|0.922	0.922	strong	.	RBMXL2	47	.	NM_014469	exon1	c.A400G	p.T134A	GGCTACACGGCGG	.	PASS	Atlas-SNP
FAM13C	220965	hgsc.bcm.edu	37	10	61022354	61022354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	159	10	190	0	0.0628931	0	.	.	none	FAM13C_ENST00000422313,NS,carcinoma,0,2	FAM13C	124	2	NM_198215	exon10	c.C1076T	p.P359L	TTTCTAGGTGGAC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1018511	1018511	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	335	5	378	1	0.0149254	0.0026455	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.C4290T	p.T1430T	GGTAGTGGTGGCA	.	scavenged	Atlas-SNP
ZNF607	84775	hgsc.bcm.edu	37	19	38189064	38189064	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	188	8	206	0	0.0425532	0	.	.	none	.	ZNF607	82	.	NM_032689	exon5	c.T1968G	p.S656R	ATGGCTACTATTA	.	PASS	Atlas-SNP
RFC4	5984	hgsc.bcm.edu	37	3	186507948	186507948	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	241	20	224	0	0.0829876	0	.	.	none	.	RFC4	54	.	NM_181573	exon10	c.A979G	p.I327V	CTGTGATAATAGA	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7584037	7584037	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	57	6	69	0	0.105263	0	.	.	none	.	DSP	306	.	NM_004415	exon24	c.T6542G	p.V2181G	AGAAGGTCAGTTA	.	PASS	Atlas-SNP
VIT	5212	hgsc.bcm.edu	37	2	37035632	37035632	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	95	8	94	0	0.0842105	0	.	.	none	.	VIT	138	.	NM_053276	exon15	c.C1407T	p.N469N	AACAAACGGCTTC	.	PASS	Atlas-SNP
EPS15	2060	hgsc.bcm.edu	37	1	51860102	51860102	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	425	7	481	2	0.0164706	0.004158	.	.	none	EPS15,caecum,carcinoma,-1,1	EPS15	72	1	NM_001981	exon21	c.C2070A	p.H690Q	ATCATTGTGCTTC	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525639	248525639	+	Missense_Mutation	SNP	A	A	T	rs76878172	alternate_allele	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	486	467	605	599	0.960905	0.990083	.	.	alt	OR2T4,brain,glioma,0,1	OR2T4	126	1	NM_001004696	exon1	c.A757T	p.I253F	TTACTCATCCTCC	.	scavenged	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676244	56676244	+	Missense_Mutation	SNP	C	C	T	rs116165297	bycluster	TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	194	11	195	1	0.056701	0.00512821	C|0.995;T|0.005	0.005	weak	CS,NS,adenoma,0,3	CS	44	3	NM_004077	exon6	c.G548A	p.R183Q	TATGCTCGGGCAA	.	scavenged	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109382170	109382170	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	334	5	343	2	0.0149701	0.0058309	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,6	RANBP2	488	6	NM_006267	exon20	c.A5175G	p.E1725E	GAAGGAAGGACAG	.	scavenged	Atlas-SNP
ZNF680	340252	hgsc.bcm.edu	37	7	63981682	63981682	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TV-01A-11D-A382-10	TCGA-GS-A9TV-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	856d7068-5d31-4bc0-b50c-e02ed89ced3f	a592e794-fb42-4d16-95b3-c2059390b14c	185	4	213	0	0.0216216	0	.	.	none	ZNF680,mucosal,malignant_melanoma,0,1	ZNF680	58	1	NM_178558	exon4	c.C1450A	p.H484N	TAGCATGAATTCT	.	scavenged	Atlas-SNP
